Citrus Sinensis ID: 037935

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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-----
Protein Sequence
MLSGFKMLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEVKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTKGELSTPLRLNV
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccEEcccccccccccccccccccHHHHHHHHHHHHHHccccccEEEEEEcccccHHHHHHHHHHHHHHHccccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccEEEEEEcccccccccccccccccccccccEEEEEcccHHHHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHHccccccccccccccccHHHHHcccccccccHHHHHHHHccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHcccccccccccEEEEcHHHHHHHHHHHccccEEEEEEcccccccccccccccEEEEEcccccccccccccccccccEEEccccccccccccccHHHcccccccEEEccccccccccHHHHccccccEEcccccccccccccHHHcccccccEEEccccccccHHccccccccccccccccccccccEEEEEEccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccccccccccccccEEEEEcccccEEEcccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccccEEEEEcccccccccHHHHHccccccEEEEccccccEEEccccccHHHHccccccccccccccccccccccccccccccccccccEEEEEEcccccccccccccccccccEEEEEcccccccccccccccccccccEEEEEccccccEEEccccccccccccccccccccEEEEccccccccccccccccccccccEEEEEccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccEcccHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHccHHHHccccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEEccccHHcHHHHcccccccccccEEEEEEccHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHcccHHHHHHHHHHHccccHHccccccccccHHEEEcHcccccHHHHHHHHHHHccccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHcccccccEEEHHHHHHHHHHHHHcccEEEEEEccccccccccccccccEEEEEEccccccccccccccccccEEEEccccccccccccHHHHHcccccEEEEEccccccccccccccccccEEEEccccHHHHcccccHccccccccEEEEcccccHccccccccccccccHHHHHccccccEEEEEcccccccccccccHHHcEEEcccccHHcccccHHHHHHHHHccHHHccHHccccHHHHcHccHcccccccccccccccccccEEEEEEccccccccccccHHcccccccEEEEcccccccEccccccccccccccccccccEEEEcccHHHHHccccccccccccccEEEEcccccHccccccccccccHHHHccccccccccccccEEEEcccccccccccccccccccccEEEEEEccccccccccHccccccccEEEEcccccccccccHccccccccccccccEEEEcccccHHccccccccccccccccccEEEEcccccccccccccccccccccEEEEccccccccccccccccccccccEEEEcccccHHHccccccccccccccccccccccEEEEccccccccccccccccccccccEEEEccccccccccccccccccEccc
Coil and Loop (DISEMBL)
MLSGFKMLEIIVTLVLELVkclappterQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFvedeestnkrclkglcpnlktryQLSKKAETEVKALVELGEEvkkfdivshrttpeeiwlksnkgYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVfsevsqtpdIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKyldldtigipfgndhegynfligNLSEEEAWRLFKImngddvenckfkptAINVAQACGGLPIALTTVARALRNKSLHEWKNALRelqtpsvvnfegvpaetySSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGlglfhgvnKMEDARNKLYALVHELRDCCLllegdrnetfyMHDVVCDVAVSIACRDQHVFLVRndavwewpdgdalkKCYAISLLNssihevslefecpqleflhidpkitfaelnipdnffkgmkklrvVDLTRVrlfslpssigqltklrmldltdclqlkfivpnilssFTRLEELYmgscsikwevrkgnsersnASLDELMHLQRLTtleidveddsilpdglftkklerfdisigdgsfdstkiigndwfqtfnIQSIYIFCIVMALELnainvdeiwhynqlpamvpcfQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISEnrtdqvtayfvfprvttlkldglpelrclypgmhtsewpalknlvacncdkitlsqndendqfgvpaqqplfsfkkilpnleglalsgkditmilqddfpqhlfgslkqlrvgdddlacfpldllERFHNLEFlylsdcsyevvfsnegyLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNllsllpsssvsfrnltRLETFACKKLMNLLTSSKAKSLERLVSLRIfgcpamteviisdedetANLKEEIVFSKLsalslfdldsltsfssgnyafklpslqdlwvigcpkmklftkgelstplrlnv
Flexible Loop (DISEMBL)
MLSGFKMLEIIVTLVLELVKclappterqlvylRKRNYNANLENLKAEMEKLKAERTSIQRRvseakekgeeieEKVEKWLVSANGIIDQAAkfvedeestnkrclkglcpnlktryqlskKAETEVKALVElgeevkkfdivshrttpeeiwlksnkGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQARekklfdrvvfsevsqtpdikkiqgeiaeklglelsdeaeYRRASRlyerlknenKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNAlrelqtpsvvnfEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLfslpssigqltkLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTtleidveddsiLPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISenrtdqvtayfVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMklftkgelstplrlnv
Low Complexity Region (SEG)
MLSGFKMleiivtlvlelvKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSeakekgeeieekvekWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEVKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNllsllpsssvsFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVfsklsalslfdldsltsfssGNYAFKLPSLQDLWVIGCPKMKLFTKGELSTPLRLNV
Disordered region (IsUnstruct)
****FKMLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANL**********************************VEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEVKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVR************ELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTK***********
Disordered Region (DISOPRED)
**SGFKMLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEVKALVELGEEVKKFDI*************************STLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL**************YERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNGD*V*NCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTP******G**AETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVRND*VWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWE*************DELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTK*********FNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQV**YFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLS*************QPLFSFKKILPNLEGLALSGKDITMILQD*FP*HLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVI*************IVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTKGELSTPL*L**
Disordered Region (DISEMBL)
MLSGFKMLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKL*********************EEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEVKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTKGELSTPLRLNV
Disordered Region (DISPRO)
*LSGFKMLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEVKALVELGEEVKKF********************EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTKGELSTPL****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLSGFKMLEIIVTLVLELVKCLAPPTExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEVKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTKGELSTPLRLNV
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	1085	2.2.26 [Sep-21-2011]
Q9T048	985	Disease resistance protei	yes	no	0.551	0.607	0.283	2e-59
O81825	919	Probable disease resistan	no	no	0.663	0.783	0.251	1e-51
O64973	889	Disease resistance protei	no	no	0.681	0.831	0.266	1e-51
O22727	967	Probable disease resistan	no	no	0.666	0.747	0.270	2e-49
Q42484	909	Disease resistance protei	no	no	0.623	0.743	0.252	8e-47
Q940K0	889	Probable disease resistan	no	no	0.684	0.835	0.277	2e-46
O64789	925	Probable disease resistan	no	no	0.673	0.790	0.270	8e-46
Q9C8K0	854	Probable disease resistan	no	no	0.664	0.844	0.260	5e-43
P60838	894	Probable disease resistan	no	no	0.478	0.580	0.292	1e-42
Q9LVT3	948	Probable disease resistan	no	no	0.692	0.792	0.254	2e-42

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

 Score =  231 bits (589), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 200/706 (28%), Positives = 339/706 (48%), Gaps = 108/706 (15%)

Query: 38  YNANLENLKAEMEKLKAERTSIQRRVSEAKE----KGEEIEEKVEKWLVSANGIIDQAAK 93
           + +N++ L   +E+L    T ++  +SE  E    K + +  K+ +W   A  +I +A  
Sbjct: 29  FKSNVKALNESLERL----TELKGNMSEDHETLLTKDKPLRLKLMRWQREAEEVISKARL 84

Query: 94  FVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEVKALVELGEEVKKFDIVSHRTTPEEIW 153
            +E+  S    C   L P +  +     K   EVK L + G E    D++S  +TPE + 
Sbjct: 85  KLEERVS----CGMSLRPRMSRKLV---KILDEVKMLEKDGIEF--VDMLSVESTPERV- 134

Query: 154 LKSNKGYEAFESRVST--LKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREK-- 209
            +   G       +++  L  I++ LT      IGV+GMGG+GKTTLV+    + RE+  
Sbjct: 135 -EHVPGVSVVHQTMASNMLAKIRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGA 193

Query: 210 -KLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS-DEAEYRRASRLYERLKNENKILVIL 267
            + F  V+F  VS+  D +++Q +IAE+L ++   +E+E + A R+Y  L  E K L+IL
Sbjct: 194 TQPFGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEESEEKLARRIYVGLMKERKFLLIL 253

Query: 268 DNIWKYLDLDTIGIPFGNDHEGYNFLIGN-------------------LSEEEAWRLFKI 308
           D++WK +DLD +GIP   +++G   ++ +                   L EE+AW LF  
Sbjct: 254 DDVWKPIDLDLLGIPRTEENKGSKVILTSRFLEVCRSMKTDLDVRVDCLLEEDAWELFCK 313

Query: 309 MNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRN-KSLHEWKNALRELQTPSVVNF 367
             GD V +   +  A  V+Q CGGLP+A+ TV  A+R  K++  W + L +L + SV   
Sbjct: 314 NAGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKLWNHVLSKL-SKSVPWI 372

Query: 368 EGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYL--IDLLRYSMGLGLFHGVNKM 425
           + +  + +  ++LS+ +L+ ++ K  FLLC+L    + +   +++RY M  G    +   
Sbjct: 373 KSIEEKIFQPLKLSYDFLE-DKAKFCFLLCALFPEDYSIEVTEVVRYWMAEGFMEELGSQ 431

Query: 426 EDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACR---DQHVFLVRNDAV 482
           ED+ N+    V  L+D CLL +GDR +T  MHDVV D A+ I      D H  ++    +
Sbjct: 432 EDSMNEGITTVESLKDYCLLEDGDRRDTVKMHDVVRDFAIWIMSSSQDDSHSLVMSGTGL 491

Query: 483 WEWPDGDALKKCYAISLLNS---SIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKG 539
            +            +SL+N+   S+ ++  EF C +   L +       E  +P  F + 
Sbjct: 492 QDIRQDKLAPSLRRVSLMNNKLESLPDLVEEF-CVKTSVLLLQGNFLLKE--VPIGFLQA 548

Query: 540 MKKLRVVDL--TRV---------RLFSL-------------------------------- 556
              LR+++L  TR+         RLFSL                                
Sbjct: 549 FPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKLVKLPSLETLAKLELLDLCGTH 608

Query: 557 ----PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSER 612
               P  + +L + R LDL+  L L+ I   ++S  + LE L M S   +W V +G +++
Sbjct: 609 ILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSLETLDMTSSHYRWSV-QGETQK 667

Query: 613 SNASLDELMHLQRLTTLEIDVEDDSILPD--GLFTKKLERFDISIG 656
             A+++E+  LQRL  L I +     L +    + K+L++F + +G
Sbjct: 668 GQATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIKRLKKFQLVVG 713

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 =  205 bits (522), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 226/899 (25%), Positives = 375/899 (41%), Gaps = 179/899 (19%)

Query: 38  YNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFVED 97
           + +N   L   +E+LK  +T +   +  +  + + +E K+  WL      +      +E 
Sbjct: 2   FRSNARALNRALERLKNVQTKVNEALKRSGIQEKSLERKLRIWLRKVEENVPLGELILEK 61

Query: 98  EESTNKRCLKGLCPNLKTRYQLSKKAET--EVKALVELGEEVKKFDIVSHRTTPEEIWLK 155
             S    C   L           K  E   +VK L E G+++ K  I  ++++ E +   
Sbjct: 62  RSS----CAIWLS---------DKDVEILEKVKRLEEQGQDLIK-KISVNKSSREIVERV 107

Query: 156 SNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFAR---QAREKKLF 212
               +   ++ +  L  +++ L   NV  IGV+GMGG+GKTTLV+       +    + F
Sbjct: 108 LGPSFHPQKTALEMLDKLKDCLKKKNVQKIGVWGMGGVGKTTLVRTLNNDLLKYAATQQF 167

Query: 213 DRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK 272
             V++  VS+  D+K++Q +IA++LG   + E   +    + ERL +    L+ILD++W 
Sbjct: 168 ALVIWVTVSKDFDLKRVQMDIAKRLGKRFTREQMNQLGLTICERLIDLKNFLLILDDVWH 227

Query: 273 YLDLDTIGIPFGNDHE--------------------GYNFLIGNLSEEEAWRLFKIMNGD 312
            +DLD +GIP   +                        N  +  L E+EAW LF    G+
Sbjct: 228 PIDLDQLGIPLALERSKDSKVVLTSRRLEVCQQMMTNENIKVACLQEKEAWELFCHNVGE 287

Query: 313 DVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHE-WKNALRELQ--TPSVVNFEG 369
              +   KP A +V+  C GLP+A+ T+ R LR K   E WK+ L  L+   PS+   E 
Sbjct: 288 VANSDNVKPIAKDVSHECCGLPLAIITIGRTLRGKPQVEVWKHTLNLLKRSAPSIDTEEK 347

Query: 370 VPAETYSSIELSFKYLKGEQLKKIFLLCSLIGN--SFYLIDLLRYSMGLGLFHGVNKMED 427
           +    + +++LS+ +L+ + +K  FL C+L     S  + +L+ Y +  GL  G +  ED
Sbjct: 348 I----FGTLKLSYDFLQ-DNMKSCFLFCALFPEDYSIKVSELIMYWVAEGLLDGQHHYED 402

Query: 428 ARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAV---SIACRDQHVFLVRNDAVWE 484
             N+   LV  L+D CLL +GD  +T  MHDVV D A+   S      H  ++    + E
Sbjct: 403 MMNEGVTLVERLKDSCLLEDGDSCDTVKMHDVVRDFAIWFMSSQGEGFHSLVMAGRGLIE 462

Query: 485 WPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELN-----IPDNFFKG 539
           +P    +     +SL+ + +  +      P      ++  +   + N     +P+ F + 
Sbjct: 463 FPQDKFVSSVQRVSLMANKLERL------PNNVIEGVETLVLLLQGNSHVKEVPNGFLQA 516

Query: 540 MKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDC------------------------- 574
              LR++DL+ VR+ +LP S   L  LR L L +C                         
Sbjct: 517 FPNLRILDLSGVRIRTLPDSFSNLHSLRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAI 576

Query: 575 ---------------------LQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERS 613
                                 QL+ I    +   + LE L M   +  W + KG     
Sbjct: 577 RELPRGLEALSSLRYICVSNTYQLQSIPAGTILQLSSLEVLDMAGSAYSWGI-KGEEREG 635

Query: 614 NASLDE---LMHLQRLTTLEIDVEDDSILPDGLFTKKLERF------------------- 651
            A+LDE   L HLQ L    +DV   S   D L TK+L +F                   
Sbjct: 636 QATLDEVTCLPHLQFLAIKLLDVLSFSYEFDSL-TKRLTKFQFLFSPIRSVSPPGTGEGC 694

Query: 652 ---------DISIG----------------------------DGSFDSTKIIGNDWFQTF 674
                    + SIG                              SF + K +   +F + 
Sbjct: 695 LAISDVNVSNASIGWLLQHVTSLDLNYCEGLNGMFENLVTKSKSSFVAMKALSIHYFPSL 754

Query: 675 NIQS-----IYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIF 729
           ++ S     + +F  +  L L+ +N++ I   N    M    Q L  L V GC +LK +F
Sbjct: 755 SLASGCESQLDLFPNLEELSLDNVNLESIGELNGFLGMR--LQKLKLLQVSGCRQLKRLF 812

Query: 730 SASTIQ-SLEQLQHLEIRLCKSLQEIISENRTD-QVTAYFVFPRVTTLKLDGLPELRCL 786
           S   +  +L  LQ +++  C  L+E+ + +       A  + P++T +KL  LP+LR L
Sbjct: 813 SDQILAGTLPNLQEIKVVSCLRLEELFNFSSVPVDFCAESLLPKLTVIKLKYLPQLRSL 871

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  205 bits (522), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 224/842 (26%), Positives = 382/842 (45%), Gaps = 103/842 (12%)

Query: 37  NYNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIE-EKVEKWLVSANGIIDQAAKFV 95
           N + NL +L+  M  LKA +  + RR+   +  G +    +V+ WL S   I +Q    +
Sbjct: 31  NLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQFNDLL 90

Query: 96  EDEESTNKR-CLKGLCP-NLKTRYQLSKKAETEVKALVELGEEVKKFDIVSHRTTPEEI- 152
              E   +R CL G C  +LK  Y+  K+    +K +  L  +   FD+VS  T   ++ 
Sbjct: 91  RSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQ-GFFDVVSEATPFADVD 149

Query: 153 ---WLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQ-ARE 208
              +  +  G E        L+   N L +    I+G+YGMGG+GKTTL+ +   + ++ 
Sbjct: 150 EIPFQPTIVGQEIM------LEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKI 203

Query: 209 KKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL---ELSDEAEYRRASRLYERLKNENKILV 265
              FD V++  VS++  ++KIQ +IAEK+GL   E S++ + + A  ++  L+   K ++
Sbjct: 204 DDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRR-RKFVL 262

Query: 266 ILDNIWKYLDLDTIGIPFGNDHEGYNFL-------------------IGNLSEEEAWRLF 306
           +LD+IW+ ++L  +G+P+ +   G                       +  L  EE+W LF
Sbjct: 263 LLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLF 322

Query: 307 KIMNGDDV--ENCKFKPTAINVAQACGGLPIALTTVARALR-NKSLHEWKNALRELQTPS 363
           ++  G +    +      A  VA+ C GLP+AL  +  A+   +++HEW +A+ ++ T S
Sbjct: 323 QMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAI-DVLTSS 381

Query: 364 VVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLID---LLRYSMGLGLFH 420
            ++F G+  E    ++ S+  L GE +K  FL CSL     YLID   L+ Y +  G  +
Sbjct: 382 AIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPED-YLIDKEGLVDYWISEGFIN 440

Query: 421 GVNKMEDARNKLYALVHELRDCCLLLEGDRNET-FYMHDVVCDVAVSIAC---RDQHVFL 476
                E   N+ Y ++  L   CLLLE +RN++   MHDVV ++A+ I+    + +   +
Sbjct: 441 EKEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALWISSDLGKQKEKCI 500

Query: 477 VRND-AVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDN 535
           VR    + E P          ISL+N+ I E+    EC  L  L +        + I   
Sbjct: 501 VRAGVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKNDV---VKISAE 557

Query: 536 FFKGMKKLRVVDLTRVR-LFSLPSSIGQLTKLRMLDLT-DCLQLKFIVPNILSSFTRLEE 593
           FF+ M  L V+DL+  + L  LP  I +L  LR  +L+  C+    +    L     L  
Sbjct: 558 FFRCMPHLVVLDLSENQSLNELPEEISELASLRYFNLSYTCIHQLPVGLWTLKKLIHLNL 617

Query: 594 LYMGS------CSIKWEVRKGNSERSNASLD-----ELMHLQRLTTLEIDVEDDSILPDG 642
            +M S       S  W +R      S   LD     EL  L+ L  + +D+    +    
Sbjct: 618 EHMSSLGSILGISNLWNLRTLGLRDSRLLLDMSLVKELQLLEHLEVITLDISSSLVAEPL 677

Query: 643 LFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIW--- 699
           L +++L               + I    F+    +S+ +  +     L  + +       
Sbjct: 678 LCSQRL--------------VECIKEVDFKYLKEESVRVLTLPTMGNLRKLGIKRCGMRE 723

Query: 700 ----------HYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCK 749
                       N+ P   PCF +L+R+ +  C  LK +   + +     L  LE+   K
Sbjct: 724 IKIERTTSSSSRNKSPT-TPCFSNLSRVFIAKCHGLKDL---TWLLFAPNLTFLEVGFSK 779

Query: 750 SLQEIISENRTDQVTAYFV-FPRVTTLKLDGLPELRCLYP-GMHTSEWPALKNLVACNCD 807
            +++IISE + ++ +A  V F ++ TL L  L  L+ +Y   +H   +P LK +    C+
Sbjct: 780 EVEDIISEEKAEEHSATIVPFRKLETLHLFELRGLKRIYAKALH---FPCLKVIHVEKCE 836

Query: 808 KI 809
           K+
Sbjct: 837 KL 838

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

 Score =  198 bits (503), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 232/858 (27%), Positives = 384/858 (44%), Gaps = 135/858 (15%)

Query: 36  RNYNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFV 95
           RN   NL  L+ EME L+A +  +Q +V+  + + ++  E V+ WL   N I  +    +
Sbjct: 29  RNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKDLL 88

Query: 96  E-DEESTNKRCLKGLCPN-LKTRYQLSKKAETEVKALVELGEEVKKFDIVSH---RTTPE 150
                   K CL GLC   + + Y+  K+    ++ + +L  E   FD VS    R+  E
Sbjct: 89  SVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSE-GNFDEVSQPPPRSEVE 147

Query: 151 EIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQ-AREK 209
           E   +   G E        LK   N L +  V I+G++GMGG+GKTTL K+   + A   
Sbjct: 148 ERPTQPTIGQEEM------LKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETG 201

Query: 210 KLFDRVVFSEVSQTPDIKKIQGEIAEKLGL---ELSDEAEYRRASRLYERLKNENKILVI 266
             FD V++  VSQ   + K+Q +IAEKL L      ++ E  +A+ ++  LK + + +++
Sbjct: 202 GTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGK-RFVLM 260

Query: 267 LDNIWKYLDLDTIGIPFGN---------------------DHEGYNFLIGNLSEEEAWRL 305
           LD+IW+ +DL+ IGIP+ +                     DH+     +  L  E+AW L
Sbjct: 261 LDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQ--VKCLEPEDAWEL 318

Query: 306 FKIMNGDDVENCKFKPTAIN----VAQACGGLPIALTTVARALRNKSL-HEWKNALRELQ 360
           FK   GD+    +  P  +     VAQ C GLP+AL+ +   + +K++  EW++A+ ++ 
Sbjct: 319 FKNKVGDN--TLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAI-DVL 375

Query: 361 TPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLI--GNSFYLIDLLRYSMGLGL 418
           T S   F  +  +    ++ S+  L+ E +K  FL C+L    +      L+   +  G 
Sbjct: 376 TRSAAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLINKWICEGF 435

Query: 419 FHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFY---MHDVVCDVAVSIAC---RDQ 472
                 ++ ARNK Y ++  L     LL  DR    +   MHDVV ++A+ IA    + +
Sbjct: 436 IGEDQVIKRARNKGYEMLGTLIRAN-LLTNDRGFVKWHVVMHDVVREMALWIASDFGKQK 494

Query: 473 HVFLVRND-AVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELN 531
             ++VR    + E P          +SL+ + I E++ E +C +L  L +         N
Sbjct: 495 ENYVVRARVGLHEIPKVKDWGAVRRMSLMMNEIEEITCESKCSELTTLFLQSN---QLKN 551

Query: 532 IPDNFFKGMKKLRVVDLTRVRLFS-LPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTR 590
           +   F + M+KL V+DL+    F+ LP  I  L  L+ LDL               S+TR
Sbjct: 552 LSGEFIRYMQKLVVLDLSHNPDFNELPEQISGLVSLQYLDL---------------SWTR 596

Query: 591 LEELYMG-----------------SCSIKW----------EVRKGNSERSNASLDELMHL 623
           +E+L +G                  CSI             +R+ N     + L EL  L
Sbjct: 597 IEQLPVGLKELKKLIFLNLCFTERLCSISGISRLLSLRWLSLRESNVHGDASVLKELQQL 656

Query: 624 QRLTTLEIDVEDDSILPDGLFTK-----KLERFDISIGDGSFDSTK------IIGNDWFQ 672
           + L  L I    + I  D    K     ++E F     D SF ++       ++ N +F 
Sbjct: 657 ENLQDLRITESAELISLDQRLAKLISVLRIEGFLQKPFDLSFLASMENLYGLLVENSYFS 716

Query: 673 TFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSAS 732
             NI+     C     E + ++++           +PCF +LT LI+  C  +K     +
Sbjct: 717 EINIK-----CRESETESSYLHIN---------PKIPCFTNLTGLIIMKCHSMK---DLT 759

Query: 733 TIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFV-FPRVTTLKLDGLPELRCLYPGMH 791
            I     L +L+IR  + + EII++ +   +T+    F ++  L L GLP+L  +Y    
Sbjct: 760 WILFAPNLVNLDIRDSREVGEIINKEKAINLTSIITPFQKLERLFLYGLPKLESIY--WS 817

Query: 792 TSEWPALKNLVACNCDKI 809
              +P L N+V   C K+
Sbjct: 818 PLPFPLLSNIVVKYCPKL 835

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 =  189 bits (481), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 202/800 (25%), Positives = 350/800 (43%), Gaps = 124/800 (15%)

Query: 117 YQLSKKAETEVKALVELGE--EVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQ 174
           Y+L KK    +K++ EL E  E  K D  S + T  EI +KS  G      +V    S  
Sbjct: 113 YKLCKKVSAILKSIGELRERSEAIKTDGGSIQVTCREIPIKSVVGNTTMMEQVLEFLS-- 170

Query: 175 NALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREK-KLFDRVVFSEVSQTPDIKKIQGEI 233
               +    IIGVYG GG+GKTTL++    +   K   +D +++ ++S+      IQ  +
Sbjct: 171 ---EEEERGIIGVYGPGGVGKTTLMQSINNELITKGHQYDVLIWVQMSREFGECTIQQAV 227

Query: 234 AEKLGLELSD-EAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIP---------- 282
             +LGL   + E    RA ++Y  L+ + + L++LD++W+ +DL+  G+P          
Sbjct: 228 GARLGLSWDEKETGENRALKIYRALR-QKRFLLLLDDVWEEIDLEKTGVPRPDRENKCKV 286

Query: 283 ---------FGNDHEGYNFLIGNLSEEEAWRLF--KIMNGDDVENCKFKPTAINVAQACG 331
                      N    Y   +  L ++ AW LF  K+   D +E+   +  A  +   CG
Sbjct: 287 MFTTRSIALCNNMGAEYKLRVEFLEKKHAWELFCSKVWRKDLLESSSIRRLAEIIVSKCG 346

Query: 332 GLPIALTTVARALRNKSL-HEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQL 390
           GLP+AL T+  A+ ++    EW +A  E+ T      +G+    ++ ++ S+  L+ + L
Sbjct: 347 GLPLALITLGGAMAHRETEEEWIHA-SEVLTRFPAEMKGMNY-VFALLKFSYDNLESDLL 404

Query: 391 KKIFLLCSLIG--NSFYLIDLLRYSMGLGLF---HGVNKMEDARNKLYALVHELRDCCLL 445
           +  FL C+L    +S  +  L+ Y +G G     HGVN +     K Y L+ +L+  CLL
Sbjct: 405 RSCFLYCALFPEEHSIEIEQLVEYWVGEGFLTSSHGVNTI----YKGYFLIGDLKAACLL 460

Query: 446 LEGDRNETFYMHDVVCDVAVSIACRD---QHVFLVRND-AVWEWPDGDALKKCYAISLLN 501
             GD      MH+VV   A+ +A      + + LV       E P  +  ++   ISLL+
Sbjct: 461 ETGDEKTQVKMHNVVRSFALWMASEQGTYKELILVEPSMGHTEAPKAENWRQALVISLLD 520

Query: 502 SSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDL------------- 548
           + I  +  +  CP+L  L +    +  +  IP  FF  M  LRV+DL             
Sbjct: 521 NRIQTLPEKLICPKLTTLMLQQNSSLKK--IPTGFFMHMPVLRVLDLSFTSITEIPLSIK 578

Query: 549 ----------TRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGS 598
                     +  ++  LP  +G L KL+ LDL     L+ I  + +   ++LE L +  
Sbjct: 579 YLVELYHLSMSGTKISVLPQELGNLRKLKHLDLQRTQFLQTIPRDAICWLSKLEVLNLYY 638

Query: 599 CSIKWEVRK-GNSERSNASLDELMHLQRLTTLEIDVED----DSILPDGLFTKKLERFDI 653
               WE++  G  E       +L +L+ LTTL I V       ++   G   K ++   +
Sbjct: 639 SYAGWELQSFGEDEAEELGFADLEYLENLTTLGITVLSLETLKTLFEFGALHKHIQHLHV 698

Query: 654 ---------------------------SIGDGSFDSTKI-IGNDWFQTFNIQSIYIFCIV 685
                                      S  D  +  T     NDW  +  + +++    +
Sbjct: 699 EECNELLYFNLPSLTNHGRNLRRLSIKSCHDLEYLVTPADFENDWLPSLEVLTLHSLHNL 758

Query: 686 MALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEI 745
             +  N+++ D             C +++  + +  C+KLK +   S +Q L +L+ +E+
Sbjct: 759 TRVWGNSVSQD-------------CLRNIRCINISHCNKLKNV---SWVQKLPKLEVIEL 802

Query: 746 RLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACN 805
             C+ ++E+ISE+ +  V    +FP + TL+   LPEL  + P   + +   ++ LV  N
Sbjct: 803 FDCREIEELISEHESPSVEDPTLFPSLKTLRTRDLPELNSILPSRFSFQ--KVETLVITN 860

Query: 806 CDKI-TLSQNDENDQFGVPA 824
           C ++  L   +   Q  +P 
Sbjct: 861 CPRVKKLPFQERRTQMNLPT 880

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 =  188 bits (478), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 231/832 (27%), Positives = 380/832 (45%), Gaps = 89/832 (10%)

Query: 36  RNYNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFV 95
           R    NL  L+ EME L+A +  +Q +V+  + + +   E V+ WL   N +  +    +
Sbjct: 28  RTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVWLDRVNSVDIECKDLL 87

Query: 96  E-DEESTNKRCLKGLCPN-LKTRYQLSKKAETEVKALVELGEEVKKFDIVSH---RTTPE 150
                   K CL GLC   + + Y+  KK    ++ + +L  E   FD VS    R+  E
Sbjct: 88  SVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSE-GNFDEVSQPPPRSEVE 146

Query: 151 EIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQARE-K 209
           E   +   G E        L+   N L +  V I+G++GMGG+GKTTL K+   +  E  
Sbjct: 147 ERPTQPTIGQE------DMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIG 200

Query: 210 KLFDRVVFSEVSQTPDIKKIQGEIAEKLGL---ELSDEAEYRRASRLYERLKNENKILVI 266
             FD V++  VS+   I K+Q +IAEKL L      ++ E  +A+ ++  LK + + +++
Sbjct: 201 GTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGK-RFVLM 259

Query: 267 LDNIWKYLDLDTIGIPFGN---------------------DHEGYNFLIGNLSEEEAWRL 305
           LD+IW+ +DL+ IGIP+ +                     DH+     +  L  E+AW L
Sbjct: 260 LDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQ--VNCLEPEDAWEL 317

Query: 306 FKIMNGDDV--ENCKFKPTAINVAQACGGLPIALTTVARALRNKSL-HEWKNALRELQTP 362
           FK   GD+    +      A  VAQ C GLP+AL  +   + +K++  EW++A+    T 
Sbjct: 318 FKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNT- 376

Query: 363 SVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLI--GNSFYLIDLLRYSMGLGLFH 420
           S   F  +  +    ++ S+  L  E +K  FL C+L       Y   L+ Y +  G   
Sbjct: 377 SAAEFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYWICEGFIG 436

Query: 421 GVNKMEDARNKLYALVHELRDCCLLLEGDRNETFY--MHDVVCDVAVSIAC---RDQHVF 475
               ++ ARNK YA++  L    LL    +  T+Y  MHDVV ++A+ IA    + +  F
Sbjct: 437 EDQVIKRARNKGYAMLGTLTRANLL---TKVGTYYCVMHDVVREMALWIASDFGKQKENF 493

Query: 476 LVRND-AVWEWP---DGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELN 531
           +V+    + E P   D  A++K   +SL+++ I E++ E +C +L  L +    +    N
Sbjct: 494 VVQAGVGLHEIPKVKDWGAVRK---MSLMDNDIEEITCESKCSELTTLFLQ---SNKLKN 547

Query: 532 IPDNFFKGMKKLRVVDLTRVRLFS-LPSSIGQLTKLRMLDLTDC-LQLKFIVPNILSSFT 589
           +P  F + M+KL V+DL+  R F+ LP  I  L  L+ LDL++  ++   I    L   T
Sbjct: 548 LPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNTSIEHMPIGLKELKKLT 607

Query: 590 RLEELYMGS-CSIKW---------EVRKGNSERSNAS-LDELMHLQRLTTLEIDVEDDSI 638
            L+  Y    CSI               G+    +AS L EL  LQ L  L I V  + I
Sbjct: 608 FLDLTYTDRLCSISGISRLLSLRLLRLLGSKVHGDASVLKELQQLQNLQELAITVSAELI 667

Query: 639 LPDGLFTKKLERFDI-SIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDE 697
             D    K +    I       FD + +   +   +  +++ Y        E+     + 
Sbjct: 668 SLDQRLAKLISNLCIEGFLQKPFDLSFLASMENLSSLRVENSYFS------EIKCRESET 721

Query: 698 IWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISE 757
              Y ++   +PCF +L+RL +  C  +K +   + I     L  L I   + + EII++
Sbjct: 722 ESSYLRINPKIPCFTNLSRLEIMKCHSMKDL---TWILFAPNLVVLLIEDSREVGEIINK 778

Query: 758 NRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKI 809
            +   +T+   F ++  L L  LP+L  +Y       +P L  +   NC K+
Sbjct: 779 EKATNLTSITPFLKLEWLILYNLPKLESIY--WSPLPFPVLLTMDVSNCPKL 828

Probable disease resistance protein.

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 = 8e-46,   Method: Compositional matrix adjust.
 Identities = 231/855 (27%), Positives = 374/855 (43%), Gaps = 124/855 (14%)

Query: 36  RNYNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFV 95
           R    NL  L+ EME L+A +  +Q +V+  + + ++  E V+ WL   N I  +    +
Sbjct: 30  RTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKDLL 89

Query: 96  E-DEESTNKRCLKGLCPN-LKTRYQLSKKA---ETEVKALVELGEEVKKFDIVSH---RT 147
                   K CL GLC   + + Y+  KK      EVK L   G     FD VS    R+
Sbjct: 90  SVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEG----NFDEVSQPPPRS 145

Query: 148 TPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR 207
             EE   +   G E        L+   N L +  V I+G++GMGG+GKTTL K+   +  
Sbjct: 146 EVEERPTQPTIGQEEM------LEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFA 199

Query: 208 E-KKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL---ELSDEAEYRRASRLYERLKNENKI 263
           E    FD V++  VSQ   + K+Q +IAEKL L      ++ E  +A+ ++  LK + + 
Sbjct: 200 EIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGK-RF 258

Query: 264 LVILDNIWKYLDLDTIGIPFGN---------------------DHEGYNFLIGNLSEEEA 302
           +++LD+IW+ +DL+ IGIP+ +                     DH+     +  L  E+A
Sbjct: 259 VLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQ--VNCLEPEDA 316

Query: 303 WRLFKIMNGDDV--ENCKFKPTAINVAQACGGLPIALTTVARALRNKSL-HEWKNALREL 359
           W LFK   GD+    +      A  VAQ C GLP+AL  +   + +K++  EW+ A+ ++
Sbjct: 317 WELFKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWEYAI-DV 375

Query: 360 QTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLI--GNSFYLIDLLRYSMGLG 417
            T S   F G+  +    ++ S+  L  E +K  FL C+L       Y   L+   +  G
Sbjct: 376 LTRSAAEFSGMENKILPILKYSYDSLGDEHIKSCFLYCALFPEDGQIYTETLIDKLICEG 435

Query: 418 LFHGVNKMEDARNKLYALVHELRDCCLLLEGD-------RNETFY---MHDVVCDVAVSI 467
                  ++ ARNK YA++  L    LL +            + Y   MHDVV ++A+ I
Sbjct: 436 FIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTELANLLTKVSIYHCVMHDVVREMALWI 495

Query: 468 AC---RDQHVFLVRNDA-VWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDP 523
           A    + +  F+V+  A + E P+         +SL+ + I E++ E +C +L  L +  
Sbjct: 496 ASDFGKQKENFVVQASAGLHEIPEVKDWGAVRRMSLMRNEIEEITCESKCSELTTLFLQ- 554

Query: 524 KITFAELNIPDNFFKGMKKLRVVDLTRVRLFS-LPSSIGQLTKLRMLDLTDCLQLKFIVP 582
             +    N+   F + M+KL V+DL+  R F+ LP  I  L  L+ LDL           
Sbjct: 555 --SNQLKNLSGEFIRYMQKLVVLDLSDNRDFNELPEQISGLVSLQYLDL----------- 601

Query: 583 NILSSFTRLEELYMG-----------------SCSIKW---------EVRKGNSERSNAS 616
               SFTR+E+L +G                  CSI               G+    +AS
Sbjct: 602 ----SFTRIEQLPVGLKELKKLTFLDLAYTARLCSISGISRLLSLRVLSLLGSKVHGDAS 657

Query: 617 -LDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDI-SIGDGSFDSTKIIGNDWFQTF 674
            L EL  L+ L  L I +  + I  D    K +    I       FD + +   +   + 
Sbjct: 658 VLKELQQLENLQDLAITLSAELISLDQRLAKVISILGIEGFLQKPFDLSFLASMENLSSL 717

Query: 675 NIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTI 734
            +++ Y        E+     +    Y  +   +PCF +L+RL +  C  +K +   + I
Sbjct: 718 WVKNSYFS------EIKCRESETDSSYLHINPKIPCFTNLSRLDIVKCHSMKDL---TWI 768

Query: 735 QSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSE 794
                L  L I   + + EII++ +   +T+   F ++  L L  LP+L  +Y       
Sbjct: 769 LFAPNLVVLFIEDSREVGEIINKEKATNLTSITPFLKLERLILCYLPKLESIY--WSPLP 826

Query: 795 WPALKNLVACNCDKI 809
           +P L N+    C K+
Sbjct: 827 FPLLLNIDVEECPKL 841

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8K0|DRL5_ARATH Probable disease resistance protein At1g51480 OS=Arabidopsis thaliana GN=At1g51480 PE=2 SV=2

 Score =  177 bits (448), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 216/830 (26%), Positives = 370/830 (44%), Gaps = 109/830 (13%)

Query: 32  YLRKRNY----NANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGI 87
           +   RNY     ANL++L   ME+LK  R  + RRVS  ++KG +   +V+ W+     +
Sbjct: 21  FFSDRNYIHKMEANLDDLHTTMEELKNGRDDLLRRVSIEEDKGLQQLAQVKGWISRVEIV 80

Query: 88  IDQAAKFVEDEES-TNKRCLKGLCP-NLKTRYQLSKKAETEVKALVELGEEVKKFDIVSH 145
             +    +ED+ + T + CL G C  N  + Y   +K    ++ + EL  + K F++V+H
Sbjct: 81  ESRFKDLLEDKSTETGRLCLFGFCSENCISSYNYGEKVMKNLEEVKELLSK-KHFEVVAH 139

Query: 146 RTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQ 205
           +    ++     K         + ++    +L +  +  + ++GMGG+GKTTL+     +
Sbjct: 140 KIPVPKV---EEKNIHTTVGLYAMVEMAWKSLMNDEIRTLCLHGMGGVGKTTLLACINNK 196

Query: 206 ARE-KKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL--ELSDEAEYRRASRLYERLKNENK 262
             E +  FD V++  VS+   ++ IQ +I  +L L  E   E E ++AS +   LK + K
Sbjct: 197 FVELESEFDVVIWVVVSKDFQLEGIQDQILGRLRLDKEWERETENKKASLINNNLKRK-K 255

Query: 263 ILVILDNIWKYLDLDTIGIPFGNDHEGYNFL-------------------IGNLSEEEAW 303
            +++LD++W  +DL+ IG+P      G   +                   +  LS +EAW
Sbjct: 256 FVLLLDDLWSEVDLNKIGVPPPTRENGAKIVFTKRSKEVSKYMKADMQIKVSCLSPDEAW 315

Query: 304 RLFKIMNGDDVENCKFKPTAIN--VAQACGGLPIALTTVARALRNK-SLHEWKNALRELQ 360
            LF+I   D + +      A+   VA  C GLP+AL  +  A+  K ++ EW +A+  L 
Sbjct: 316 ELFRITVDDVILSSHEDIPALARIVAAKCHGLPLALIVIGEAMACKETIQEWHHAINVLN 375

Query: 361 TPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYL--IDLLRYSMGLGL 418
           +P+   F G+       ++ S+  LK  ++K  FL CSL    F +    L+ Y +  G 
Sbjct: 376 SPAGHKFPGMEERILLVLKFSYDSLKNGEIKLCFLYCSLFPEDFEIEKEKLIEYWICEGY 435

Query: 419 FHGVNKMED-ARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIAC-------- 469
            +  N+ ED   N+ Y ++  L    LL+E +      MH V+ ++A+ I          
Sbjct: 436 INP-NRYEDGGTNQGYDIIGLLVRAHLLIECELTTKVKMHYVIREMALWINSDFGKQQET 494

Query: 470 ----RDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKI 525
                  HV ++ ND  WE            +SL+++ I ++S   +C  L  L     +
Sbjct: 495 ICVKSGAHVRMIPNDINWE--------IVRQVSLISTQIEKISCSSKCSNLSTL----LL 542

Query: 526 TFAEL-NIPDNFFKGMKKLRVVDL-TRVRLFSLPSSIGQLTKLRMLDL--TDCLQL---- 577
            + +L NI   FF  M KL V+DL T + L  LP  I  L  L+ L+L  T    L    
Sbjct: 543 PYNKLVNISVGFFLFMPKLVVLDLSTNMSLIELPEEISNLCSLQYLNLSSTGIKSLPGGM 602

Query: 578 ----KFIVPNILSSFTRLEELYMGSCSI-KWEVRK---GNSERSNASLDELMHLQRLTTL 629
               K I  N+  S+ +LE L   S ++   +V K    N    +  ++EL H+  L  L
Sbjct: 603 KKLRKLIYLNLEFSY-KLESLVGISATLPNLQVLKLFYSNVCVDDILMEELQHMDHLKIL 661

Query: 630 EIDVEDDSILPDGLFTKKLERFDISIGDGSFD---------STKIIGNDWFQTFNIQSIY 680
            + ++D  IL      + ++R   SI               ST  +G    Q   I S  
Sbjct: 662 TVTIDDAMILER---IQGIDRLASSIRGLCLTNMSAPRVVLSTTALGG--LQQLAILSCN 716

Query: 681 IFCIVM---ALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVW---GCDKLKYIFSASTI 734
           I  I M   + E   ++  EI  +       P F+ L+ + +    G   L ++  A  +
Sbjct: 717 ISEIKMDWKSKERREVSPMEI--HPSTSTSSPGFKQLSSVNIMKLVGPRDLSWLLFAQNL 774

Query: 735 QSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELR 784
           +S      L +     ++EII++ +   +T    F ++ +L +  LPEL+
Sbjct: 775 KS------LHVGFSPEIEEIINKEKGSSITKEIAFGKLESLVIYKLPELK 818

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60838|DRL1_ARATH Probable disease resistance protein At1g12280 OS=Arabidopsis thaliana GN=At1g12280 PE=3 SV=1

 Score =  176 bits (446), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 169/578 (29%), Positives = 277/578 (47%), Gaps = 59/578 (10%)

Query: 39  NANLENLKAEMEKLKAERTSIQRRVS-EAKEKGEEIEEKVEKWLVSANGIIDQAAKFVED 97
           + N+  +K +ME LK +R  ++RRV  E   +  E   +V+ WL + + + ++  + +  
Sbjct: 33  SKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQVQGWLTNVSTVENKFNELLTT 92

Query: 98  EESTNKR-CLKGLCP-NLKTRYQLSKKAETEVKALVELGEEVKKFDIVSHRTTP----EE 151
            ++  +R CL G C  N+K  Y   K+    +K +  L  +   FD V+   TP    EE
Sbjct: 93  NDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQ-GDFDTVTL-ATPIARIEE 150

Query: 152 IWLKSN-KGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREK- 209
           + ++    G E    RV T       LT+    I+G+YGMGG+GKTTL+     +  EK 
Sbjct: 151 MPIQPTIVGQETMLERVWT------RLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKC 204

Query: 210 KLFDRVVFSEVSQTPDIKKIQGEIAEKL---GLELSDEAEYRRASRLYERLKNENKILVI 266
             F  V++  VS++PDI +IQG+I ++L   G E  +  E +RA  +Y  L  + K +++
Sbjct: 205 SGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVL-GKQKFVLL 263

Query: 267 LDNIWKYLDLDTIGIPFGNDHEGYNFL-------------------IGNLSEEEAWRLFK 307
           LD+IW+ ++L+ +G+P+ +   G   +                   +  L   EAW LF+
Sbjct: 264 LDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQ 323

Query: 308 IMNGDDVENCKFKPT----AINVAQACGGLPIALTTVARALRNKSL-HEWKNALRELQTP 362
           +  G++    K  P     A  VA  C GLP+AL  +   +  K +  EW+NA+  L + 
Sbjct: 324 MKVGEN--TLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSY 381

Query: 363 SVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLID--LLRYSMGLGLFH 420
           +   F G+  +    ++ S+  L  EQ+K  FL CSL    + +    L+ Y +  G   
Sbjct: 382 A-AEFPGM-EQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICEGFID 439

Query: 421 GVNKMEDARNKLYALVHELRDCCLLLEGDRN-ETFYMHDVVCDVAVSIAC----RDQHVF 475
                E A ++ Y ++  L   CLLLE   N E   MHDVV ++A+ IA       +   
Sbjct: 440 ENESRERALSQGYEIIGILVRACLLLEEAINKEQVKMHDVVREMALWIASDLGEHKERCI 499

Query: 476 LVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDN 535
           +     + E P          +SL+ + I  +S   EC +L  L +    +   L+I D 
Sbjct: 500 VQVGVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKNDSL--LHISDE 557

Query: 536 FFKGMKKLRVVDLT-RVRLFSLPSSIGQLTKLRMLDLT 572
           FF+ +  L V+DL+    L  LP+ I +L  LR LDL+
Sbjct: 558 FFRCIPMLVVLDLSGNSSLRKLPNQISKLVSLRYLDLS 595

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVT3|DRL38_ARATH Probable disease resistance protein At5g47260 OS=Arabidopsis thaliana GN=At5g47260 PE=3 SV=2

 Score =  175 bits (443), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 209/822 (25%), Positives = 377/822 (45%), Gaps = 71/822 (8%)

Query: 34  RKRNYN--ANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQA 91
           RK  YN   NLE L   M+ L A R  + +R+S+ +E G +  ++V++W+     I  +A
Sbjct: 20  RKYLYNLERNLEALHKVMQDLNAMRNDLLKRLSKEEEIGLQGLQEVKEWISMVEEIEPKA 79

Query: 92  AKFVEDEESTNKRCLK-GLCPNL-KTRYQLSKKAETEVKALVELGEEVKKFDIVSHRTTP 149
            + +++  S  +R  + G C  +  + Y+ S+K  T ++  VE       F+ V HR  P
Sbjct: 80  NRLLDESVSEIQRLSRYGYCSLIPASTYRYSEKVLTTMEG-VETLRSKGVFEAVVHRALP 138

Query: 150 EEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREK 209
             +        +   S+   L +    L D+NV  +G+YG GG+GKTTL+ +     R K
Sbjct: 139 PLV--IKMPPIQLTVSQAKLLDTAWARLMDINVGTLGIYGRGGVGKTTLLTKL----RNK 192

Query: 210 KLFDR--VVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVIL 267
            L D   +V   V    +++ IQ EI ++LGL+   E + R+A+ +   LK E + +++L
Sbjct: 193 LLVDAFGLVIFVVVGFEEVESIQDEIGKRLGLQWRRETKERKAAEILAVLK-EKRFVLLL 251

Query: 268 DNIWKYLDLDTIGIPFGNDHEGYNFL--------------------IGNLSEEEAWRLFK 307
           D I + LDL+ IG+PF +   G   +                    I  LS EEAW LF+
Sbjct: 252 DGIQRELDLEEIGVPFPSRDNGCKIVFTTQSLEACDESKWVDAKVEITCLSPEEAWDLFQ 311

Query: 308 IMNGDDV--ENCKFKPTAINVAQACGGLPIALTTVARALRNK-SLHEWKNALRELQTPSV 364
              G++    +      A  VA  C GLP+AL  +  A+  K ++ EW+  +  L + S 
Sbjct: 312 ETVGENTLRSHQDIPKLARVVASTCRGLPLALNLIGEAMSGKRTVREWRYTIHVLAS-ST 370

Query: 365 VNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLI--DLLRYSMGLGLFHGV 422
             F  +   T   ++  +  +  E ++  FL C+L   +  +   DL+ Y +  G+    
Sbjct: 371 AEFPDMEDGTLPILKSIYDNMSDEIIRLCFLYCALFPENLDIGKEDLVNYWICEGILAKE 430

Query: 423 NKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVRNDAV 482
           ++ E+A  + Y ++ +L    LL+E        MH +V ++A+ IA   +H  +V  + +
Sbjct: 431 DR-EEAEIQGYEIICDLVRMRLLMESGNGNCVKMHGMVREMALWIA--SEHFVVVGGERI 487

Query: 483 WEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKK 542
            +  + +  +    +S+ ++ I  +S   +C +L  L            I   FF+ M  
Sbjct: 488 HQMLNVNDWRMIRRMSVTSTQIQNISDSPQCSELTTLVFRRNRHLKW--ISGAFFQWMTG 545

Query: 543 LRVVDLTRVR-LFSLPSSIGQLTKLRMLDLT-DCL--------QLKFIVPNILSSFTRLE 592
           L V+DL+  R L  LP  +  L  LR L+L+  C+        +LK ++   L   + L+
Sbjct: 546 LVVLDLSFNRELAELPEEVSSLVLLRFLNLSWTCIKGLPLGLKELKSLIHLDLDYTSNLQ 605

Query: 593 ELYMGSCSIKWEV-RKGNSERSNASL-DELMHLQRLTTLEIDVEDDSILPDGLFTKKLER 650
           E+ + +  +  +V R  +S   +  L +++  L+ L  L + V   S+L   L    ++R
Sbjct: 606 EVDVIASLLNLQVLRLFHSVSMDLKLMEDIQLLKSLKELSLTVRGSSVLQRLL---SIQR 662

Query: 651 FDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPC 710
              SI       T I+        ++ +I+  C +  L  N + +   W       ++P 
Sbjct: 663 LASSIRRLHLTETTIVDGG---ILSLNAIFSLCELDILGCNILEITIDWRCTIQREIIPQ 719

Query: 711 FQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQV---TAYF 767
           FQ++  + +  C+   Y+   + +     L  L +  C  ++E+IS+++       T+  
Sbjct: 720 FQNIRTMTIHRCE---YLRDLTWLLLAPCLGELSVSECPQMEEVISKDKAMAKLGNTSEQ 776

Query: 768 VFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKI 809
            F  +T L LDGLP+L  +Y       +P L+ LV   C ++
Sbjct: 777 PFQNLTKLVLDGLPKLESIY--WTPLPFPVLEYLVIRRCPEL 816

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	1085
255581680	1126	Disease resistance protein RPS2, putativ	0.952	0.917	0.358	1e-162
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.901	0.743	0.356	1e-153
359488027	1520	PREDICTED: disease resistance protein At	0.592	0.423	0.417	1e-150
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.705	0.451	0.361	1e-148
147787802	1517	hypothetical protein VITISV_005047 [Viti	0.943	0.675	0.327	1e-148
147782989	1351	hypothetical protein VITISV_012099 [Viti	0.937	0.752	0.341	1e-147
224083434	1144	cc-nbs-lrr resistance protein [Populus t	0.700	0.664	0.403	1e-146
359484051	1329	PREDICTED: probable disease resistance p	0.934	0.762	0.338	1e-144
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.903	0.731	0.359	1e-143
302143590	948	unnamed protein product [Vitis vinifera]	0.703	0.804	0.359	1e-142

>gi|255581680|ref|XP_002531643.1| Disease resistance protein RPS2, putative [Ricinus communis] gi|223528728|gb|EEF30739.1| Disease resistance protein RPS2, putative [Ricinus communis]

 Score =  580 bits (1495), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 403/1125 (35%), Positives = 608/1125 (54%), Gaps = 92/1125 (8%)

Query: 8    LEIIVTLVLELV-----KCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRR 62
            +EI+   V E V     + L     RQ+ Y+   N+ +N+++LK  +++LK E+T+++ R
Sbjct: 1    MEIVAVPVTEAVVSKVTENLVDSVWRQIAYVW--NHKSNIKDLKYAVDQLKDEKTAMEHR 58

Query: 63   VSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRC-LKGLCPNLKTRYQLSK 121
            V  A+  GEEIEE V+ W       I  A K ++D E  N  C   G   NLK R+QLS+
Sbjct: 59   VEAARRNGEEIEESVKNWQTIVEETIKVAQKILDDNEKANMTCCFIGCFSNLKRRHQLSR 118

Query: 122  KAETEVKALVELGEEVKKFDIVSH-RTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDV 180
            KA+ E+  + ++  +  KF+I+S+ R  P    ++S+K Y+AFESR   L+ I  A+   
Sbjct: 119  KAKKEIVEIDKV-RQGGKFEIISYLRPLP---GIRSDKDYKAFESRRVVLEEIMEAIKGT 174

Query: 181  NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLE 240
            +VS+IGVYGM G+GKTTL K+ A Q +E      V F+EV++  D+++IQ +IAE LGL+
Sbjct: 175  DVSLIGVYGMSGVGKTTLAKKVAEQVKEDGNIKVVAFAEVTKNVDVRRIQRDIAEWLGLQ 234

Query: 241  LSDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGN---- 296
               E+   RA+RL ERLK E K L+ILD+IW+ L L+ IGIPFGNDH+G   L+ +    
Sbjct: 235  FDVESIGVRAARLCERLKQEEKFLIILDDIWEKLKLEDIGIPFGNDHKGGKILMTSCSLK 294

Query: 297  ---------------LSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVA 341
                           L  EEAW LF+   G DVE+   KP A  VA  C GLPI +  VA
Sbjct: 295  VLKPMDVQRHFQLLELQLEEAWHLFEEKAG-DVEDPDLKPMATQVANRCAGLPILIMAVA 353

Query: 342  RALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCS-LI 400
            +AL+ K LH W +AL  L+      FE       S +E+ +  LK ++ K +F LC  L 
Sbjct: 354  KALKGKGLHAWSDALLRLKRSDNDEFE---PRVNSGLEICYNELKKDEEKSLFRLCGQLA 410

Query: 401  GNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVV 460
              S  + DLL+Y MGLGLF+ +N ++ +R++L  L+H L+  CLLLEG+ +    MHDV+
Sbjct: 411  PQSILIRDLLKYCMGLGLFNQINTVKQSRDRLLTLLHSLKSSCLLLEGEDDHHVRMHDVI 470

Query: 461  CDVAVSIACRDQHVFLVRNDAVW-EWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFL 519
               A+S+A +D +VF +   +V  EWP+    ++  A+SL  + I E+  E +CP L+  
Sbjct: 471  HRFALSVASKDHNVFNIAYHSVLEEWPEEVIFRQFTAVSLTIAKIPELPQELDCPNLQ-- 528

Query: 520  HIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKF 579
                  +F   NI       ++KL+V+ L       LP+ +G+LT+LR+LDL+ C +L+ 
Sbjct: 529  ------SFILRNIA--VIGELQKLQVLSLINSSNDQLPTEVGKLTRLRLLDLSRCQRLEV 580

Query: 580  IVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL 639
            I   +LS  T+LE+LYMG   +KWE  +   +RSNASLDEL  L++L TLE+ + D   L
Sbjct: 581  IPVGVLSCLTQLEDLYMGDSLVKWENEERGGQRSNASLDELKLLKKLVTLELHIIDAEKL 640

Query: 640  PDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINV---- 695
            P+ LF++KLERF I IG+           DW   + +       +  + EL  + V    
Sbjct: 641  PENLFSEKLERFRIFIGEDW---------DWSGKYVMSRTLKLKVNRSTELERVKVLLKR 691

Query: 696  DEIWHYNQLPAMVPC-----------FQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLE 744
             E  +   L  +              F++L  L V  C KL+Y+F+ S    L QLQ LE
Sbjct: 692  SEDLYLEDLKGVKNVLYELDWQGSFDFKNLKILKVHSCSKLRYVFTPSMCLGLVQLQELE 751

Query: 745  IRLCKSLQEIISEN-RTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVA 803
            ++ C  + EII+E    ++     +FP + ++ L+ LP L     G    + P+LK +  
Sbjct: 752  VKSCDVMAEIINEGLAMEETNKEVLFPLLNSIILESLPRLINFSSGSSVVQCPSLKEIRI 811

Query: 804  CNCDK----ITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKD-ITMILQDDFPQ 858
             +C        L + + N   G+   + +F      PNLE L +   D + MI       
Sbjct: 812  VDCPTAFTCTFLGEAEANATHGIIEPEVVF------PNLEELQILNMDNLKMIWSSQLQS 865

Query: 859  HLFGSLKQLRVGDDD--LACFPLDLLERFHNLEFLYLSDCS-YEVVFSNEGYLETHARKL 915
              FG +K L++   +  L  +P  +L    NLE L +  CS  EVVF  +       +  
Sbjct: 866  DSFGKVKVLKMEQSEKLLKIYPSGMLRSLRNLEDLIIKKCSTLEVVFDLKEVTNIKEKVA 925

Query: 916  ALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRL 975
            + +++L +  L +L+ +W  D   L   F  L  + V  C +L++L PSS+  F++LT L
Sbjct: 926  SQLRKLVMEDLPNLKHVWNEDRLGL-VSFDKLSSVYVSQCDSLITLAPSSAC-FQSLTTL 983

Query: 976  ETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSAL 1035
            +   C KL +L+ SS AKSL +L  + I  C  M E++ ++ DE     EEI+FS+L +L
Sbjct: 984  DLVKCNKLESLVASSTAKSLIQLTEMSIKECDGMKEILTNEGDEP---NEEIIFSRLRSL 1040

Query: 1036 SLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTKGELSTP 1080
             L  L SL SF S  + FK P L  + V  CPKM++F++G + TP
Sbjct: 1041 KLQCLPSLLSFCSSVHCFKFPFLTQVIVRQCPKMQVFSRGSVITP 1085

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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 =  548 bits (1412), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 413/1159 (35%), Positives = 593/1159 (51%), Gaps = 181/1159 (15%)

Query: 8    LEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEAK 67
            +EI++++V ++ + L  P +RQ+ Y+   N N N++NLK E+EKL   RT +   + EA+
Sbjct: 1    MEIVISIVAKVAELLVVPIKRQIGYVL--NCNTNIQNLKNEVEKLTDARTRVNHSIEEAR 58

Query: 68   EKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEV 127
              GEEIE +V  WL S +G+ID     V DE S  K+C  GLCP+LK RY+L K A+ E+
Sbjct: 59   RNGEEIEVEVFNWLGSVDGVIDGGGGGVADESS--KKCFMGLCPDLKIRYRLGKAAKKEL 116

Query: 128  KALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGV 187
              +V+L +E  +FD VS+R  P  I     K YEAFESR S L +I +AL D  V+++GV
Sbjct: 117  TVVVDL-QEKGRFDRVSYRAAPSGI--GPVKDYEAFESRDSVLNAIVDALKDGGVNMVGV 173

Query: 188  YGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEY 247
            YGM G+GKTTLVK+ A Q +E +LFD+ V + VS TPDI++IQGEIA+ LGL+L  E + 
Sbjct: 174  YGMPGVGKTTLVKKVAEQVKEGRLFDKEVLAVVSHTPDIRRIQGEIADGLGLKLDAETDK 233

Query: 248  RRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEG------------------ 289
             RAS+LYERLK   ++LVILD+IWK L L+ +GIP G+DHEG                  
Sbjct: 234  GRASQLYERLKKVTRVLVILDDIWKELKLEDVGIPSGSDHEGCKILMSSRNEYVLSREMG 293

Query: 290  --YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNK 347
               NF I  L   EAW LF+ M G  V+    +  A  VA+ C GLPI L TVARAL+NK
Sbjct: 294  SNRNFPIQVLPASEAWNLFEKMVGVAVKKHSVRLVAAEVARRCAGLPILLATVARALKNK 353

Query: 348  SLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCS-LIGNSFYL 406
             L+ WK AL++L   +  + + +  + Y  +ELS+K L+G+++K +FLLC  L  N+  +
Sbjct: 354  DLYAWKKALKQL---TRFDKDDIDDQVYLGLELSYKSLRGDEIKSLFLLCGQLRSNNILI 410

Query: 407  IDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVS 466
             DLLRY +GL LF G + +E+ RN L  LV EL+  CLLLEGD++ +  MHDVV   A+S
Sbjct: 411  SDLLRYGIGLDLFKGCSTLEETRNSLLTLVDELKASCLLLEGDKDGSVKMHDVVHSFAIS 470

Query: 467  IACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLE---FLHIDP 523
            +A RD HV  V  D   EWP  D L++  AISL    I ++    ECP L     L+ DP
Sbjct: 471  VALRDHHVLTVA-DEFKEWPANDVLQQYTAISLPFRKIPDLPAILECPNLNSFLLLNKDP 529

Query: 524  KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS------------------------ 559
                  L IPD+FF+ MK+L+++DLT V L  LPSS                        
Sbjct: 530  S-----LQIPDSFFREMKELKILDLTEVNLSPLPSSLQFLENLQTLCLDHCVLEDISIIG 584

Query: 560  ---------------------IGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGS 598
                                 IG++T+L++LDL++C +L+ I PN LSS TRLE+LYMG+
Sbjct: 585  ELNKLKVLSLMSSNIVRLPREIGKVTRLQLLDLSNCERLEVISPNALSSLTRLEDLYMGN 644

Query: 599  CSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFT--KKLERFDISIG 656
              +KWE    +S+R+NA L EL HL  L+TL + + D   +P  LF+  + LERF I IG
Sbjct: 645  SFVKWETEGSSSQRNNACLSELKHLSNLSTLHMQITDADNMPKDLFSSFQNLERFRIFIG 704

Query: 657  DGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLT- 715
            DG          DW               + L+LN +         QL   V     +T 
Sbjct: 705  DGW---------DWSVKDATSR------TLKLKLNTV--------IQLEEGVNTLLKITE 741

Query: 716  RLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTL 775
             L +   + +K I +    +   QL+HL ++ C  +Q II+  R    TA+     + +L
Sbjct: 742  ELHLQELNGVKSILNDLDGEGFPQLRHLHVQNCPGVQYIINSIRMGPRTAFL---NLDSL 798

Query: 776  KLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKIL 835
             L+ L  L  +  G   +E  +L NL     +     +N     F V   + L   ++I 
Sbjct: 799  FLENLDNLEKICHGQLMAE--SLGNLRILKVESCHRLKN----LFSVSMARRLVRLEEI- 851

Query: 836  PNLEGLALSGKDITMIL--------QDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFH- 886
                   +  K +  ++         D  P   F  L++L      L C P      FH 
Sbjct: 852  -----TIIDCKIMEEVVAEESENDAADGEPIIEFTQLRRL-----TLQCLP--QFTSFHS 899

Query: 887  NLE----------FLYLSDCSYEVVFSNE-GYLETHARKLALIKRLNLTRLNHL--QQLW 933
            N+E           L     S E+V  NE G   +      L   L   +L+ +  +++W
Sbjct: 900  NVEESSDSQRRQKLLASEARSKEIVAGNELGTSMSLFNTKILFPNLEDLKLSSIKVEKIW 959

Query: 934  KHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAK 993
                       ++L  + V +C+NL  LL SS V                         +
Sbjct: 960  HDQPSVQSPCVKNLASIAVENCRNLNYLLTSSMV-------------------------E 994

Query: 994  SLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAF 1053
            SL +L  L I  C +M E+++ ++     +  +++F KL  LSL  L  LT F + N   
Sbjct: 995  SLAQLKKLEICNCKSMEEIVVPEDIGEGKMMSKMLFPKLLILSLIRLPKLTRFCTSNL-L 1053

Query: 1054 KLPSLQDLWVIGCPKMKLF 1072
            +  SL+ L V  CP++K F
Sbjct: 1054 ECHSLKVLTVGNCPELKEF 1072

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488027|ref|XP_002269288.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  538 bits (1387), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 299/716 (41%), Positives = 431/716 (60%), Gaps = 73/716 (10%)

Query: 7   MLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEA 66
           M EI+VT+  ++ + L  P  R   YL   NY +N+++L+ ++EKL   R  ++R V EA
Sbjct: 1   MEEIVVTIAAKVAEYLVAPIGRSFGYLF--NYRSNIDDLRQQVEKLGDARARLERSVDEA 58

Query: 67  KEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETE 126
              G+EIE  V+KWL+  +G +++A  F E E+  N+ C  G CPNLK++YQLS++A+  
Sbjct: 59  IRNGDEIEADVDKWLLRVSGFMEEAGIFFEVEKKANQSCFNGSCPNLKSQYQLSREAKKR 118

Query: 127 VKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIG 186
            + + E+  +  KF+ VS+R     I     KG+EA ESR++TL  I  AL D +V+IIG
Sbjct: 119 ARVVAEIQGD-GKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEALRDAHVNIIG 177

Query: 187 VYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAE 246
           V+GM G+GKTTL+K+ A+QA E+KLFD+VV + +S TP++KKIQGE+A+ LGL+  +E+E
Sbjct: 178 VWGMAGVGKTTLMKQVAKQAEEEKLFDKVVMAYISSTPELKKIQGELADMLGLKFEEESE 237

Query: 247 YRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEG----------------- 289
             RA+RL ERLK   KIL+ILD+IW  LDL+ +GIPFG+DH+G                 
Sbjct: 238 MGRAARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTSRNKHILSNEM 297

Query: 290 ---YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRN 346
               +F + +L EEEA  LFK M GD +E    +  AI+VA+ C GLPIA+ TVA+AL+N
Sbjct: 298 GTQKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVAKALKN 357

Query: 347 KSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYL 406
           K L  W++ALR+L+     N +G+ A  YS++ELS+K+L+G+++K +FLLC L+ N  Y+
Sbjct: 358 KGLSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSYKHLEGDEVKSLFLLCGLMSNKIYI 417

Query: 407 IDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVS 466
            DLL+Y MGL LF G N +E+A+N++  LV  L+   LLL+   N    MHDVV DVA++
Sbjct: 418 DDLLKYGMGLRLFQGTNTLEEAKNRIDTLVDSLKASKLLLDTGHNSFVRMHDVVRDVAIA 477

Query: 467 IACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKIT 526
           I  +   VF +R D + EWP  D L+ C  +SL  + I E+ +E  CP+LE       I 
Sbjct: 478 IVSKVHRVFSLREDELVEWPKMDELQTCTKMSLAYNDICELPIELVCPELELFLFYHTID 537

Query: 527 FAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS--------------------------- 559
           +  L IP+ FF+ MKKL+V+DL+ +   SLPSS                           
Sbjct: 538 Y-HLKIPETFFEEMKKLKVLDLSNMHFTSLPSSLRCLTNLRTLSLNWCKLGDISIIVELK 596

Query: 560 ------------------IGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSI 601
                             I QLT LR+ DL DC +L+ I PN++SS ++LE L M +   
Sbjct: 597 KLEFFSFMGSNIEKLPREIAQLTHLRLFDLRDCSKLREIPPNVISSLSKLENLCMENSFT 656

Query: 602 KWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGD 657
            WEV      +SNAS+ E  +L  LTTL+I + D  +L   +  +KL R+ I IGD
Sbjct: 657 LWEVEG----KSNASIAEFKYLPYLTTLDIQIPDAELLLTDVLFEKLIRYRIFIGD 708

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 =  532 bits (1370), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 331/915 (36%), Positives = 498/915 (54%), Gaps = 150/915 (16%)

Query: 7   MLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEA 66
           M+EI++++  ++ + L  P  RQL YL   NY AN+E+L  ++EKL+  R  +Q  V EA
Sbjct: 1   MVEIVLSVAAKVSEYLVDPAIRQLGYLF--NYRANIEDLSQQVEKLRDARARLQHSVDEA 58

Query: 67  KEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETE 126
              G  IE+ V KW+  A+G I  A KF+EDE+   K C  GLCPNLK+RYQLS++A  +
Sbjct: 59  IGNGHIIEDDVRKWMKRADGFIQNACKFLEDEKEARKSCFNGLCPNLKSRYQLSREARKK 118

Query: 127 VKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIG 186
               VE+     +F+ VS+R   +EI        EA ESR+ TL  +  AL D N++ IG
Sbjct: 119 AGVAVEI-HGAGQFERVSYRAPLQEI---RTAPSEALESRMLTLNEVMEALRDANINRIG 174

Query: 187 VYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAE 246
           V+GMGG+GK+TLVK+ A QA ++KLF +VV   V QTPD K IQ +IA+KLG++  + +E
Sbjct: 175 VWGMGGVGKSTLVKQVAEQAEQEKLFRKVVMVPVIQTPDFKGIQQQIADKLGMKFEEVSE 234

Query: 247 YRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEG----------------- 289
             RA RL++R+K EN IL+ILD++W  L+L+ +GIP  +DH+G                 
Sbjct: 235 QGRADRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVLSNEM 294

Query: 290 ---YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRN 346
               +F + +L E+E W LFK   GD +EN + +P A++VA+ C GLPIA+ TVA+AL+N
Sbjct: 295 STQKDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTVAKALKN 354

Query: 347 KSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYL 406
           K++  WK+AL++L + +  N  G+  + YSS++LS+++L+G+++K +FLLC L  N  Y+
Sbjct: 355 KNVSIWKDALQQLNSQTSTNITGMETKVYSSLKLSYEHLEGDEVKSLFLLCGLFSNYIYI 414

Query: 407 IDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVS 466
            DLL+Y MGL LF G N +E+A+N++  LV  L+   LLLE   N    MHDVV  VA+ 
Sbjct: 415 RDLLKYGMGLRLFQGTNTLEEAKNRIDTLVDNLKSSNLLLETGHNAVVRMHDVVRSVALD 474

Query: 467 IACRDQHVFLVRNDA--VWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPK 524
           I+ +D HVF ++     V +WP  D L+K   ++     IHE+     CP+L+ L I   
Sbjct: 475 ISSKDHHVFTLQQTTGRVEKWPRIDELQKVIWVNQDECDIHELPEGLVCPKLK-LFICCL 533

Query: 525 ITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS------------------------- 559
            T + + IP+ FF+GMK+L+V+D T++ L SLPSS                         
Sbjct: 534 KTNSAVKIPNTFFEGMKQLQVLDFTQMHLPSLPSSLQCLANLQTLLLYGCKLGDIGIITE 593

Query: 560 --------------------IGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSC 599
                               I QLT LR+LDL+D   +K I   ++SS ++LE+L M + 
Sbjct: 594 LKKLEILSLIDSDIEQLPREIAQLTHLRLLDLSDSSTIKVIPSGVISSLSQLEDLCMENS 653

Query: 600 SIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGD-- 657
             +WE       +SNA L EL HL  LT+L+I + D  +LP  +  + L R+ I +GD  
Sbjct: 654 FTQWE----GEGKSNACLAELKHLSHLTSLDIQIPDAKLLPKDVVFENLVRYRIFVGDVW 709

Query: 658 --------------GSFDS------------------------------TKIIGNDWF-- 671
                           FD+                              +K+ G  +F  
Sbjct: 710 IWEENYKTNRTLKLKKFDTSLHLVDGISKLLKITEDLHLRELCGGTNVLSKLDGEGFFKL 769

Query: 672 QTFNIQ-SIYIFCIVMALELNA----------------INVDEIWHYNQLP---AMVPCF 711
           +  N++ S  I  IV +L+L +                IN+ E+ H  Q P   +    F
Sbjct: 770 KHLNVESSPEIQYIVNSLDLTSPHGAFPVMETLSLNQLINLQEVCH-GQFPVESSRKQSF 828

Query: 712 QSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRT---DQVTAYFV 768
             L ++ V  CD LK++FS S  + L QL+ +++  CKS+ E++S+ R    +      +
Sbjct: 829 GCLRKVEVEDCDGLKFLFSLSVARGLSQLEEIKVTRCKSMVEMVSQERKEIREDADNVPL 888

Query: 769 FPRVTTLKLDGLPEL 783
           FP +  L L+ LP+L
Sbjct: 889 FPELRHLTLEDLPKL 903

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147787802|emb|CAN71755.1| hypothetical protein VITISV_005047 [Vitis vinifera]

 Score =  531 bits (1367), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 403/1229 (32%), Positives = 609/1229 (49%), Gaps = 205/1229 (16%)

Query: 7    MLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEA 66
            M EI+  +  ++ KCL  P +RQL YL   NY  N+E+L  E+EKL+  R   Q  V+EA
Sbjct: 1    MEEIVAKVAAKVSKCLVVPVKRQLGYLF--NYRTNIEDLSQEVEKLRHARDGHQHSVNEA 58

Query: 67   KEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETE 126
               G +IE+ V KWL  A+G I  A KF+EDE+   K C  GLCPNLK+RYQLS++A  +
Sbjct: 59   IGNGHKIEDYVCKWLTRADGFIQDACKFLEDEKEAQKSCFNGLCPNLKSRYQLSREARKK 118

Query: 127  VKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIG 186
             +  V++  +  +F  VS+R   +EI    +   EA  SRV TL  +  AL D  ++ IG
Sbjct: 119  ARVAVQMHGD-GQFVRVSYRAPLQEI---RSAPSEALRSRVLTLDEVMEALRDAKINKIG 174

Query: 187  VYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAE 246
            V+G+GG+GKTTLVK+ A QA ++KLFD+VV + V QTPD+KKIQGE+A+ LG++  +E+E
Sbjct: 175  VWGLGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLQTPDLKKIQGELADLLGMKFEEESE 234

Query: 247  YRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEG----------------- 289
              RA+RLY+R+ NE  IL+ILD+IW  LDL+ IGIP  + H+G                 
Sbjct: 235  QGRAARLYQRMNNEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEHILSNEM 294

Query: 290  ---YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRN 346
                +F +  L E+E W LFK   G  +EN + +P A++VA+ C GLP+A+ TVA AL+ 
Sbjct: 295  DTQKDFRVQPLQEDETWILFKNTAG-SIENPELQPIAVDVAKECAGLPLAIVTVATALKG 353

Query: 347  -KSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIG-NSF 404
             KS+  W++A  +L++ +  N  G+ +  YSS++LS+++LKG ++K  FLLC LI  N F
Sbjct: 354  EKSVSIWEDARLQLKSQTSTNITGLTSNVYSSLKLSYEHLKGIEVKSFFLLCGLISQNDF 413

Query: 405  YLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVA 464
            ++ DLL+Y +GL LF G N +E+ +N++  LV+ L+   LLLE   N    MHD+V   A
Sbjct: 414  HIWDLLKYGVGLRLFQGTNTLEEVKNRIDTLVNNLKSSNLLLETGHNAVVRMHDLVRSTA 473

Query: 465  VSIACRDQHVFLVRNDAVW--EWPDGDALKKCY------AISLLNSSIHEVSLEFEC-PQ 515
              IA    HVF ++N  V    WP  D L+K         + L    +  + L  +C   
Sbjct: 474  RKIASDQHHVFTLQNTTVRVEGWPRIDELQKVTWMKQLKVLHLSRMQLPSLPLSLQCLTN 533

Query: 516  LEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCL 575
            L  L +D      ++ I       +KKL ++ L    +  LP  I QLT LRMLDL+   
Sbjct: 534  LRTLCLD-GCKVGDIVI----IAKLKKLEILSLMDSDMEQLPREIAQLTHLRMLDLSGSS 588

Query: 576  QLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVED 635
            +LK I  +++SS ++LE L M +   +WE       +SNA L EL HL  LT+L+I + D
Sbjct: 589  KLKVIPSDVISSLSQLENLCMANSFTQWE----GEGKSNACLAELKHLSHLTSLDIQIPD 644

Query: 636  DSILPDGLFTKKLERFDISIGD-----GSFDSTKIIGNDWFQT----------------- 673
              +LP  +    L R+ I +GD     G F++   +  + F T                 
Sbjct: 645  AKLLPKDIVFDTLVRYRIFVGDVWSWGGIFEANNTLKLNKFDTSLHLVDGISKLLKRTED 704

Query: 674  FNIQSIYIFCIVMA-------LELNAINVD------------------------EIWHYN 702
             ++  +  F  V++       L+L  +NV+                        E    N
Sbjct: 705  LHLSELCGFTHVLSKLNREGFLKLKHLNVESSPEIQYIANSMDLTSTHGVFPVMETLSLN 764

Query: 703  QL-----------PAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSL 751
            QL           PA    F  L ++ V  CD LK++FS S  + L +L  +++  CKS+
Sbjct: 765  QLINLQEVCHGQFPA--GSFGCLRKVEVEDCDGLKFLFSLSVARGLSRLVEIKVTRCKSM 822

Query: 752  QEIISENR---TDQVTAYFVFPRVTTLKLDGLPELR--CLYPGMHTSEWPA--------- 797
             E++S+ R    +      +FP +  L L  LP+L   C       S  P+         
Sbjct: 823  VEMVSQGRKEIKEDTVNVPLFPELRHLTLQDLPKLSNFCFEENPVHSMPPSTIVGPSTPP 882

Query: 798  ------------------LKNLVACNCDKI------TLSQNDENDQFGVPAQQPLFSFKK 833
                              L++L   NC  +      +L QN       V   +     ++
Sbjct: 883  LNQPEIRDDQRLLSLGGNLRSLKLKNCKSLVKLFPPSLLQN-----LQVLTVENCDKLEQ 937

Query: 834  I-LPNLEGLALSGKD-ITMILQDDFPQHLFGSLKQLRVG--DDDLACFPLDLLERFHNLE 889
            +  P+LE L + G D +  I     PQ  F  LK+++V    + L  FP  +L R  +L 
Sbjct: 938  VAFPSLEFLNIVGLDNVKKIWHSQLPQDSFSKLKRVKVATCGELLNIFPSSMLNRLQSLR 997

Query: 890  FLYLSDC-SYEVVFSNEGYLETHARKLALIKRLN---LTRLNHLQQLWKHDSKELDFIFQ 945
            FL   DC S E VF  EG    + ++   + +L+   L  L  ++++W  D   +   FQ
Sbjct: 998  FLKAEDCSSLEEVFDVEGT-NVNVKEGVTVTQLSQLILRSLPKVEKIWNEDPHGI-LNFQ 1055

Query: 946  HLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFG 1005
            +LQ + +  CQ+L +L P+S V  R+L +L+                        L +  
Sbjct: 1056 NLQSITIDECQSLKNLFPASLV--RDLVQLQ-----------------------ELHVLC 1090

Query: 1006 CPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIG 1065
            C  + E++   +D   + +   VF K+++L L  L  L SF  G +    PSL+ L V  
Sbjct: 1091 C-GIEEIVA--KDNGVDTQATFVFPKVTSLELSYLHQLRSFYPGAHPSWWPSLKQLTVRE 1147

Query: 1066 CPKMKLFT-----------KGELSTPLRL 1083
            C K+ +F            +G L  PL L
Sbjct: 1148 CYKVNVFAFENPTFRQRHHEGNLDMPLSL 1176

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147782989|emb|CAN68563.1| hypothetical protein VITISV_012099 [Vitis vinifera]

 Score =  530 bits (1365), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 413/1211 (34%), Positives = 596/1211 (49%), Gaps = 194/1211 (16%)

Query: 7    MLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEA 66
            M++I++++ +E+ KCL  P +RQL YL   NY  N+ +L  ++E L+ ER  +Q  V+EA
Sbjct: 1    MVDIVISVAVEVAKCLVDPIKRQLGYLL--NYRRNITDLNQQIENLRRERDELQIPVNEA 58

Query: 67   KEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETE 126
              +G+EI  +V++WL  A GII ++  F E E   +K C       LK+RYQLSK+AE +
Sbjct: 59   YRQGDEIFPRVQEWLTYAEGIILESNDFNEHERKASKSCFY-----LKSRYQLSKQAEKQ 113

Query: 127  VKALVELGEEVKKFD-IVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSII 185
               +V+  +E + F   VSHR  P      S K YEAF+SR ST   I  AL + ++ ++
Sbjct: 114  AAKIVDKIQEARNFGGRVSHRPPPFSSS-ASFKDYEAFQSRESTFNQIMEALRNEDMRML 172

Query: 186  GVYGMGGIGKTTLVKEFARQAREKKLFDRVVFS-EVSQTPDIKKIQGEIAEKLGLELSDE 244
            GV+GMGG+GKTTLVK+ A+QA E KLF +VV    +SQTP+I +IQ +IA  LGL+   E
Sbjct: 173  GVWGMGGVGKTTLVKQVAQQAEEDKLFHKVVMVLHISQTPNITEIQEKIARMLGLKF--E 230

Query: 245  AEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEG--------------- 289
            A   RA RL +RLK E KILVILD+IW  LDL  IGIP+G+DH+G               
Sbjct: 231  AGEDRAGRLKQRLKGEEKILVILDDIWGKLDLGEIGIPYGDDHKGCKVLLTSRERQVLSK 290

Query: 290  -----YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARAL 344
                   F + +LSE+EAW LFK   GD VE  + +P A++VA+ C GLP+A+ T+A  L
Sbjct: 291  DMRTQKEFHLQHLSEDEAWNLFKKTAGDSVEKPELRPIAVDVAKKCDGLPVAIVTIANTL 350

Query: 345  RNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSF 404
            R +S+H WKNAL  L+T +  +  GV    YS +ELS+ +LKG+++K +FLLC+L+G+  
Sbjct: 351  RGESVHVWKNALEGLRTAAPTSIRGVTEGVYSCLELSYNHLKGDEVKSLFLLCALLGDGD 410

Query: 405  YLID-LLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLL--EGDRNET-------- 453
              +D LL+++M L LF G+   E A N+L  LV  L+   LLL  EGD +E         
Sbjct: 411  ISMDRLLQFAMCLNLFEGIYLWEKAINRLITLVENLKASSLLLDHEGDGDEYPSLLFDHA 470

Query: 454  -FYMHDVVCDVAVSIACRDQHVFLVR-----NDAV--WEWPDGDALKKCYAISLLNSSIH 505
               MHDVV DVA SIA +D H F+VR      +AV   EW   D  + C  ISL+  ++ 
Sbjct: 471  FVRMHDVVRDVARSIASKDPHRFVVREAVGSEEAVELREWQRTDECRNCTRISLICRNMD 530

Query: 506  EVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIG---- 561
            E+     CP+LEF  ++     A L IPD FF+  K+LR++DL++V L   PSS+G    
Sbjct: 531  ELPKGLVCPKLEFFLLNSSNDDAYLKIPDAFFQDTKQLRILDLSKVSLTPSPSSLGFLSN 590

Query: 562  -----------------------------------------QLTKLRMLDLTDCLQLKFI 580
                                                     QL+ LRMLDL  C  L+ I
Sbjct: 591  LQTLRLNQCQIQDITVIGELRKLQVLSLAESNIEQLPNEVAQLSDLRMLDLQYCESLEVI 650

Query: 581  VPNILSSFTRLEELYM-GSCSIKWEVRKGN-SERSNASLDELMHLQRLTTLEIDVEDDSI 638
              N++SS ++LE L M GS S +WE    N  ER NA L EL HL  L TLE+ V + S+
Sbjct: 651  PRNVISSLSQLEYLSMKGSLSFEWEAEGFNRGERINACLSELKHLSGLRTLEVQVSNPSL 710

Query: 639  LP--DGLFTK-KLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIV-------MAL 688
             P  D LF    L R+ I IG     + +   +       + S+Y+             L
Sbjct: 711  FPEDDVLFENLNLTRYSIVIGYDWIPNDEYKASRRLGLRGVTSLYMVKFFSKLLKRSQVL 770

Query: 689  ELNAIN--------------VDEIWHYNQLPAMVP---CFQSLTRLIVWGCDKLKYIFSA 731
            +L  +N              V  I H +     VP    F  L  LI+ G D L+ +   
Sbjct: 771  DLEELNDTKHVYLTLEECPTVQYILHSSTSVEWVPPPNTFCMLEELILDGLDNLEAVCHG 830

Query: 732  S-TIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGM 790
               + S   L+ L +R CK L+ + S     Q      FP++  L+L  LPEL   Y   
Sbjct: 831  PIPMGSFGNLRILRLRSCKRLKYVFS--LPAQHGRESAFPQLQHLELSDLPELISFYSTR 888

Query: 791  HTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKD-IT 849
             +                            G      +FS +  LP LE L++ G D I 
Sbjct: 889  SS----------------------------GTQESMTVFSQQVALPGLESLSVRGLDNIR 920

Query: 850  MILQDDFPQHLFGSLKQLRVGDDDLAC------FPLDLLERFHNLEFLYLSDCSYEVVFS 903
             +  D  P + F  L++L+V    + C      FP+ +      LE L +S    E +  
Sbjct: 921  ALWPDQLPTNSFSKLRKLQV----MGCKKLLNHFPVSVASALVQLEDLNISQSGVEAIVH 976

Query: 904  NEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNL----- 958
            NE   E  A  L L   L    L+ L QL +  S+     +  L+ L VL C  +     
Sbjct: 977  NEN--EDEAAPLLLFPNLTSLTLSGLHQLKRFCSRRFSSSWPLLKELEVLXCDKVEILFQ 1034

Query: 959  -----LSLLPSSSVSFRNLTRLETFA-CKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEV 1012
                   L P   V   NL+  + F    K++      K  + +++ S ++     + ++
Sbjct: 1035 QINSECELEPLFWVEQTNLSHTQNFTPTPKILLQKVYFKMGTFKKIDSAQLCALXQLEDL 1094

Query: 1013 IISD-----------EDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDL 1061
             IS+           EDE A L   ++F  L++L+L  L  L  F S  ++   P L++L
Sbjct: 1095 YISESGVEAIVANENEDEAAPL---LLFPNLTSLTLSGLHQLKRFCSRRFSSSWPLLKEL 1151

Query: 1062 WVIGCPKMKLF 1072
             V+ C K+++ 
Sbjct: 1152 EVLDCDKVEIL 1162

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  525 bits (1352), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 355/879 (40%), Positives = 499/879 (56%), Gaps = 119/879 (13%)

Query: 7   MLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEA 66
           +LE I++ +  + +    P  R++ +  K  YN N ENLK E++KLK+ +  +Q  V +A
Sbjct: 2   VLESIISTIGVVSQHTVVPIAREINHCLK--YNHNFENLKREVKKLKSAQLRVQHLVDDA 59

Query: 67  KEKGEEIEEKVEKWLVSANGIIDQAAKFV-----EDEESTNKRCLKGLCPNLKTRYQLSK 121
           +  GE I E V KWL     ++++A++ V     EDE+   K+C  GLCP+LK RYQ SK
Sbjct: 60  RNNGEAILEDVIKWL----SLVEEASEKVEREILEDEDRARKKCFIGLCPDLKARYQCSK 115

Query: 122 KAETEVKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVN 181
           KA+ E + +  L +E   F  VSHR  P+ +   S + Y+A  SR   LK I NALT  +
Sbjct: 116 KAKAETRFVASLLDERDGFSTVSHRAAPKGMEAISIRSYDAMPSRTPVLKEIMNALTTAD 175

Query: 182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLEL 241
           V+++GVYGMGG+GKTTLVKE ARQA ++KLF++VVF+ ++QT DIKKIQG+IA++L L+ 
Sbjct: 176 VNMVGVYGMGGMGKTTLVKEAARQAIQEKLFNQVVFATITQTQDIKKIQGQIADQLSLKF 235

Query: 242 SDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEG------------ 289
            +E+E  RA RL +RLK E KIL+ILD++WK LDL+ +GIP  ++HEG            
Sbjct: 236 DEESECGRAGRLRQRLKQEQKILIILDDLWKSLDLEAVGIPLKDEHEGCKMLVTSREFDV 295

Query: 290 --------YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVA 341
                    NF I  LSEEE W LFK M GD VE+   +  AI VA+ C GLP+A+ TVA
Sbjct: 296 LSCGMDIQKNFPINALSEEETWELFKKMAGDHVEHPDLQSLAIEVAKMCAGLPVAIVTVA 355

Query: 342 RALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIG 401
           RAL+NK+L +WKNALREL+ PS  NF GV  + Y++IELS+ +L+ ++LK  FLLCS +G
Sbjct: 356 RALKNKNLSQWKNALRELKRPSPRNFAGVQEDVYAAIELSYNHLESKELKSTFLLCSRMG 415

Query: 402 NSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVC 461
            +    DLL+Y MGLGLF G   +E+A++++++LVH+L+   LLLE   +  F MHD V 
Sbjct: 416 YNASTRDLLKYGMGLGLFSGFVTVEEAQDRVHSLVHKLKASGLLLENHSDWQFSMHDAVR 475

Query: 462 DVAVSIACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHI 521
           DVA+SIA RD HVF+  ++   +W   + LKK Y    L+S+I E+  E E PQL+FLH+
Sbjct: 476 DVAISIAFRDCHVFVGGDEVEPKWSAKNMLKK-YKEIWLSSNI-ELLREMEYPQLKFLHV 533

Query: 522 ---DPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-------------------- 558
              DP      L I  N  +GM KL+V+ LT + L SLPS                    
Sbjct: 534 RSEDPS-----LEISSNICRGMHKLKVLVLTNISLVSLPSPLHFLKNLRTLCLHQSSLGE 588

Query: 559 -------------------------SIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEE 593
                                     IGQLTKLRMLDL+DC +L  I PNI S+ + LEE
Sbjct: 589 IADIGELKKLEILSFAKSNIKHLPRQIGQLTKLRMLDLSDCFELDVIPPNIFSNLSMLEE 648

Query: 594 LYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDI 653
           L MG+    W          NASL EL HL  LT ++I V D  ++  G+ +K+LERF I
Sbjct: 649 LCMGNSFHHW----ATEGEDNASLVELDHLPHLTNVDIHVLDSHVMSKGMLSKRLERFRI 704

Query: 654 SIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELN--AINVDEIWHYNQLPAMVPCF 711
            IGD           DW        +Y     + L+LN  A N++     + +  ++   
Sbjct: 705 FIGDVW---------DW------DGVYQSLRTLKLKLNTSASNLE-----HGVLMLLKRT 744

Query: 712 QSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPR 771
           Q L  L + G +    + S    +   QL+HL +     +Q II  N + +  ++ VFP 
Sbjct: 745 QDLYLLELKGVNN---VVSELDTEGFLQLRHLHLHNSSDIQYII--NTSSEFPSH-VFPV 798

Query: 772 VTTLKLDGLPELRCLYPGMHTSE-WPALKNLVACNCDKI 809
           + +L L  L  L  L  G+ T+E +  L  +   NC K+
Sbjct: 799 LESLFLYNLVSLEKLCHGILTAESFRKLTIIEVGNCVKL 837

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359484051|ref|XP_002268199.2| PREDICTED: probable disease resistance protein At4g27220-like [Vitis vinifera]

 Score =  521 bits (1341), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 413/1219 (33%), Positives = 607/1219 (49%), Gaps = 205/1219 (16%)

Query: 7    MLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEA 66
            M++I++++  ++ +CL  P  RQL YL   NY  N  +L  ++E L   R  +Q+ V EA
Sbjct: 1    MVDIVISVAAKVAECLVDPIARQLGYLF--NYRRNYVDLTEQIEMLDHARVRLQQSVEEA 58

Query: 67   KEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETE 126
              +G+EI   V++WL     II +   F+EDE+  +K C       LK+RYQLSK+A+ +
Sbjct: 59   NRQGDEIFPDVQEWLKGDERIIQKKEDFIEDEKKASKSCFY-----LKSRYQLSKQAKKQ 113

Query: 127  VKALVELGEEVKKF-DIVSHRTTPEEIWLKSN---KGYEAFESRVSTLKSIQNALTDVNV 182
               +V   ++   F D VS+R +P  +   S+   K YEAF+SR ST   I  AL + N+
Sbjct: 114  AGDIVLKIQQAHNFGDRVSYRPSPPPLPFISSASFKDYEAFQSRESTFNQIMQALRNENM 173

Query: 183  SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFS-EVSQTPDIKKIQGEIAEKLGLEL 241
             +IGV+GMGG+GKTTLVK+ A+QA E KLF +VV +  +SQTP+I +IQG+IA  LGL+ 
Sbjct: 174  RMIGVWGMGGVGKTTLVKQVAQQAEENKLFHKVVMALNISQTPNIAEIQGKIARMLGLKF 233

Query: 242  SDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEG------------ 289
              EAE  RA RL +RLK E KILVILD+IW  LDL  IGIP G+DH+G            
Sbjct: 234  --EAEEDRAGRLRQRLKREEKILVILDDIWGKLDLRDIGIPDGDDHKGCKVLLTSREQEV 291

Query: 290  --------YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVA 341
                      F + +LSE+EAW LFK   GD VE  + +P A++VA+ C GLP+A+ T+A
Sbjct: 292  LSEDMRTQKKFHLQHLSEDEAWNLFKKTAGDSVEKPELRPIAVDVAKKCDGLPVAIFTIA 351

Query: 342  RALRNKS-LHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLI 400
             ALR KS ++ W+NAL EL+  +  +  GV    YS +ELS+ +LKG+++K +FLLC+L+
Sbjct: 352  TALRGKSRVNVWENALEELRGAAPTSIRGVTEGVYSCLELSYNHLKGDEVKSLFLLCALL 411

Query: 401  GNSFYLID-LLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLL--EGDRNET---- 453
            G+    +D LL+++  L LF G+   E A N+L  LV  L+   LLL  EGD + +    
Sbjct: 412  GDGDISMDRLLQFATCLNLFEGIYLWEKAINRLITLVENLKASSLLLDHEGDGDSSSSLL 471

Query: 454  -----FYMHDVVCDVAVSIACRDQHVFLVR-----NDAV--WEWPDGDALKKCYAISLLN 501
                   MHDVV D A SIA +D H F+VR      +AV   EW   D  + C  ISL+ 
Sbjct: 472  FDHAFVRMHDVVRDAARSIASKDPHRFVVREAVGSQEAVELREWQRTDECRNCTRISLIC 531

Query: 502  SSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIG 561
             ++ E+     CP+LEF  ++     A L IPD FF+  K+LR++DL++V L   PSS+G
Sbjct: 532  RNMDELPQGLVCPKLEFFLLNSSNDDAYLKIPDAFFQDTKQLRILDLSKVSLTPSPSSLG 591

Query: 562  ---------------------------------------------QLTKLRMLDLTDCLQ 576
                                                         QL+ LRMLDL +C  
Sbjct: 592  FLSNLQTLRLNQCQIQDITVIGELKKLQVLSLAESYIEQLPNEVAQLSDLRMLDLQNCCW 651

Query: 577  LKFIVPNILSSFTRLEELYM-GSCSIKWEVRKGN-SERSNASLDELMHLQRLTTLEIDVE 634
            LK I  N++SS ++LE L M GS  I+WE    N  ER NA L EL HL  L TLE+ V 
Sbjct: 652  LKVIPRNVISSLSQLEYLSMKGSLRIEWEAEGFNRGERINACLSELKHLSGLRTLEVQVS 711

Query: 635  DDSILP-DGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAI 693
            + S+ P D +  + L     SI         +IG DW Q  N +         +  L+  
Sbjct: 712  NPSLFPEDDVLFENLNLIRYSI---------LIGYDW-QILNDE------YKASRRLSLR 755

Query: 694  NVDEIWHYNQLPAMVPCFQSLTR----LIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCK 749
             V  ++       MV CF  L +    L +   +  K++      +   +L++L +  C 
Sbjct: 756  GVTSLY-------MVKCFSKLLKRSQELYLCKLNDTKHVVYELDKEGFVELKYLTLEECP 808

Query: 750  SLQEIISENRT---------------------DQVTAYF-------VFPRVTTLKLDGLP 781
            ++Q I+  + +                     D + A          F  +  L+L+   
Sbjct: 809  TVQYILHSSTSVEWVPPPNTFCMLEELILTWLDNLEAVCHGPIPMGSFGNLRILRLEYCE 868

Query: 782  ELRCLY--PGMHTSE--WPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPN 837
             L+ ++  P  +  E  +P L+NL  C   ++    +  +   G       FS +   P 
Sbjct: 869  RLKYVFSLPAQYGRESAFPQLQNLYLCGLPELISFYSTRSS--GTQESMTFFSQQVAFPA 926

Query: 838  LEGLALSG-KDITMILQDDFPQHLFGSLKQLRVG--DDDLACFPLDLLERFHNLEFLYLS 894
            LE L +S   ++  +  +  P + F  LK+L V    + L  FPL + +    LE L + 
Sbjct: 927  LESLGVSFLNNLKALWHNQLPANSFSKLKRLDVSCCCELLNVFPLSVAKVLVQLENLKID 986

Query: 895  DCSY-EVVFSNEGYLE------------------THARKLALIKRLNLTRLNHLQQLWKH 935
             C   E + +NE   E                    A  L L   L   +L+ L QL + 
Sbjct: 987  YCGVLEAIVANENEDEDLRIFLSGVEAIVANENVDEAAPLLLFPNLTYLKLSDLHQLKRF 1046

Query: 936  DSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSL 995
             S+ L+ I       R L        LP++  SF  L +LE   C KL+NL   S A +L
Sbjct: 1047 CSRRLNNI-------RALWSDQ----LPTN--SFSKLRKLEVSGCNKLLNLFPVSVASAL 1093

Query: 996  ERLVSLRIFGCPAMTEVIISDE--DETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAF 1053
             +L  LRIF   +  E I+++E  DE A L   ++F  L++L L DL  L  F SG ++ 
Sbjct: 1094 VQLQDLRIF--LSGVEAIVANENVDEAAPL---LLFPNLTSLKLSDLHQLKRFCSGRFSS 1148

Query: 1054 KLPSLQDLWVIGCPKMKLF 1072
              P L++L V+ C K+++ 
Sbjct: 1149 SWPLLKELEVVDCDKVEIL 1167

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  515 bits (1327), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 413/1148 (35%), Positives = 591/1148 (51%), Gaps = 168/1148 (14%)

Query: 8    LEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEAK 67
            +E ++++V  + + L  P +RQ+ Y+   + N N++NLK E+EKL   +T +   + EA+
Sbjct: 1    MEFVISIVATVAELLVVPIKRQIGYV--LDCNTNIQNLKNEVEKLTDAKTRVNHSIEEAR 58

Query: 68   EKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEV 127
              GEEIE  VE WL S NG+I      V DE S  K+C  GLCP+LK RY+L K A+ E+
Sbjct: 59   RNGEEIEVDVENWLTSVNGVIGGGGGVVVDESS--KKCFMGLCPDLKLRYRLGKAAKKEL 116

Query: 128  KALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGV 187
              +V L +E  KFD VS+R  P  I     K YEAFESR S L  I +AL D +V+++GV
Sbjct: 117  TVVVNL-QEKGKFDRVSYRAAPSGI--GPVKDYEAFESRNSVLNDIVDALKDCDVNMVGV 173

Query: 188  YGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEY 247
            YGMGG+GKTTL K+ A Q +E +LFD+VV + VS TPDI++IQGEIA+ LGL+L+ E + 
Sbjct: 174  YGMGGVGKTTLAKKVAEQVKEGRLFDKVVLAVVSHTPDIRRIQGEIADGLGLKLNAETDK 233

Query: 248  RRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEG------------------ 289
             RA +L E LK   ++LVILD+IWK L L+ +GIP G+DHEG                  
Sbjct: 234  GRADQLCEGLKKVTRVLVILDDIWKELKLEDVGIPSGSDHEGCKILMTSRNKNVLSREMG 293

Query: 290  --YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNK 347
               NF +  L   EAW  F+ M G  V+N   +P A  VA+ C GLPI L TVARAL+N+
Sbjct: 294  ANRNFQVQVLPVREAWNFFEKMVGVTVKNPSVQPVAAEVAKRCAGLPILLATVARALKNE 353

Query: 348  SLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCS-LIGNSFYL 406
             L+ WK+AL++L   +  + + +  + YS +ELS+K L+G+++K +FLLC   +     +
Sbjct: 354  DLYAWKDALKQL---TRFDKDEIDNQVYSCLELSYKALRGDEIKSLFLLCGQFLTYDSSI 410

Query: 407  IDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVS 466
             DLL+Y++GL LF G + +E+ARN+L  LV EL+  CLLLEGD++    MHDVV   A S
Sbjct: 411  SDLLKYAIGLDLFKGRSTLEEARNRLRTLVDELKASCLLLEGDKDGRVKMHDVVQSFAFS 470

Query: 467  IACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLE---FLHIDP 523
            +A RD HV +V  D   EWP  D L++  AISL    I ++    ECP L     L+ DP
Sbjct: 471  VASRDHHVLIVA-DEFKEWPTSDVLQQYTAISLPYRKIPDLPAILECPNLNSFILLNKDP 529

Query: 524  KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS----------------------IG 561
                  L IPDNFF+ MK+L+V+DLTRV L  LPSS                      +G
Sbjct: 530  S-----LQIPDNFFREMKELKVLDLTRVNLSPLPSSLQFLENLQTLCLDGCVLEDISIVG 584

Query: 562  QLTKLRMLDL-----------------------TDCLQLKFIVPNILSSFTRLEELYMGS 598
            +L KL++L L                       ++C +L+ I PN+LSS TRLEELYMG+
Sbjct: 585  ELKKLKVLSLISSDIVCLPREIGKLTRLLLLDLSNCERLEVISPNVLSSLTRLEELYMGN 644

Query: 599  CSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVED-DSILPDGLFT-KKLERFDISIG 656
              +KWE    +S+R+NA L EL  L  L TL + + D D++L D  F  +KLERF I IG
Sbjct: 645  SFVKWETEGSSSQRNNACLSELKRLSNLITLHMQITDADNMLKDLSFLFQKLERFRIFIG 704

Query: 657  DGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTR 716
            DG          DW         Y     + L+LN +   E W  N L       +S   
Sbjct: 705  DGW---------DW------SVKYATSRTLKLKLNTVIQLEEW-VNTL------LKSTEE 742

Query: 717  LIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLK 776
            L +     +K I +    +   +L+HL ++ C  +Q II+  R    TA+     + +L 
Sbjct: 743  LHLQELKGVKSILNDLDGEDFPRLKHLHVQNCPGVQYIINSIRMGPRTAFL---NLDSLF 799

Query: 777  LDGLPELRCLYPGMHTSE-WPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKIL 835
            L+ L  L  +  G   +E    L+ L   +C ++        + F V   + L   ++I 
Sbjct: 800  LENLDNLEKICHGQLMAESLGKLRILKVESCHRL-------KNLFSVSMARRLVRLEEIT 852

Query: 836  -----PNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHN--L 888
                    E +A   ++ T    D  P   F  L++L      L C P      FH+   
Sbjct: 853  IIDCKIMEEVVAEESENDT---ADGEPIE-FAQLRRLT-----LQCLP--QFTSFHSNRR 901

Query: 889  EFLYLSDC-SYEVVFSNE-GYLETHARKLALIKRLNLTRLNHL--QQLWKHDSKELDFIF 944
            + L  SD  S E+V  NE G   +      L   L   +L+ +  +++W           
Sbjct: 902  QKLLASDVRSKEIVAGNELGTSMSLFNTKILFPNLEDLKLSSIKVEKIWHDQPAVQPPCV 961

Query: 945  QHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIF 1004
            ++L  + V  C NL  LL SS V                         +SL +L  L I 
Sbjct: 962  KNLASMVVESCSNLNYLLTSSMV-------------------------ESLAQLERLEIC 996

Query: 1005 GCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVI 1064
             C +M E+++ +      +  +++F KL  L L  L  LT F + N   +  SL+ L V 
Sbjct: 997  NCESMEEIVVPEGIGEGKMMSKMLFPKLHLLELSGLPKLTRFCTSNL-LECHSLKVLMVG 1055

Query: 1065 GCPKMKLF 1072
             CP++K F
Sbjct: 1056 NCPELKEF 1063

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143590|emb|CBI22343.3| unnamed protein product [Vitis vinifera]

 Score =  513 bits (1322), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 329/914 (35%), Positives = 487/914 (53%), Gaps = 151/914 (16%)

Query: 7   MLEIIVTLVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEA 66
           M EI+  +  ++ KCL  P +RQL YL   NY  N+E+L  E+EKL+  R   Q  V+EA
Sbjct: 1   MEEIVAKVAAKVSKCLVVPVKRQLGYLF--NYRTNIEDLSQEVEKLRHARDGHQHSVNEA 58

Query: 67  KEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETE 126
              G +IE+ V KWL  A+G I  A KF+EDE+   K C  GLCPNLK+RYQLS++A  +
Sbjct: 59  IGNGHKIEDYVCKWLTRADGFIQDACKFLEDEKEAQKSCFNGLCPNLKSRYQLSREARKK 118

Query: 127 VKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIG 186
            +  V++  +  +F  VS+R   +EI    +   EA  SRV TL  +  AL D  ++ IG
Sbjct: 119 ARVAVQMHGD-GQFVRVSYRAPLQEI---RSAPSEALRSRVLTLDEVMEALRDAKINKIG 174

Query: 187 VYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAE 246
           V+G+GG+GKTTLVK+ A QA ++KLFD+VV + V QTPD+KKIQGE+A+ LG++  +E+E
Sbjct: 175 VWGLGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLQTPDLKKIQGELADLLGMKFEEESE 234

Query: 247 YRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEG----------------- 289
             RA+RLY+R+ NE  IL+ILD+IW  LDL+ IGIP  + H+G                 
Sbjct: 235 QGRAARLYQRMNNEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEHILSNEM 294

Query: 290 ---YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRN 346
               +F +  L E+E W LFK   G  +EN + +P A++VA+ C GLP+A+ TVA AL+ 
Sbjct: 295 DTQKDFRVQPLQEDETWILFKNTAG-SIENPELQPIAVDVAKECAGLPLAIVTVATALKG 353

Query: 347 -KSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIG-NSF 404
            KS+  W++A  +L++ +  N  G+ +  YSS++LS+++LKG ++K  FLLC LI  N F
Sbjct: 354 EKSVSIWEDARLQLKSQTSTNITGLTSNVYSSLKLSYEHLKGIEVKSFFLLCGLISQNDF 413

Query: 405 YLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVA 464
           ++ DLL+Y +GL LF G N +E+ +N++  LV+ L+   LLLE   N    MHD+V   A
Sbjct: 414 HIWDLLKYGVGLRLFQGTNTLEEVKNRIDTLVNNLKSSNLLLETGHNAVVRMHDLVRSTA 473

Query: 465 VSIACRDQHVFLVRNDAVW--EWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHID 522
             IA    HVF ++N  V    WP  D L+K   +SL +  IHE+     CP+LE     
Sbjct: 474 RKIASDQHHVFTLQNTTVRVEGWPRIDELQKVTWVSLHDCDIHELPEGLVCPKLELFGCY 533

Query: 523 PKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS----------------------- 559
              T + + IP+NFF+ MK+L+V+ L+R++L SLP S                       
Sbjct: 534 DVNTNSAVQIPNNFFEEMKQLKVLHLSRMQLPSLPLSLQCLTNLRTLCLDGCKVGDIVII 593

Query: 560 ----------------------IGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMG 597
                                 I QLT LRMLDL+   +LK I  +++SS ++LE L M 
Sbjct: 594 AKLKKLEILSLMDSDMEQLPREIAQLTHLRMLDLSGSSKLKVIPSDVISSLSQLENLCMA 653

Query: 598 SCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGD 657
           +   +WE       +SNA L EL HL  LT+L+I + D  +LP  +    L R+ I +GD
Sbjct: 654 NSFTQWE----GEGKSNACLAELKHLSHLTSLDIQIPDAKLLPKDIVFDTLVRYRIFVGD 709

Query: 658 -----GSFDSTKIIGNDWFQT-----------------FNIQSIYIFCIVMA-------L 688
                G F++   +  + F T                  +++ +  F  V++       L
Sbjct: 710 VWSWGGIFEANNTLKLNKFDTSLHLVDGISKLLKRTEDLHLRELCGFTHVLSKLNREGFL 769

Query: 689 ELNAINVD------------------------------------EIWHYNQLPAMVPCFQ 712
           +L  +NV+                                    E+ H  Q PA    F 
Sbjct: 770 KLKHLNVESSPEIQYIANSMDLTSTHGVFPVMETLSLNQLINLQEVCH-GQFPA--GSFG 826

Query: 713 SLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENR---TDQVTAYFVF 769
            L ++ V  CD LK++FS S  + L +L  +++  CKS+ E++S+ R    +      +F
Sbjct: 827 CLRKVEVEDCDGLKFLFSLSVARGLSRLVEIKVTRCKSMVEMVSQGRKEIKEDTVNVPLF 886

Query: 770 PRVTTLKLDGLPEL 783
           P +  L L  LP+L
Sbjct: 887 PELRHLTLQDLPKL 900

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	1085
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.297	0.327	0.295	1.3e-51
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.452	0.552	0.275	4.7e-50
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.460	0.556	0.276	2.2e-49
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.439	0.493	0.270	3.4e-45
TAIR|locus:2171589	948	AT5G47260 [Arabidopsis thalian	0.464	0.531	0.239	1.2e-44
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.709	0.837	0.256	1.6e-44
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.457	0.561	0.274	2.5e-43
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.458	0.555	0.256	9.4e-42
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.457	0.558	0.249	5.6e-41
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.454	0.646	0.267	9e-41

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

 Score = 339 (124.4 bits), Expect = 1.3e-51, Sum P(3) = 1.3e-51
 Identities = 101/342 (29%), Positives = 169/342 (49%)

Query:   297 LSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNK-SLHEWKNA 355
             L EE+AW LF    GD V +   +  A  V+Q CGGLP+A+ TV  A+R K ++  W + 
Sbjct:   302 LLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKLWNHV 361

Query:   356 LRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYL--IDLLRYS 413
             L +L + SV   + +  + +  ++LS+ +L+ ++ K  FLLC+L    + +   +++RY 
Sbjct:   362 LSKL-SKSVPWIKSIEEKIFQPLKLSYDFLE-DKAKFCFLLCALFPEDYSIEVTEVVRYW 419

Query:   414 MGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACR--- 470
             M  G    +   ED+ N+    V  L+D CLL +GDR +T  MHDVV D A+ I      
Sbjct:   420 MAEGFMEELGSQEDSMNEGITTVESLKDYCLLEDGDRRDTVKMHDVVRDFAIWIMSSSQD 479

Query:   471 DQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVS--LEFECPQLEFLHIDPKITFA 528
             D H  ++    + +            +SL+N+ +  +   +E  C +   L +       
Sbjct:   480 DSHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLESLPDLVEEFCVKTSVLLLQGNFLLK 539

Query:   529 ELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLTDCLQLKFIVPNILSS 587
             E  +P  F +    LR+++L+  R+ S PS S+ +L  L  L L DC +L  + P+ L +
Sbjct:   540 E--VPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKLVKL-PS-LET 595

Query:   588 FTRLEELYMGSCSIKWEVRKGNSERS---NASLDELMHLQRL 626
               +LE L +    I  E  +G  E     +  L   +HL+ +
Sbjct:   596 LAKLELLDLCGTHIL-EFPRGLEELKRFRHLDLSRTLHLESI 636

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

 Score = 359 (131.4 bits), Expect = 4.7e-50, Sum P(2) = 4.7e-50
 Identities = 151/548 (27%), Positives = 256/548 (46%)

Query:   297 LSEEEAWRLFKIMNGDDV--ENCKFKPTAINVAQACGGLPIALTTVARALRNK-SLHEWK 353
             L  EE+W LF++  G +    +      A  VA+ C GLP+AL  +  A+  K ++HEW 
Sbjct:   313 LQPEESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWC 372

Query:   354 NALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLID---LL 410
             +A+ ++ T S ++F G+  E    ++ S+  L GE +K  FL CSL     YLID   L+
Sbjct:   373 HAI-DVLTSSAIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPED-YLIDKEGLV 430

Query:   411 RYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNET-FYMHDVVCDVAVSIAC 469
              Y +  G  +     E   N+ Y ++  L   CLLLE +RN++   MHDVV ++A+ I+ 
Sbjct:   431 DYWISEGFINEKEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALWISS 490

Query:   470 ---RDQHVFLVRNDA-VWEWP---DGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHID 522
                + +   +VR    + E P   D + ++K   ISL+N+ I E+    EC  L  L + 
Sbjct:   491 DLGKQKEKCIVRAGVGLREVPKVKDWNTVRK---ISLMNNEIEEIFDSHECAALTTLFLQ 547

Query:   523 PKITFAELNIPDNFFKGMKKLRVVDLTRVR-LFSLPSSIGQLTKLRMLDLT-DCLQ---- 576
                    + I   FF+ M  L V+DL+  + L  LP  I +L  LR  +L+  C+     
Sbjct:   548 KNDV---VKISAEFFRCMPHLVVLDLSENQSLNELPEEISELASLRYFNLSYTCIHQLPV 604

Query:   577 ----LKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELM--HLQRLTTLE 630
                 LK ++   L   + L  + +G  ++ W +R      S   LD  +   LQ L  LE
Sbjct:   605 GLWTLKKLIHLNLEHMSSLGSI-LGISNL-WNLRTLGLRDSRLLLDMSLVKELQLLEHLE 662

Query:   631 IDVED--DSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIF--CIVM 686
             +   D   S++ + L     +R    I +  F   K +  +  +   + ++       + 
Sbjct:   663 VITLDISSSLVAEPLLCS--QRLVECIKEVDF---KYLKEESVRVLTLPTMGNLRKLGIK 717

Query:   687 ALELNAINVDEIWHY---NQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHL 743
                +  I ++        N+ P   PCF +L+R+ +  C  LK +   + +     L  L
Sbjct:   718 RCGMREIKIERTTSSSSRNKSPT-TPCFSNLSRVFIAKCHGLKDL---TWLLFAPNLTFL 773

Query:   744 EIRLCKSLQEIISENRTDQVTAYFV-FPRVTTLKLDGLPELRCLYP-GMHTSEWPALKNL 801
             E+   K +++IISE + ++ +A  V F ++ TL L  L  L+ +Y   +H   +P LK +
Sbjct:   774 EVGFSKEVEDIISEEKAEEHSATIVPFRKLETLHLFELRGLKRIYAKALH---FPCLKVI 830

Query:   802 VACNCDKI 809
                 C+K+
Sbjct:   831 HVEKCEKL 838

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:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 360 (131.8 bits), Expect = 2.2e-49, Sum P(3) = 2.2e-49
 Identities = 153/553 (27%), Positives = 250/553 (45%)

Query:   286 DHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCK--FKPTAINVAQACGGLPIALTTVARA 343
             DH+     +  L  E+AW LFK   GD+  +        A  VAQ C GLP+AL  +   
Sbjct:   300 DHKPMQ--VNCLEPEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGET 357

Query:   344 LRNKSL-HEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLI-- 400
             + +K++  EW++A+    T S   F  +  +    ++ S+  L  E +K  FL C+L   
Sbjct:   358 MSSKTMVQEWEHAIHVFNT-SAAEFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPE 416

Query:   401 GNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFY--MHD 458
                 Y   L+ Y +  G       ++ ARNK YA++  L    LL +     T+Y  MHD
Sbjct:   417 DGEIYNEKLIDYWICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKVG---TYYCVMHD 473

Query:   459 VVCDVAVSIAC---RDQHVFLVRNDA-VWEWP---DGDALKKCYAISLLNSSIHEVSLEF 511
             VV ++A+ IA    + +  F+V+    + E P   D  A++K   +SL+++ I E++ E 
Sbjct:   474 VVREMALWIASDFGKQKENFVVQAGVGLHEIPKVKDWGAVRK---MSLMDNDIEEITCES 530

Query:   512 ECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFS-LPSSIGQLTKLRML 569
             +C +L  L +   K+     N+P  F + M+KL V+DL+  R F+ LP  I  L  L+ L
Sbjct:   531 KCSELTTLFLQSNKLK----NLPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGLVSLQFL 586

Query:   570 DLTDC-LQLKFIVPNILSSFTRLEELYMGS-CSIKWEVRK---------GNSERSNAS-L 617
             DL++  ++   I    L   T L+  Y    CSI    R          G+    +AS L
Sbjct:   587 DLSNTSIEHMPIGLKELKKLTFLDLTYTDRLCSISGISRLLSLRLLRLLGSKVHGDASVL 646

Query:   618 DELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDIS-IGDGSFDSTKIIGNDWFQTFNI 676
              EL  LQ L  L I V  + I  D    K +    I       FD + +   +   +  +
Sbjct:   647 KELQQLQNLQELAITVSAELISLDQRLAKLISNLCIEGFLQKPFDLSFLASMENLSSLRV 706

Query:   677 QSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQS 736
             ++ Y F  +   E    +      Y ++   +PCF +L+RL +  C  +K +   + I  
Sbjct:   707 ENSY-FSEIKCRESETES-----SYLRINPKIPCFTNLSRLEIMKCHSMKDL---TWILF 757

Query:   737 LEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWP 796
                L  L I   + + EII++ +   +T+   F ++  L L  LP+L  +Y       +P
Sbjct:   758 APNLVVLLIEDSREVGEIINKEKATNLTSITPFLKLEWLILYNLPKLESIY--WSPLPFP 815

Query:   797 ALKNLVACNCDKI 809
              L  +   NC K+
Sbjct:   816 VLLTMDVSNCPKL 828

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 307 (113.1 bits), Expect = 3.4e-45, Sum P(3) = 3.4e-45
 Identities = 152/562 (27%), Positives = 262/562 (46%)

Query:   297 LSEEEAWRLFKIMNGDDVENCKFKPTAIN----VAQACGGLPIALTTVARALRNKSL-HE 351
             L  E+AW LFK   GD+    +  P  +     VAQ C GLP+AL+ +   + +K++  E
Sbjct:   310 LEPEDAWELFKNKVGDNT--LRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQE 367

Query:   352 WKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLID--- 408
             W++A+ ++ T S   F  +  +    ++ S+  L+ E +K  FL C+L       ID   
Sbjct:   368 WEHAI-DVLTRSAAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPEDDK-IDTKT 425

Query:   409 LLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFY---MHDVVCDVAV 465
             L+   +  G       ++ ARNK Y ++  L    LL   DR    +   MHDVV ++A+
Sbjct:   426 LINKWICEGFIGEDQVIKRARNKGYEMLGTLIRANLLTN-DRGFVKWHVVMHDVVREMAL 484

Query:   466 SIAC---RDQHVFLVR-NDAVWEWP---DGDALKKCYAISLLNSSIHEVSLEFECPQLEF 518
              IA    + +  ++VR    + E P   D  A+++   +SL+ + I E++ E +C +L  
Sbjct:   485 WIASDFGKQKENYVVRARVGLHEIPKVKDWGAVRR---MSLMMNEIEEITCESKCSELTT 541

Query:   519 LHIDPKITFAEL-NIPDNFFKGMKKLRVVDLTRVRLFS-LPSSIGQLTKLRMLDLTDCLQ 576
             L +       +L N+   F + M+KL V+DL+    F+ LP  I  L  L+ LDL     
Sbjct:   542 LFLQSN----QLKNLSGEFIRYMQKLVVLDLSHNPDFNELPEQISGLVSLQYLDL----- 592

Query:   577 LKFIVPNILSSFTRLEELYMGSCSIKWEVRKGN--SER--SNASLDELMHLQRLTTLEID 632
                       S+TR+E+L +G   +K  +      +ER  S + +  L+ L+ L+  E +
Sbjct:   593 ----------SWTRIEQLPVGLKELKKLIFLNLCFTERLCSISGISRLLSLRWLSLRESN 642

Query:   633 VEDD-SILPDGLFTKKLERF-DISIGDG----SFDS--TKIIGNDWFQTFNIQSIYIFCI 684
             V  D S+L +    ++LE   D+ I +     S D    K+I     + F +Q  +    
Sbjct:   643 VHGDASVLKE---LQQLENLQDLRITESAELISLDQRLAKLISVLRIEGF-LQKPFDLSF 698

Query:   685 VMALE-----------LNAINV-----DEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYI 728
             + ++E            + IN+     +    Y  +   +PCF +LT LI+  C  +K +
Sbjct:   699 LASMENLYGLLVENSYFSEINIKCRESETESSYLHINPKIPCFTNLTGLIIMKCHSMKDL 758

Query:   729 FSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFV-FPRVTTLKLDGLPELRCLY 787
                + I     L +L+IR  + + EII++ +   +T+    F ++  L L GLP+L  +Y
Sbjct:   759 ---TWILFAPNLVNLDIRDSREVGEIINKEKAINLTSIITPFQKLERLFLYGLPKLESIY 815

Query:   788 PGMHTSEWPALKNLVACNCDKI 809
                    +P L N+V   C K+
Sbjct:   816 --WSPLPFPLLSNIVVKYCPKL 835

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2171589 AT5G47260 [Arabidopsis thaliana (taxid:3702)]

 Score = 304 (112.1 bits), Expect = 1.2e-44, Sum P(2) = 1.2e-44
 Identities = 130/542 (23%), Positives = 246/542 (45%)

Query:   297 LSEEEAWRLFKIMNGDDV--ENCKFKPTAINVAQACGGLPIALTTVARALRNK-SLHEWK 353
             LS EEAW LF+   G++    +      A  VA  C GLP+AL  +  A+  K ++ EW+
Sbjct:   301 LSPEEAWDLFQETVGENTLRSHQDIPKLARVVASTCRGLPLALNLIGEAMSGKRTVREWR 360

Query:   354 NALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYL--IDLLR 411
               +  L + S   F  +   T   ++  +  +  E ++  FL C+L   +  +   DL+ 
Sbjct:   361 YTIHVLAS-STAEFPDMEDGTLPILKSIYDNMSDEIIRLCFLYCALFPENLDIGKEDLVN 419

Query:   412 YSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRD 471
             Y +  G+    ++ E+A  + Y ++ +L    LL+E        MH +V ++A+ IA   
Sbjct:   420 YWICEGILAKEDR-EEAEIQGYEIICDLVRMRLLMESGNGNCVKMHGMVREMALWIA--S 476

Query:   472 QHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELN 531
             +H  +V  + + +  + +  +    +S+ ++ I  +S   +C +L  L +  +    +  
Sbjct:   477 EHFVVVGGERIHQMLNVNDWRMIRRMSVTSTQIQNISDSPQCSELTTL-VFRRNRHLKW- 534

Query:   532 IPDNFFKGMKKLRVVDLTRVR-LFSLPSSIGQLTKLRMLDLT-DCL--------QLKFIV 581
             I   FF+ M  L V+DL+  R L  LP  +  L  LR L+L+  C+        +LK ++
Sbjct:   535 ISGAFFQWMTGLVVLDLSFNRELAELPEEVSSLVLLRFLNLSWTCIKGLPLGLKELKSLI 594

Query:   582 PNILSSFTRLEELYMGSCSIKWEV-RKGNSERSNASL-DELMHLQRLTTLEIDVEDDSIL 639
                L   + L+E+ + +  +  +V R  +S   +  L +++  L+ L  L + V   S+L
Sbjct:   595 HLDLDYTSNLQEVDVIASLLNLQVLRLFHSVSMDLKLMEDIQLLKSLKELSLTVRGSSVL 654

Query:   640 PDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIW 699
                L    ++R   SI       T I+        ++ +I+  C +  L  N + +   W
Sbjct:   655 QRLL---SIQRLASSIRRLHLTETTIVDGG---ILSLNAIFSLCELDILGCNILEITIDW 708

Query:   700 HYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENR 759
                    ++P FQ++  + +  C+   Y+   + +     L  L +  C  ++E+IS+++
Sbjct:   709 RCTIQREIIPQFQNIRTMTIHRCE---YLRDLTWLLLAPCLGELSVSECPQMEEVISKDK 765

Query:   760 TDQV---TAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKIT-LSQND 815
                    T+   F  +T L LDGLP+L  +Y       +P L+ LV   C ++  L  N 
Sbjct:   766 AMAKLGNTSEQPFQNLTKLVLDGLPKLESIY--WTPLPFPVLEYLVIRRCPELRRLPFNS 823

Query:   816 EN 817
             E+
Sbjct:   824 ES 825

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

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

 Score = 508 (183.9 bits), Expect = 1.6e-44, Sum P(2) = 1.6e-44
 Identities = 223/868 (25%), Positives = 393/868 (45%)

Query:   126 EVKALVELGEE-VKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSI 184
             +VK L E G++ +KK  +  ++++ E +       +   ++ +  L  +++ L   NV  
Sbjct:    79 KVKRLEEQGQDLIKKISV--NKSSREIVERVLGPSFHPQKTALEMLDKLKDCLKKKNVQK 136

Query:   185 IGVYGMGGIGKTTLVK----EFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLE 240
             IGV+GMGG+GKTTLV+    +  + A  ++ F  V++  VS+  D+K++Q +IA++LG  
Sbjct:   137 IGVWGMGGVGKTTLVRTLNNDLLKYAATQQ-FALVIWVTVSKDFDLKRVQMDIAKRLGKR 195

Query:   241 LSDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHE------------ 288
              + E   +    + ERL +    L+ILD++W  +DLD +GIP   +              
Sbjct:   196 FTREQMNQLGLTICERLIDLKNFLLILDDVWHPIDLDQLGIPLALERSKDSKVVLTSRRL 255

Query:   289 --------GYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTV 340
                       N  +  L E+EAW LF    G+   +   KP A +V+  C GLP+A+ T+
Sbjct:   256 EVCQQMMTNENIKVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECCGLPLAIITI 315

Query:   341 ARALRNKSLHE-WKNALRELQ--TPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLC 397
              R LR K   E WK+ L  L+   PS+   E +    + +++LS+ +L+ + +K  FL C
Sbjct:   316 GRTLRGKPQVEVWKHTLNLLKRSAPSIDTEEKI----FGTLKLSYDFLQ-DNMKSCFLFC 370

Query:   398 SLIGNSFYL--IDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFY 455
             +L    + +   +L+ Y +  GL  G +  ED  N+   LV  L+D CLL +GD  +T  
Sbjct:   371 ALFPEDYSIKVSELIMYWVAEGLLDGQHHYEDMMNEGVTLVERLKDSCLLEDGDSCDTVK 430

Query:   456 MHDVVCDVAV---SIACRDQHVFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLE-F 511
             MHDVV D A+   S      H  ++    + E+P    +     +SL+ + +  +     
Sbjct:   431 MHDVVRDFAIWFMSSQGEGFHSLVMAGRGLIEFPQDKFVSSVQRVSLMANKLERLPNNVI 490

Query:   512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDL 571
             E  +   L +       E  +P+ F +    LR++DL+ VR+ +LP S   L  LR L L
Sbjct:   491 EGVETLVLLLQGNSHVKE--VPNGFLQAFPNLRILDLSGVRIRTLPDSFSNLHSLRSLVL 548

Query:   572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEI 631
              +C +L+ + P+ L S  +L+ L +   +I+ E+ +G       +L  L ++    T ++
Sbjct:   549 RNCKKLRNL-PS-LESLVKLQFLDLHESAIR-ELPRGLE-----ALSSLRYICVSNTYQL 600

Query:   632 DVEDDSILPDG--LFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALE 689
                  SI P G  L    LE  D++   GS  S  I G +      +  +     +  L 
Sbjct:   601 Q----SI-PAGTILQLSSLEVLDMA---GSAYSWGIKGEEREGQATLDEVTCLPHLQFLA 652

Query:   690 LNAINVDEI-WHYNQLPAMVPCFQSL---TRLIV-----WGCDKLK--YIFSASTIQSLE 738
             +  ++V    + ++ L   +  FQ L    R +       GC  +    + +AS    L+
Sbjct:   653 IKLLDVLSFSYEFDSLTKRLTKFQFLFSPIRSVSPPGTGEGCLAISDVNVSNASIGWLLQ 712

Query:   739 QLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPAL 798
              +  L++  C+ L  +  EN   +  + FV   +  L +   P L  L  G   S+    
Sbjct:   713 HVTSLDLNYCEGLNGMF-ENLVTKSKSSFV--AMKALSIHYFPSLS-LASGCE-SQLDLF 767

Query:   799 KNLVACNCDKITLSQNDENDQF-GVPAQQPLFSFKKILPNLEGLALSG-KDITMILQDDF 856
              NL   + D + L    E + F G+  Q+           L+ L +SG + +  +  D  
Sbjct:   768 PNLEELSLDNVNLESIGELNGFLGMRLQK-----------LKLLQVSGCRQLKRLFSDQI 816

Query:   857 PQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSY-EVVFSNEGYLETHARKL 915
                   +L++++V    ++C  L+ L  F ++   + ++    ++      YL    R L
Sbjct:   817 LAGTLPNLQEIKV----VSCLRLEELFNFSSVPVDFCAESLLPKLTVIKLKYLP-QLRSL 871

Query:   916 ALIKRLNLTRLNHLQQLWKHDSKELDFI 943
                 R+ L  L HL+       K L F+
Sbjct:   872 CN-DRVVLESLEHLEVESCESLKNLPFV 898

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 337 (123.7 bits), Expect = 2.5e-43, Sum P(2) = 2.5e-43
 Identities = 148/540 (27%), Positives = 243/540 (45%)

Query:   297 LSEEEAWRLFKIMNGDDV--ENCKFKPTAINVAQACGGLPIALTTVARALR-NKSLHEWK 353
             L  ++AW LFK   GD     +      A  VAQAC GLP+AL  +   +   K+  EW 
Sbjct:   312 LGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWD 371

Query:   354 NALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLID---LL 410
              A+ ++ T    NF  V       ++ S+  L+ E +K  FL CSL      LI+   L+
Sbjct:   372 RAV-DVSTTYAANFGAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDD-LIEKERLI 429

Query:   411 RYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDR-NETFY--MHDVVCDVAVSI 467
              Y +  G   G    + A  + Y ++  L    LL+EG + N   Y  MHDVV ++A+ I
Sbjct:   430 DYWICEGFIDGDENKKGAVGEGYEILGTLVCASLLVEGGKFNNKSYVKMHDVVREMALWI 489

Query:   468 AC---RDQHVFLVRND-AVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDP 523
             A    + +   +VR    + E P     K    +SL+N+ I E+    ECP+L  L +  
Sbjct:   490 ASDLRKHKDNCIVRAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPKLTTLFLQD 549

Query:   524 KITFAELNIPDNFFKGMKKLRVVDLT-RVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVP 582
                   +NI   FF+ M +L V+DL+  V L  LP  I +L  LR LDL+     +  +P
Sbjct:   550 NRHL--VNISGEFFRSMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYSSIGR--LP 605

Query:   583 NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDG 642
               L    +L  L + S  +  E   G    SN     L++L+   T+ +  E + +  + 
Sbjct:   606 VGLLKLKKLMHLNLESM-LCLESVSGIDHLSNLKTVRLLNLRMWLTISLLEELERL--EN 662

Query:   643 LFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNI-----QSIYIFCIVMALELNAINVD- 696
             L    +E    S  +    S +++     Q  ++     +S+ I  +    +L  + +  
Sbjct:   663 LEVLTIEIISSSALEQLLCSHRLVR--CLQKVSVKYLDEESVRILTLPSIGDLREVFIGG 720

Query:   697 ----EIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQ 752
                 +I          PCF +L+++++ GC+ LK +   + +     L HL +   + ++
Sbjct:   721 CGMRDIIIERNTSLTSPCFPNLSKVLITGCNGLKDL---TWLLFAPNLTHLNVWNSRQIE 777

Query:   753 EIISENRTDQVTAYFV-FPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACN-CDKIT 810
             EIIS+ +    TA  V F ++  L L  LPEL+ +Y   +   +P L  +   N C K+T
Sbjct:   778 EIISQEKAS--TADIVPFRKLEYLHLWDLPELKSIY--WNPLPFPCLNQINVQNKCRKLT 833

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:2034770 SUMM2 "AT1G12280" [Arabidopsis thaliana (taxid:3702)]

 Score = 268 (99.4 bits), Expect = 9.4e-42, Sum P(2) = 9.4e-42
 Identities = 139/541 (25%), Positives = 237/541 (43%)

Query:   297 LSEEEAWRLFKIMNGDDV--ENCKFKPTAINVAQACGGLPIALTTVARALRNKSL-HEWK 353
             L   EAW LF++  G++    +      A  VA  C GLP+AL  +   +  K +  EW+
Sbjct:   313 LEPNEAWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWR 372

Query:   354 NALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLID--LLR 411
             NA+  L + +   F G+  +    ++ S+  L  EQ+K  FL CSL    + +    L+ 
Sbjct:   373 NAIDVLSSYAA-EFPGME-QILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLID 430

Query:   412 YSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRN-ETFYMHDVVCDVAVSIACR 470
             Y +  G        E A ++ Y ++  L   CLLLE   N E   MHDVV ++A+ IA  
Sbjct:   431 YWICEGFIDENESRERALSQGYEIIGILVRACLLLEEAINKEQVKMHDVVREMALWIASD 490

Query:   471 -DQHV--FLVR-NDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKIT 526
               +H    +V+    + E P          +SL+ + I  +S   EC +L  L +    +
Sbjct:   491 LGEHKERCIVQVGVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKNDS 550

Query:   527 FAELNIPDNFFKGMKKLRVVDLT-RVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNIL 585
                L+I D FF+ +  L V+DL+    L  LP+ I +L  LR LDL+    +K + P  L
Sbjct:   551 L--LHISDEFFRCIPMLVVLDLSGNSSLRKLPNQISKLVSLRYLDLS-WTYIKRL-PVGL 606

Query:   586 SSFTRLEEL---YM-------GSCSIKWEVRKGNSERSNASLD-----ELMHLQRLTTLE 630
                 +L  L   YM       G  +I   +RK    +S  SLD     EL  L+ L  L 
Sbjct:   607 QELKKLRYLRLDYMKRLKSISGISNIS-SLRKLQLLQSKMSLDMSLVEELQLLEHLEVLN 665

Query:   631 IDVEDDSILPDGLFTKKLER-FDISIGDGSFDSTKIIGNDWFQTFNIQSIYIF-CIVMAL 688
             I ++   ++   L   +L +   I +  G  + +  +        N+  + I  C +  +
Sbjct:   666 ISIKSSLVVEKLLNAPRLVKCLQILVLRGVQEESSGVLT-LPDMDNLNKVIIRKCGMCEI 724

Query:   689 ELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLC 748
             ++    +      N+ P       +L+ + +  CD LK +       +L  L+ L+  L 
Sbjct:   725 KIERKTLS--LSSNRSPK-TQFLHNLSTVHISSCDGLKDLTWLLFAPNLTSLEVLDSEL- 780

Query:   749 KSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDK 808
               ++ II++ +   ++    F ++ +L+L  L  LR +Y       +P LK +    C +
Sbjct:   781 --VEGIINQEKAMTMSGIIPFQKLESLRLHNLAMLRSIY--WQPLSFPCLKTIHITKCPE 836

Query:   809 I 809
             +
Sbjct:   837 L 837

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 282 (104.3 bits), Expect = 5.6e-41, Sum P(2) = 5.6e-41
 Identities = 134/537 (24%), Positives = 248/537 (46%)

Query:   297 LSEEEAWRLFKIMNGDDVENCKFK-PT-AINVAQACGGLPIALTTVARALRNK-SLHEWK 353
             L+ ++AW LF    G+       + PT A  VA+ C GLP+AL  +   +  K ++ EW+
Sbjct:   311 LAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWR 370

Query:   354 NALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLI--DLLR 411
             +A+ ++ T S   F G+  E    ++ S+  LK EQLK  F  C+L      +   DL+ 
Sbjct:   371 SAI-DVLTSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVD 429

Query:   412 YSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIAC-- 469
             Y +G G F   NK + A N+ Y ++  L   CLL+E +  ET  MHDVV ++A+ IA   
Sbjct:   430 YWIGEG-FIDRNKGK-AENQGYEIIGILVRSCLLME-ENQETVKMHDVVREMALWIASDF 486

Query:   470 -RDQHVFLVRNDAVWE-WPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITF 527
              + +  F+V+        P+ +  K    +SL+ ++I  +    E PQL  L +  +  F
Sbjct:   487 GKQKENFIVQAGLQSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQLITLLL--RKNF 544

Query:   528 AELNIPDNFFKGMKKLRVVDLTRVR-LFSLPSSIGQLTKLRMLDLT---------DCLQL 577
                +I  +FF+ M  L V+DL+  R L  LP+ I +   L+ L L+           ++L
Sbjct:   545 LG-HISSSFFRLMPMLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIRIWPAGLVEL 603

Query:   578 -KFIVPNILSSFTRLEELYMGSCSI-KWEVRK---GNSERSNASLDELMHLQRLTTLEID 632
              K +  N+   +TR+ E   G   +   +V +            L+EL  L+ L TL I 
Sbjct:   604 RKLLYLNL--EYTRMVESICGISGLTSLKVLRLFVSGFPEDPCVLNELQLLENLQTLTIT 661

Query:   633 VEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNA 692
             +   SIL   L  ++L     ++   + +    + +      ++Q ++ F      E+  
Sbjct:   662 LGLASILEQFLSNQRLASCTRALRIENLNPQSSVISFVATMDSLQELH-FADSDIWEIKV 720

Query:   693 INVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQ 752
                + +   + +P     F +L+++ +  C +L+ +   + +     L  L +     L+
Sbjct:   721 KRNETVLPLH-IPTTTTFFPNLSQVSLEFCTRLRDL---TWLIFAPNLTVLRVISASDLK 776

Query:   753 EIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKI 809
             E+I++ + +Q      F  +  L+L+ +  L+ ++ G     +P L+ ++   C ++
Sbjct:   777 EVINKEKAEQQNL-IPFQELKELRLENVQMLKHIHRG--PLPFPCLQKILVNGCSEL 830

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 = 331 (121.6 bits), Expect = 9.0e-41, Sum P(3) = 9.0e-41
 Identities = 144/539 (26%), Positives = 247/539 (45%)

Query:   297 LSEEEAWRLFKIMNGDDV--ENCKFKPTAINVAQACGGLPIALTTVARALRNKSL-HEWK 353
             L  E+AW LFK   GD+    +      A  VAQ C GLP+AL+ +   + +K++  EW+
Sbjct:   198 LEPEDAWELFKNKVGDNTLRSDPVIVELAREVAQKCRGLPLALSVIGETMASKTMVQEWE 257

Query:   354 NALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLI--GNSFYLIDLLR 411
             +A+ ++ T S   F  +  +    ++ S+  L  E +K  FL C+L    +  Y   L+ 
Sbjct:   258 HAI-DVLTRSAAEFSNMGNKILPILKYSYDSLGDEHIKSCFLYCALFPEDDEIYNEKLID 316

Query:   412 YSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIAC-- 469
             Y +  G       ++ ARNK Y ++  L    LL +    E   MHDVV ++A+ IA   
Sbjct:   317 YWICEGFIGEDQVIKRARNKGYEMLGTLTLANLLTKVG-TEHVVMHDVVREMALWIASDF 375

Query:   470 -RDQHVFLVR-NDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITF 527
              + +  F+VR    + E P+         +SL+++ I E++ E +C +L  L +      
Sbjct:   376 GKQKENFVVRARVGLHERPEAKDWGAVRRMSLMDNHIEEITCESKCSELTTLFLQSN--- 432

Query:   528 AEL-NIPDNFFKGMKKLRVVDLTRVRLFS-LPSSIGQLTKLRMLDLTDCLQLKFIVPNI- 584
              +L N+   F + M+KL V+DL+  R F+ LP  I  L  L+ LDL++   +K +   + 
Sbjct:   433 -QLKNLSGEFIRYMQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNT-SIKQLPVGLK 490

Query:   585 -LSSFTRLEELY-MGSCSIKWEVRK---------GNSERSNAS-LDELMHLQRLTTLEID 632
              L   T L   Y +  CSI    R          G+    +AS L EL  LQ L  L I 
Sbjct:   491 KLKKLTFLNLAYTVRLCSISGISRLLSLRLLRLLGSKVHGDASVLKELQKLQNLQHLAIT 550

Query:   633 VEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTF-NIQSIYIFCIVMALELN 691
             +  +  L      ++L      +G   F   K     +  +  N+ S+++     + E+ 
Sbjct:   551 LSAELSL-----NQRLANLISILGIEGF-LQKPFDLSFLASMENLSSLWVKNSYFS-EIK 603

Query:   692 AINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSL 751
                 +    Y ++   +PCF +L+RL +  C  +K +   + I     L +L I   + +
Sbjct:   604 CRESETASSYLRINPKIPCFTNLSRLGLSKCHSIKDL---TWILFAPNLVYLYIEDSREV 660

Query:   752 QEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLY-PGMHTSEWPALKNLVACNCDKI 809
              EII++ +   +T+   F ++  L L  LP+L  +Y   +H   +P L  +   +C K+
Sbjct:   661 GEIINKEKATNLTSITPFLKLERLILYNLPKLESIYWSPLH---FPRLLIIHVLDCPKL 716

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

---

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	1085
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	1e-31
pfam13401	124	pfam13401, AAA_22, AAA domain	6e-08
PLN03210	1153	PLN03210, PLN03210, Resistant to P	6e-07
smart00382	148	smart00382, AAA, ATPases associated with a variety	9e-05
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	0.001
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.002

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

 Score =  125 bits (316), Expect = 1e-31
 Identities = 70/247 (28%), Positives = 117/247 (47%), Gaps = 34/247 (13%)

Query: 181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLE 240
           N+ ++G+ GMGG+GKTTL K+          FD V +  VS+T    ++Q +I ++LGL+
Sbjct: 18  NLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFRLQKDILQELGLD 77

Query: 241 --LSDEAEYR-RASRLYERLKNENKILVILDNIWKYLDLDTIGIPF-------------- 283
                E      A ++ E L    + L++LD++W+  D D IG+PF              
Sbjct: 78  DSDWVEKNESELAVKIKEALL-RKRFLLVLDDVWEKNDWDKIGVPFPDGENGSRVIVTTR 136

Query: 284 --------GNDHEGYNFLIGNLSEEEAWRLF--KIMNGDDVENCKFKPTAINVAQACGGL 333
                   G   + +   + +L  EE+W LF  K+   +     + +  A  + + C GL
Sbjct: 137 SESVAGRMGGTSKPHE--VESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVEKCKGL 194

Query: 334 PIALTTVARALRNKS-LHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKK 392
           P+AL  +   L  KS + EW++ L +L    +   +G+  E  S + LS+  L    LK+
Sbjct: 195 PLALKVLGGLLAFKSTVQEWEHVLEQLN-NELAGRDGL-NEVLSILSLSYDNLP-MHLKR 251

Query: 393 IFLLCSL 399
            FL  +L
Sbjct: 252 CFLYLAL 258

Length = 285

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

 Score = 51.9 bits (125), Expect = 6e-08
 Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 4/84 (4%)

Query: 187 VYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAE 246
           + G  G GKTTL++  ARQ        RVV+ E       K +  +I   LGL LS    
Sbjct: 9   LTGESGSGKTTLLRRLARQLPN----RRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTT 64

Query: 247 YRRASRLYERLKNENKILVILDNI 270
                 + + LK   + L+I+D  
Sbjct: 65  AELLEAILDALKRRGRPLLIIDEA 88

Length = 124

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

 Score = 53.7 bits (129), Expect = 6e-07
 Identities = 171/705 (24%), Positives = 273/705 (38%), Gaps = 157/705 (22%)

Query: 182 VSIIGVYGMGGIGKTT----LVKEFARQAREKKLFDRVVFSEV-----SQTPDIKKIQGE 232
           V ++G++G  GIGKTT    L    +RQ +     DR   S+      S  PD   ++  
Sbjct: 207 VRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLH 266

Query: 233 IAEKLGLELSDEAEYR--RASRLYERLKNENKILVILDNIWKYLDLDTIGIP---FGNDH 287
           +      E+ D+ + +      + ERLK+  K+L+ +D++     LD +      FG+  
Sbjct: 267 LQRAFLSEILDKKDIKIYHLGAMEERLKHR-KVLIFIDDLDDQDVLDALAGQTQWFGSGS 325

Query: 288 ------EGYNFLIGNL----------SEEEAWRLF------KIMNGDDVENCKFKPTAIN 325
                 +  +FL  +           S E A  +F      K    D      F   A  
Sbjct: 326 RIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDG-----FMELASE 380

Query: 326 VAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYL 385
           VA   G LP+ L  +   LR +   +W + L  L+        G+  +   ++ +S+  L
Sbjct: 381 VALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRN-------GLDGKIEKTLRVSYDGL 433

Query: 386 KGEQLKKIF--LLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCC 443
             ++ K IF  + C   G     I LL  +  L +  G+  + D      +L+H      
Sbjct: 434 NNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDK-----SLIHV----- 483

Query: 444 LLLEGDRNETFYMHDVVCDVAVSIACRDQ------HVFLVRNDAVWE-WPDGDALKKCYA 496
                 R +   MH ++ ++   I  R Q        FLV    + +   D    KK   
Sbjct: 484 ------REDIVEMHSLLQEMGKEIV-RAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLG 536

Query: 497 ISL-LNSS----IHEVSLEFECPQLEFLHIDPKITFAELNI----PDNFFKGMKKLRVVD 547
           I+L ++      IHE + +     L FL    K    +  +    P+ F     KLR++ 
Sbjct: 537 ITLDIDEIDELHIHENAFK-GMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLR 595

Query: 548 LTRVRLFSLPSS----------------------IGQLTKLRMLDLTDCLQLKFIVPNIL 585
             +  L  +PS+                      +  LT LR +DL     LK I P+ L
Sbjct: 596 WDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEI-PD-L 653

Query: 586 SSFTRLEELYMGSCSIKWEVRKGNSERSNASLDEL----MHLQRLTTLEID-VEDDSILP 640
           S  T LE L +  CS               SL EL     +L +L  L++   E+  ILP
Sbjct: 654 SMATNLETLKLSDCS---------------SLVELPSSIQYLNKLEDLDMSRCENLEILP 698

Query: 641 DGLFTKKLERFDISIGDG--SFD--STKIIGNDWFQTFNIQSIYIFCIVMALE------L 690
            G+  K L R ++S      SF   ST I   D  +T    +I  F   + LE      L
Sbjct: 699 TGINLKSLYRLNLSGCSRLKSFPDISTNISWLDLDET----AIEEFPSNLRLENLDELIL 754

Query: 691 NAINVDEIWHYNQL--PAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLC 748
             +  +++W   Q   P M     SLTRL +   D    +   S+IQ+L +L+HLEI  C
Sbjct: 755 CEMKSEKLWERVQPLTPLMTMLSPSLTRLFL--SDIPSLVELPSSIQNLHKLEHLEIENC 812

Query: 749 KSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTS 793
            +L+ + +               + +L L G   LR  +P + T+
Sbjct: 813 INLETLPTG---------INLESLESLDLSGCSRLRT-FPDISTN 847

syringae 6; Provisional. Length = 1153

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

 Score = 43.5 bits (102), Expect = 9e-05
 Identities = 22/95 (23%), Positives = 34/95 (35%), Gaps = 3/95 (3%)

Query: 184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD 243
           +I + G  G GKTTL +  AR+          +  E      + ++   I        S 
Sbjct: 4   VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSG 63

Query: 244 EAEYRRASRLYERLKNENKILVILDNIWKYLDLDT 278
           E   R A       +     ++ILD I   LD + 
Sbjct: 64  ELRLRLA---LALARKLKPDVLILDEITSLLDAEQ 95

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

>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 22/96 (22%), Positives = 37/96 (38%), Gaps = 11/96 (11%)

Query: 184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS- 242
           +I V+G  G GKTTL  + A     K    +VV+ ++ +  +    +       G   + 
Sbjct: 1   LILVFGPTGSGKTTLALQLALNIATKG--GKVVYVDIEEEIEELTERLIGESLKGALDNL 58

Query: 243 --------DEAEYRRASRLYERLKNENKILVILDNI 270
                   D A  R  S+     +     L+ILD +
Sbjct: 59  IIVFATADDPAAARLLSKAERLRERGGDDLIILDEL 94

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. Length = 165

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 42.4 bits (100), Expect = 0.002
 Identities = 45/233 (19%), Positives = 84/233 (36%), Gaps = 38/233 (16%)

Query: 39  NANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFVEDE 98
              LE LK E+  L++E   I+ R+ E  ++  +   K+ +        I++  + +E E
Sbjct: 680 RERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGE--------IEKEIEQLEQE 731

Query: 99  ESTNKRCLKGLCPNLKTRYQLSKKAETEVKA-LVELGEEV--KKFDIVSHRTTPEEI--- 152
           E   K  L+     L+      ++    VK+ L EL   +   + D+        ++   
Sbjct: 732 EEKLKERLE----ELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEAR 787

Query: 153 -----WLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR 207
                  +        E  VS    I+  L ++            + + TL KE+  +  
Sbjct: 788 LSHSRIPEIQAELSKLEEEVS---RIEARLREIEQK---------LNRLTLEKEYLEKEI 835

Query: 208 EKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASR-LYERLKN 259
           ++    R+   E  Q   I+K    +  K      +  E   A R L  RL +
Sbjct: 836 QELQEQRIDLKE--QIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGD 886

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	1085
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;	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.98
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.92
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.91
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.89
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.89
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.88
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.88
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.86
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.86
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.86
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.69
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.6
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.6
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.57
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.43
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.41
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.41
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.24
PRK04841	903	transcriptional regulator MalT; Provisional	99.16
KOG4341	483	consensus F-box protein containing LRR [General fu	99.13
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.13
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.08
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.07
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.06
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.05
KOG4341	483	consensus F-box protein containing LRR [General fu	99.02
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.91
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.9
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.87
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.83
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.71
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.69
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.67
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.61
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.58
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.55
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.53
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.51
PTZ00202	550	tuzin; Provisional	98.5
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.5
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.5
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.47
PF05729	166	NACHT: NACHT domain	98.45
COG3899	849	Predicted ATPase [General function prediction only	98.45
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.43
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.42
PRK13342	413	recombination factor protein RarA; Reviewed	98.4
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.4
cd01128	249	rho_factor Transcription termination factor rho is	98.39
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.37
PRK09376	416	rho transcription termination factor Rho; Provisio	98.37
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.27
KOG2028	554	consensus ATPase related to the helicase subunit o	98.23
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.23
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.2
PRK04195	482	replication factor C large subunit; Provisional	98.16
PRK15386	426	type III secretion protein GogB; Provisional	98.15
PRK15386	426	type III secretion protein GogB; Provisional	98.1
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.09
TIGR00767	415	rho transcription termination factor Rho. Members	98.08
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.07
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.07
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.06
PLN03150	623	hypothetical protein; Provisional	98.05
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.05
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.04
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.04
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.03
PLN03025	319	replication factor C subunit; Provisional	98.03
PRK12402	337	replication factor C small subunit 2; Reviewed	97.99
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.97
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.97
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.96
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.96
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.92
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.92
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.91
PF13173	128	AAA_14: AAA domain	97.88
PLN03150	623	hypothetical protein; Provisional	97.88
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.88
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.87
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.87
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.85
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.83
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	97.82
PRK13341	725	recombination factor protein RarA/unknown domain f	97.81
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.81
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.8
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.77
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.77
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.77
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	97.76
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.75
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.74
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.72
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.71
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.7
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	97.7
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.69
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.69
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.68
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.68
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.68
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	97.67
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.67
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	97.66
PRK06893	229	DNA replication initiation factor; Validated	97.66
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.65
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.61
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.6
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.6
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.56
COG3903	414	Predicted ATPase [General function prediction only	97.53
PF14516	331	AAA_35: AAA-like domain	97.51
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.49
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.48
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.46
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.44
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.43
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.43
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.42
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.42
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.42
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.42
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.41
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.4
PF00004	132	AAA: ATPase family associated with various cellula	97.39
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.38
CHL00095	821	clpC Clp protease ATP binding subunit	97.36
PRK09087	226	hypothetical protein; Validated	97.36
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.35
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.35
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.32
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.29
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.29
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.28
PRK08084	235	DNA replication initiation factor; Provisional	97.27
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.27
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.26
PRK08118	167	topology modulation protein; Reviewed	97.26
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.26
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.26
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.22
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.22
PHA02544	316	44 clamp loader, small subunit; Provisional	97.21
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.21
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.18
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.18
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.17
PHA00729	226	NTP-binding motif containing protein	97.17
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.17
PRK12608	380	transcription termination factor Rho; Provisional	97.16
CHL00181	287	cbbX CbbX; Provisional	97.16
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.15
smart00382	148	AAA ATPases associated with a variety of cellular	97.14
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.14
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.12
PRK08727	233	hypothetical protein; Validated	97.11
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.08
PRK10536	262	hypothetical protein; Provisional	97.07
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.06
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.04
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.99
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	96.99
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	96.99
PRK07399	314	DNA polymerase III subunit delta'; Validated	96.98
PRK10865	857	protein disaggregation chaperone; Provisional	96.91
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.89
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.85
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.83
PRK07261	171	topology modulation protein; Provisional	96.82
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.8
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.78
CHL00176	638	ftsH cell division protein; Validated	96.78
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.76
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.73
PRK08939	306	primosomal protein DnaI; Reviewed	96.69
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	96.67
PRK14088	440	dnaA chromosomal replication initiation protein; P	96.63
PRK12377	248	putative replication protein; Provisional	96.62
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.61
PRK05642	234	DNA replication initiation factor; Validated	96.61
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.61
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.56
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.56
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.52
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.52
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.49
PRK08116	268	hypothetical protein; Validated	96.46
PRK05707	328	DNA polymerase III subunit delta'; Validated	96.45
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.45
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.44
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	96.43
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.43
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.41
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.4
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.39
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	96.38
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.35
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.32
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.29
PRK08181	269	transposase; Validated	96.27
PRK07952	244	DNA replication protein DnaC; Validated	96.26
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	96.25
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.19
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.19
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.17
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.13
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.13
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.11
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.1
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.07
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.06
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.05
PRK12422	445	chromosomal replication initiation protein; Provis	96.02
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.01
PRK14086	617	dnaA chromosomal replication initiation protein; P	96.0
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.0
PRK05541	176	adenylylsulfate kinase; Provisional	95.96
PRK06696	223	uridine kinase; Validated	95.94
PRK08058	329	DNA polymerase III subunit delta'; Validated	95.94
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	95.93
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.93
KOG1969	877	consensus DNA replication checkpoint protein CHL12	95.93
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.92
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.92
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.91
PRK10865	857	protein disaggregation chaperone; Provisional	95.9
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.9
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	95.83
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	95.82
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	95.81
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.81
KOG0736	953	consensus Peroxisome assembly factor 2 containing	95.78
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.75
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.74
PRK06921	266	hypothetical protein; Provisional	95.74
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.73
PRK15455	644	PrkA family serine protein kinase; Provisional	95.72
PRK09354	349	recA recombinase A; Provisional	95.72
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.71
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.7
PTZ00494	664	tuzin-like protein; Provisional	95.68
PRK10867	433	signal recognition particle protein; Provisional	95.67
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	95.66
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	95.62
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.59
PRK06871	325	DNA polymerase III subunit delta'; Validated	95.59
PRK06526	254	transposase; Provisional	95.54
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.54
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	95.52
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.46
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.45
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	95.45
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	95.44
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.41
PRK06620	214	hypothetical protein; Validated	95.4
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.37
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	95.35
PRK09183	259	transposase/IS protein; Provisional	95.33
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.32
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.32
PRK07993	334	DNA polymerase III subunit delta'; Validated	95.32
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	95.31
PRK06547	172	hypothetical protein; Provisional	95.3
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.25
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.25
PTZ00035	337	Rad51 protein; Provisional	95.19
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.17
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.15
PRK00149	450	dnaA chromosomal replication initiation protein; R	95.14
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	95.13
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.13
PRK14974	336	cell division protein FtsY; Provisional	95.11
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.11
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.1
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.09
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	95.08
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.08
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.06
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	95.03
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	95.02
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.01
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	95.0
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	94.98
PRK04301	317	radA DNA repair and recombination protein RadA; Va	94.97
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	94.96
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	94.95
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	94.9
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	94.9
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.9
PRK13531	498	regulatory ATPase RavA; Provisional	94.88
PRK07667	193	uridine kinase; Provisional	94.87
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	94.86
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	94.85
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	94.85
PRK06835	329	DNA replication protein DnaC; Validated	94.85
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	94.84
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	94.84
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.83
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	94.81
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.8
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	94.79
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	94.77
CHL00195	489	ycf46 Ycf46; Provisional	94.77
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	94.75
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.74
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	94.74
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	94.69
TIGR00959	428	ffh signal recognition particle protein. This mode	94.65
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	94.63
TIGR00064	272	ftsY signal recognition particle-docking protein F	94.62
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	94.62
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	94.55
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	94.51
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.51
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	94.5
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	94.49
PRK05480	209	uridine/cytidine kinase; Provisional	94.49
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.49
PRK05439	311	pantothenate kinase; Provisional	94.49
PTZ00301	210	uridine kinase; Provisional	94.46
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	94.46
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	94.44
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.42
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	94.41
PRK08233	182	hypothetical protein; Provisional	94.41
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.41
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	94.4
PTZ00088	229	adenylate kinase 1; Provisional	94.4
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	94.39
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.39
PF00154	322	RecA: recA bacterial DNA recombination protein; In	94.36
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	94.35
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	94.35
PRK04296	190	thymidine kinase; Provisional	94.33
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	94.31
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	94.31
PRK04328	249	hypothetical protein; Provisional	94.29
PRK06964	342	DNA polymerase III subunit delta'; Validated	94.26
KOG3864	221	consensus Uncharacterized conserved protein [Funct	94.26
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	94.24
PRK03839	180	putative kinase; Provisional	94.21
PRK06067	234	flagellar accessory protein FlaH; Validated	94.21
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	94.14
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	94.14
PRK00625	173	shikimate kinase; Provisional	94.13
PRK06762	166	hypothetical protein; Provisional	94.12
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.1
PRK04040	188	adenylate kinase; Provisional	94.08
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	94.06
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	94.04
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	94.03
PRK13765	637	ATP-dependent protease Lon; Provisional	94.02
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	94.01
CHL00095	821	clpC Clp protease ATP binding subunit	93.98
PRK06217	183	hypothetical protein; Validated	93.96
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	93.96
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	93.91
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	93.9
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	93.89
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	93.86
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	93.84
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	93.81
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	93.79
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	93.79
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	93.76
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	93.72
PRK04132	846	replication factor C small subunit; Provisional	93.7
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	93.67
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	93.67
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	93.63
PRK13949	169	shikimate kinase; Provisional	93.63
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	93.61
PRK06851	367	hypothetical protein; Provisional	93.59
PF07726	131	AAA_3: ATPase family associated with various cellu	93.58
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	93.5
PF13245	76	AAA_19: Part of AAA domain	93.49
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	93.43
PRK09519	790	recA DNA recombination protein RecA; Reviewed	93.42
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	93.38
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	93.38
PRK08149	428	ATP synthase SpaL; Validated	93.36
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	93.32
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	93.3
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	93.29
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.29
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	93.27
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	93.25
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	93.25
PRK11823	446	DNA repair protein RadA; Provisional	93.21
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	93.21
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	93.18
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	93.14
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	93.13
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	93.11
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	93.1
PRK00131	175	aroK shikimate kinase; Reviewed	93.05
PRK00889	175	adenylylsulfate kinase; Provisional	93.04
PRK13768	253	GTPase; Provisional	93.04
PRK12678	672	transcription termination factor Rho; Provisional	92.99
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	92.99
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	92.99
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	92.99
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	92.96
PRK15453	290	phosphoribulokinase; Provisional	92.94
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	92.93
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	92.92
COG0593	408	DnaA ATPase involved in DNA replication initiation	92.92
PTZ00185	574	ATPase alpha subunit; Provisional	92.91
PRK13947	171	shikimate kinase; Provisional	92.91
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	92.9
KOG3864	221	consensus Uncharacterized conserved protein [Funct	92.89
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	92.87
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	92.85
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	92.84
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	92.83
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	92.83
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	92.83
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	92.8
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	92.79
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	92.77
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	92.75
COG0714	329	MoxR-like ATPases [General function prediction onl	92.75
PRK13234	295	nifH nitrogenase reductase; Reviewed	92.75
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	92.72
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	92.72
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	92.72
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	92.7
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.69
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	92.65
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	92.63
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	92.62
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	92.62
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	92.62
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	92.62
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	92.56
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	92.53
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	92.52
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	92.51
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	92.51
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	92.49
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	92.48
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	92.48
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	92.46
PRK13695	174	putative NTPase; Provisional	92.39
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	92.37
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	92.37
PRK14530	215	adenylate kinase; Provisional	92.36
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	92.35
PRK06936	439	type III secretion system ATPase; Provisional	92.32
TIGR01287	275	nifH nitrogenase iron protein. This model describe	92.31
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	92.27
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	92.22
PRK14529	223	adenylate kinase; Provisional	92.2
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	92.17
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	92.15
PRK08699	325	DNA polymerase III subunit delta'; Validated	92.14
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	92.12
PRK05922	434	type III secretion system ATPase; Validated	92.11
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	92.11
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	92.1
PRK05057	172	aroK shikimate kinase I; Reviewed	92.1
PRK12339	197	2-phosphoglycerate kinase; Provisional	92.08
PRK00300	205	gmk guanylate kinase; Provisional	92.05
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	92.03
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	92.01
PRK13236	296	nitrogenase reductase; Reviewed	92.01
PRK13975	196	thymidylate kinase; Provisional	92.0
CHL00060	494	atpB ATP synthase CF1 beta subunit	91.99
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	91.93
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	91.9
cd02117	212	NifH_like This family contains the NifH (iron prot	91.89
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	91.85
PRK09099	441	type III secretion system ATPase; Provisional	91.84
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	91.83
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	91.81
PRK03846	198	adenylylsulfate kinase; Provisional	91.81
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	91.77
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	91.75
PRK04196	460	V-type ATP synthase subunit B; Provisional	91.73
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	91.71
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	91.67
cd03116	159	MobB Molybdenum is an essential trace element in t	91.65
PRK13948	182	shikimate kinase; Provisional	91.64
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	91.63
PRK13946	184	shikimate kinase; Provisional	91.6
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	91.59
cd02040	270	NifH NifH gene encodes component II (iron protein)	91.55
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	91.54
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	91.54
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	91.5
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	91.48
PRK00279	215	adk adenylate kinase; Reviewed	91.46
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	91.44
PRK14737	186	gmk guanylate kinase; Provisional	91.43

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.7e-78  Score=721.44  Aligned_cols=572  Identities=29%  Similarity=0.463  Sum_probs=462.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHhHhhccc-----------------cc
Q 037935           43 ENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEESTNK-----------------RC  105 (1085)
Q Consensus        43 ~~~~~~~~~l~~~l~~~~~~l~~a~~~~~~~~~~~~~wl~~~~~~~~~~ed~ld~~~~~~~-----------------~~  105 (1085)
                      .+.++.+..|++.+..++.++++++.+ +.....+..|...+++++|+++|.++.+.....                 -|
T Consensus        24 ~~~~~~i~~Lk~~L~~l~~~l~d~~a~-~~~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c  102 (889)
T KOG4658|consen   24 DGKDNYILELKENLKALQSALEDLDAK-RDDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLC  102 (889)
T ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHhh-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHh
Confidence            356667888888888888899999877 344678889999999999999999986642111                 01


Q ss_pred             ccCcC-CChhHHHHHhHHHHHHHHHHHHHHHhccccccccc-cCCChhhhcccCCCCccccchHHHHHHHHHHhccCCce
Q 037935          106 LKGLC-PNLKTRYQLSKKAETEVKALVELGEEVKKFDIVSH-RTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVS  183 (1085)
Q Consensus       106 ~~~~~-~~~~~r~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~gr~~~~~~l~~~l~~~~~~  183 (1085)
                      +.+.+ .....-+.+++++-.+.+.++.+. ....|..+.. ..++....+.|...... +|.+..++++.+.|.+++..
T Consensus       103 ~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~-~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~~~  180 (889)
T KOG4658|consen  103 LCGFCSKNVSDSYKYGKRVSKVLREVESLG-SKGVFEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDDVG  180 (889)
T ss_pred             hhhhHhHhhhhhHhHHHHHHHHHHHHHHhc-cccceecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCCCC
Confidence            11111 112222344445555555555442 2222333322 11222233334333333 99999999999999977779


Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh-hccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCc---hHHHHHHHHHHHHHc
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR-EKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDE---AEYRRASRLYERLKN  259 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~-~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~~l~~  259 (1085)
                      +++|+||||+||||||+.++|+.. ++++||.++||.||+.++...++++|+..++......   ........+.+.+ +
T Consensus       181 iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L-~  259 (889)
T KOG4658|consen  181 IVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLL-E  259 (889)
T ss_pred             EEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHh-c
Confidence            999999999999999999999988 9999999999999999999999999999998744322   2233344555555 5


Q ss_pred             CCcEEEEEeCCCCcccccccccccCCCCCCcEEEe--------------------cCCCHHHHHHHHHHhcCCC--CCCC
Q 037935          260 ENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLI--------------------GNLSEEEAWRLFKIMNGDD--VENC  317 (1085)
Q Consensus       260 ~~~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv--------------------~~l~~~~~~~lf~~~~~~~--~~~~  317 (1085)
                      +|||+||+||||+..+|+.++.++|...+||+|++                    +.|+++|||.||++.+|..  ...+
T Consensus       260 ~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~  339 (889)
T KOG4658|consen  260 GKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHP  339 (889)
T ss_pred             cCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccccccc
Confidence            99999999999999999999999999999999998                    8899999999999999854  3345


Q ss_pred             CchHHHHHHHHHhCCchHHHHHHHHHHhcC-CHHHHHHHHHHhcCCCCCCCCCCcccchhhHHHHHhcCChHHHHHHHHh
Q 037935          318 KFKPTAINVAQACGGLPIALTTVARALRNK-SLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLL  396 (1085)
Q Consensus       318 ~~~~~~~~i~~~~~glPlai~~~~~~l~~~-~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~  396 (1085)
                      .++++|++++++|+|+|||+.++|+.|+.+ +..+|+++++.+.+....+.+++.+.+++++++||+.|| +++|.||+|
T Consensus       340 ~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~-~~lK~CFLy  418 (889)
T KOG4658|consen  340 DIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLP-EELKSCFLY  418 (889)
T ss_pred             cHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhh-HHHHHHHHh
Confidence            589999999999999999999999999955 888999999999888666667778899999999999999 589999999


Q ss_pred             ccccCCC--CCHHHHHHHHhhcCCCCCCchHHHHHHHHHHHHHHHhHcccceecC---CcceEEEcHHHHHHHHHHhh--
Q 037935          397 CSLIGNS--FYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGD---RNETFYMHDVVCDVAVSIAC--  469 (1085)
Q Consensus       397 ~s~fp~~--i~~~~li~~w~~~g~~~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~---~~~~~~mHdl~~~~~~~~~~--  469 (1085)
                      ||+||+|  |+++.|+.+|+||||+.+....+.+.+.+++|+.+|++++|++..+   +..+|+|||+|||+|.++|+  
T Consensus       419 calFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~  498 (889)
T KOG4658|consen  419 CALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDF  498 (889)
T ss_pred             hccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccc
Confidence            9999998  9999999999999999885556666677778899999999998764   45799999999999999999  


Q ss_pred             ---ccceeEEEec-CccccCCCccccccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceE
Q 037935          470 ---RDQHVFLVRN-DAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRV  545 (1085)
Q Consensus       470 ---~e~~~~~~~~-~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~  545 (1085)
                         +++.++  .. .+....+....+..+|++++.++.+..++....+++|++|.+.+|.. ....++..+|..++.||+
T Consensus       499 ~~~~e~~iv--~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~-~l~~is~~ff~~m~~LrV  575 (889)
T KOG4658|consen  499 GKQEENQIV--SDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSD-WLLEISGEFFRSLPLLRV  575 (889)
T ss_pred             cccccceEE--ECCcCccccccccchhheeEEEEeccchhhccCCCCCCccceEEEeecch-hhhhcCHHHHhhCcceEE
Confidence               666333  33 24445566677889999999999999999999999999999999862 156788889999999999


Q ss_pred             EEecCC-cccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCC
Q 037935          546 VDLTRV-RLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQ  624 (1085)
Q Consensus       546 L~Ls~~-~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~  624 (1085)
                      |||++| .+.++|++|++|.|||||+++++ .+..+|.++ ++|..|++||+..+.....           .+..+..|+
T Consensus       576 LDLs~~~~l~~LP~~I~~Li~LryL~L~~t-~I~~LP~~l-~~Lk~L~~Lnl~~~~~l~~-----------~~~i~~~L~  642 (889)
T KOG4658|consen  576 LDLSGNSSLSKLPSSIGELVHLRYLDLSDT-GISHLPSGL-GNLKKLIYLNLEVTGRLES-----------IPGILLELQ  642 (889)
T ss_pred             EECCCCCccCcCChHHhhhhhhhcccccCC-CccccchHH-HHHHhhheecccccccccc-----------ccchhhhcc
Confidence            999977 57889999999999999999999 999999996 9999999999998876322           234466799


Q ss_pred             CCcEEEEEecc
Q 037935          625 RLTTLEIDVED  635 (1085)
Q Consensus       625 ~L~~L~l~~~~  635 (1085)
                      +|++|.+....
T Consensus       643 ~Lr~L~l~~s~  653 (889)
T KOG4658|consen  643 SLRVLRLPRSA  653 (889)
T ss_pred             cccEEEeeccc
Confidence            99999998765

>PLN03210 Resistant to P

Probab=100.00  E-value=4.6e-60  Score=599.54  Aligned_cols=668  Identities=21%  Similarity=0.286  Sum_probs=468.5

Q ss_pred             CCCccccchHHHHHHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe---CCC---------
Q 037935          158 KGYEAFESRVSTLKSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV---SQT---------  223 (1085)
Q Consensus       158 ~~~~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~---~~~---------  223 (1085)
                      .+.+.++||+..++++..++.  .+++++|+||||||+||||||+++|+...  .+|+..+|+..   +..         
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~--~~F~g~vfv~~~~v~~~~~~~~~~~~  258 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLS--RQFQSSVFIDRAFISKSMEIYSSANP  258 (1153)
T ss_pred             cccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHh--hcCCeEEEeeccccccchhhcccccc
Confidence            345679999999999998875  56789999999999999999999999876  45988877642   111         


Q ss_pred             --cC-HHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcccccccccccCCCCCCcEEEe------
Q 037935          224 --PD-IKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLI------  294 (1085)
Q Consensus       224 --~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv------  294 (1085)
                        ++ ...++++++.++.......  ......+.+.+ .++|+||||||||+..+|+.+.....+.+.||+|||      
T Consensus       259 ~~~~~~~~l~~~~l~~il~~~~~~--~~~~~~~~~~L-~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~  335 (1153)
T PLN03210        259 DDYNMKLHLQRAFLSEILDKKDIK--IYHLGAMEERL-KHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKH  335 (1153)
T ss_pred             cccchhHHHHHHHHHHHhCCCCcc--cCCHHHHHHHH-hCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHH
Confidence              01 1234445554442221110  00112344555 499999999999999999998876677788999998      


Q ss_pred             -------------cCCCHHHHHHHHHHhcCCCC-CCCCchHHHHHHHHHhCCchHHHHHHHHHHhcCCHHHHHHHHHHhc
Q 037935          295 -------------GNLSEEEAWRLFKIMNGDDV-ENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQ  360 (1085)
Q Consensus       295 -------------~~l~~~~~~~lf~~~~~~~~-~~~~~~~~~~~i~~~~~glPlai~~~~~~l~~~~~~~w~~~~~~l~  360 (1085)
                                   +.+++++||+||+.+||... +..++.+++++|+++|+|+|||++++|++|++++..+|+.++++++
T Consensus       336 vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~  415 (1153)
T PLN03210        336 FLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLR  415 (1153)
T ss_pred             HHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence                         77899999999999997533 3446789999999999999999999999999999999999999886


Q ss_pred             CCCCCCCCCCcccchhhHHHHHhcCChHHHHHHHHhccccCCCCCHHHHHHHHhhcCCCCCCchHHHHHHHHHHHHHHHh
Q 037935          361 TPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELR  440 (1085)
Q Consensus       361 ~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~fp~~i~~~~li~~w~~~g~~~~~~~~~~~~~~~~~~~~~L~  440 (1085)
                      ...       +.++..+|++||++|+++..|.||+++|+|+.+.+.+. +..|++.+....           ...++.|+
T Consensus       416 ~~~-------~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~-v~~~l~~~~~~~-----------~~~l~~L~  476 (1153)
T PLN03210        416 NGL-------DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVND-IKLLLANSDLDV-----------NIGLKNLV  476 (1153)
T ss_pred             hCc-------cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHH-HHHHHHhcCCCc-----------hhChHHHH
Confidence            543       45799999999999986458999999999998876665 556666654321           11278899


Q ss_pred             HcccceecCCcceEEEcHHHHHHHHHHhhccceeEEEecCccccCCC---------ccccccceEEEeeccCcccccccC
Q 037935          441 DCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVRNDAVWEWPD---------GDALKKCYAISLLNSSIHEVSLEF  511 (1085)
Q Consensus       441 ~~~ll~~~~~~~~~~mHdl~~~~~~~~~~~e~~~~~~~~~~~~~~~~---------~~~~~~~r~Lsl~~~~~~~l~~~~  511 (1085)
                      ++||++..  .+.++|||++|+|+++++.++...   .+.+..-|..         .....+++.+++....+.      
T Consensus       477 ~ksLi~~~--~~~~~MHdLl~~~~r~i~~~~~~~---~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~------  545 (1153)
T PLN03210        477 DKSLIHVR--EDIVEMHSLLQEMGKEIVRAQSNE---PGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEID------  545 (1153)
T ss_pred             hcCCEEEc--CCeEEhhhHHHHHHHHHHHhhcCC---CCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccc------
Confidence            99999875  357999999999999998765210   0000001111         111223444444332221      


Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcc-------cCCchhhhccc-cccEEeccCcccccccchh
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRL-------FSLPSSIGQLT-KLRMLDLTDCLQLKFIVPN  583 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i-------~~lp~~i~~L~-~L~~L~Ls~~~~l~~lp~~  583 (1085)
                                       ...+....|.+|++|++|.+..+..       ..+|..+..++ +|++|++.++ .++.+|..
T Consensus       546 -----------------~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~-~l~~lP~~  607 (1153)
T PLN03210        546 -----------------ELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKY-PLRCMPSN  607 (1153)
T ss_pred             -----------------eeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCC-CCCCCCCc
Confidence                             1223445577777777777765432       13566666553 4777777777 77777765


Q ss_pred             hhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEecc-CCCCCCcccccccceeeEEecCCCccc
Q 037935          584 ILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVED-DSILPDGLFTKKLERFDISIGDGSFDS  662 (1085)
Q Consensus       584 ~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~-~~~~~~~~~l~~L~~L~l~~~~~~~~~  662 (1085)
                      +  ...+|++|++.+|.+..            .+..+..+++|+.|+++++. +..+                       
T Consensus       608 f--~~~~L~~L~L~~s~l~~------------L~~~~~~l~~Lk~L~Ls~~~~l~~i-----------------------  650 (1153)
T PLN03210        608 F--RPENLVKLQMQGSKLEK------------LWDGVHSLTGLRNIDLRGSKNLKEI-----------------------  650 (1153)
T ss_pred             C--CccCCcEEECcCccccc------------cccccccCCCCCEEECCCCCCcCcC-----------------------
Confidence            3  46777777777776532            22334556666766665442 2211                       


Q ss_pred             ccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccE
Q 037935          663 TKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQH  742 (1085)
Q Consensus       663 ~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~  742 (1085)
                                                                |. ++.+++|+.|+|++|..+..+|.  .++.+++|+.
T Consensus       651 ------------------------------------------p~-ls~l~~Le~L~L~~c~~L~~lp~--si~~L~~L~~  685 (1153)
T PLN03210        651 ------------------------------------------PD-LSMATNLETLKLSDCSSLVELPS--SIQYLNKLED  685 (1153)
T ss_pred             ------------------------------------------Cc-cccCCcccEEEecCCCCccccch--hhhccCCCCE
Confidence                                                      21 34567999999999999988743  5899999999


Q ss_pred             EEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCC
Q 037935          743 LEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGV  822 (1085)
Q Consensus       743 L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~  822 (1085)
                      |++++|..++.++...         .+++|+.|.+++|..+..++.     ..++|+.|.+.++. +..+|..       
T Consensus       686 L~L~~c~~L~~Lp~~i---------~l~sL~~L~Lsgc~~L~~~p~-----~~~nL~~L~L~~n~-i~~lP~~-------  743 (1153)
T PLN03210        686 LDMSRCENLEILPTGI---------NLKSLYRLNLSGCSRLKSFPD-----ISTNISWLDLDETA-IEEFPSN-------  743 (1153)
T ss_pred             EeCCCCCCcCccCCcC---------CCCCCCEEeCCCCCCcccccc-----ccCCcCeeecCCCc-ccccccc-------
Confidence            9999999887765432         378999999999987766532     24678888887764 3333311       


Q ss_pred             CCCCCcccccccCCccceeeeccCCceeeeccc-----CCcCccCCceEEEecCC-cccccchhHHhhccccceEEeecc
Q 037935          823 PAQQPLFSFKKILPNLEGLALSGKDITMILQDD-----FPQHLFGSLKQLRVGDD-DLACFPLDLLERFHNLEFLYLSDC  896 (1085)
Q Consensus       823 ~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~-----~~~~~~~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~~  896 (1085)
                                ..+++|+.|+++++....++...     .....+++|+.|++++| .+..+|. .++++++|+.|++++|
T Consensus       744 ----------~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~-si~~L~~L~~L~Ls~C  812 (1153)
T PLN03210        744 ----------LRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPS-SIQNLHKLEHLEIENC  812 (1153)
T ss_pred             ----------ccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccCh-hhhCCCCCCEEECCCC
Confidence                      13678888888875532221110     00112468899999855 4556664 4678899999999988


Q ss_pred             c-ccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEE
Q 037935          897 S-YEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRL  975 (1085)
Q Consensus       897 ~-l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L  975 (1085)
                      . +..++...        .+++|+.|++++|..++.++.        .+.+|+.|+++++ .+..+ |.++..+++|+.|
T Consensus       813 ~~L~~LP~~~--------~L~sL~~L~Ls~c~~L~~~p~--------~~~nL~~L~Ls~n-~i~~i-P~si~~l~~L~~L  874 (1153)
T PLN03210        813 INLETLPTGI--------NLESLESLDLSGCSRLRTFPD--------ISTNISDLNLSRT-GIEEV-PWWIEKFSNLSFL  874 (1153)
T ss_pred             CCcCeeCCCC--------CccccCEEECCCCCccccccc--------cccccCEeECCCC-CCccC-hHHHhcCCCCCEE
Confidence            7 66554221        467889999999988877754        3468888888876 56554 4567888899999


Q ss_pred             EeccccCcccccchhhhhhcccccEEEEcCCccccccc
Q 037935          976 ETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVI 1013 (1085)
Q Consensus       976 ~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~ 1013 (1085)
                      ++++|+++..++.  ....+++|+.|++++|++++++.
T Consensus       875 ~L~~C~~L~~l~~--~~~~L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        875 DMNGCNNLQRVSL--NISKLKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             ECCCCCCcCccCc--ccccccCCCeeecCCCccccccc
Confidence            9999999888743  35678889999999998887664

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=2.9e-37  Score=336.41  Aligned_cols=254  Identities=31%  Similarity=0.520  Sum_probs=203.3

Q ss_pred             hHHHHHHHHHHhcc--CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC-
Q 037935          166 RVSTLKSIQNALTD--VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS-  242 (1085)
Q Consensus       166 r~~~~~~l~~~l~~--~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-  242 (1085)
                      ||.++++|.++|.+  ++.++|+|+||||+||||||++++++...+.+|+.++||.++...+..++++.|+.+++.... 
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            78999999999986  789999999999999999999999997788899999999999999999999999999988743 


Q ss_pred             ---CchHHHHHHHHHHHHHcCCcEEEEEeCCCCcccccccccccCCCCCCcEEEe--------------------cCCCH
Q 037935          243 ---DEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLI--------------------GNLSE  299 (1085)
Q Consensus       243 ---~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv--------------------~~l~~  299 (1085)
                         ..+.......+.+.+ .++++||||||||+...|+.+...++....|++|||                    ++|+.
T Consensus        81 ~~~~~~~~~~~~~l~~~L-~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELL-KDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHH-CCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             cccccccccccccchhhh-ccccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence               223444555666666 488999999999999999999888887777899888                    89999


Q ss_pred             HHHHHHHHHhcCCCC--CCCCchHHHHHHHHHhCCchHHHHHHHHHHhc-CCHHHHHHHHHHhcCCCCCCCCCCcccchh
Q 037935          300 EEAWRLFKIMNGDDV--ENCKFKPTAINVAQACGGLPIALTTVARALRN-KSLHEWKNALRELQTPSVVNFEGVPAETYS  376 (1085)
Q Consensus       300 ~~~~~lf~~~~~~~~--~~~~~~~~~~~i~~~~~glPlai~~~~~~l~~-~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~  376 (1085)
                      +||++||+..++...  ..+..++.+++|+++|+|+|||++++|++|+. .+..+|+.+++.+...... ..+....+..
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~-~~~~~~~~~~  238 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRE-SRDYDRSVFS  238 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTC-SSGSCHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccc
Confidence            999999999997433  45667889999999999999999999999973 3778999999887655421 2224578999


Q ss_pred             hHHHHHhcCChHHHHHHHHhccccCCC--CCHHHHHHHHhhcCCCCCC
Q 037935          377 SIELSFKYLKGEQLKKIFLLCSLIGNS--FYLIDLLRYSMGLGLFHGV  422 (1085)
Q Consensus       377 ~l~~sy~~L~~~~~k~cf~~~s~fp~~--i~~~~li~~w~~~g~~~~~  422 (1085)
                      ++.+||+.||+ ++|.||+|||+||++  |+++.++++|+++|++...
T Consensus       239 ~l~~s~~~L~~-~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  239 ALELSYDSLPD-ELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             HHHHHHHSSHT-CCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             cceechhcCCc-cHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            99999999997 799999999999997  8899999999999999753

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=100.00  E-value=1.2e-33  Score=361.20  Aligned_cols=507  Identities=17%  Similarity=0.137  Sum_probs=285.1

Q ss_pred             cceEEEeeccCccccc-cc-CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC-CchhhhccccccEE
Q 037935          493 KCYAISLLNSSIHEVS-LE-FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS-LPSSIGQLTKLRML  569 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~-~~-~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~-lp~~i~~L~~L~~L  569 (1085)
                      +++.|+++++.+.... .. ..+++|++|++++|..  ...+|..+|.++++||+|+|++|+++. +|.  +.+++|++|
T Consensus        70 ~v~~L~L~~~~i~~~~~~~~~~l~~L~~L~Ls~n~~--~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~--~~l~~L~~L  145 (968)
T PLN00113         70 RVVSIDLSGKNISGKISSAIFRLPYIQTINLSNNQL--SGPIPDDIFTTSSSLRYLNLSNNNFTGSIPR--GSIPNLETL  145 (968)
T ss_pred             cEEEEEecCCCccccCChHHhCCCCCCEEECCCCcc--CCcCChHHhccCCCCCEEECcCCccccccCc--cccCCCCEE
Confidence            5677777766654332 22 2667777777777653  335666666677777777777776654 342  456677777


Q ss_pred             eccCccccc-ccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC-CCCCcc-ccc
Q 037935          570 DLTDCLQLK-FIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS-ILPDGL-FTK  646 (1085)
Q Consensus       570 ~Ls~~~~l~-~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~-~~~~~~-~l~  646 (1085)
                      +|++| .+. .+|.. ++++++|++|++++|.+           ....+..+.++++|++|++++|.+. .+|..+ .++
T Consensus       146 ~Ls~n-~~~~~~p~~-~~~l~~L~~L~L~~n~l-----------~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~  212 (968)
T PLN00113        146 DLSNN-MLSGEIPND-IGSFSSLKVLDLGGNVL-----------VGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMK  212 (968)
T ss_pred             ECcCC-cccccCChH-HhcCCCCCEEECccCcc-----------cccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcC
Confidence            77776 554 44444 46677777777776665           2334455666666666666666554 234443 556


Q ss_pred             ccceeeEEecCCCcccccccccccccccccccce----------eehhhhhhcccccccccccccCCCCCcccccccccE
Q 037935          647 KLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIY----------IFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTR  716 (1085)
Q Consensus       647 ~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~----------l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~  716 (1085)
                      +|+.|++..+.-..    .+...+....+|+.+.          ...+..+..|+.+++..+...+.+|.++..+++|++
T Consensus       213 ~L~~L~L~~n~l~~----~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~  288 (968)
T PLN00113        213 SLKWIYLGYNNLSG----EIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLIS  288 (968)
T ss_pred             CccEEECcCCccCC----cCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCE
Confidence            66666654322100    0000001111111111          112222333444455444444445555555555666


Q ss_pred             EEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCC
Q 037935          717 LIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWP  796 (1085)
Q Consensus       717 L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~  796 (1085)
                      |++++|.....+  +..+..+++|+.|++++|.....++.        ....+++|+.|+++++.-....+..  ...++
T Consensus       289 L~Ls~n~l~~~~--p~~~~~l~~L~~L~l~~n~~~~~~~~--------~~~~l~~L~~L~L~~n~l~~~~p~~--l~~~~  356 (968)
T PLN00113        289 LDLSDNSLSGEI--PELVIQLQNLEILHLFSNNFTGKIPV--------ALTSLPRLQVLQLWSNKFSGEIPKN--LGKHN  356 (968)
T ss_pred             EECcCCeeccCC--ChhHcCCCCCcEEECCCCccCCcCCh--------hHhcCCCCCEEECcCCCCcCcCChH--HhCCC
Confidence            666555433332  22355555566666555542211111        0113555666666554322111111  23345


Q ss_pred             cccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccc
Q 037935          797 ALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLAC  876 (1085)
Q Consensus       797 ~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~  876 (1085)
                      +|+.|++++|......|                .....+++|+.|++++|.+.+..+..+..  +++|+.|++++|+++.
T Consensus       357 ~L~~L~Ls~n~l~~~~p----------------~~~~~~~~L~~L~l~~n~l~~~~p~~~~~--~~~L~~L~L~~n~l~~  418 (968)
T PLN00113        357 NLTVLDLSTNNLTGEIP----------------EGLCSSGNLFKLILFSNSLEGEIPKSLGA--CRSLRRVRLQDNSFSG  418 (968)
T ss_pred             CCcEEECCCCeeEeeCC----------------hhHhCcCCCCEEECcCCEecccCCHHHhC--CCCCCEEECcCCEeee
Confidence            55666655553322221                11233566777777777665554444433  6777777777777765


Q ss_pred             cchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccc
Q 037935          877 FPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQ  956 (1085)
Q Consensus       877 ~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~  956 (1085)
                      ..+..+..+++|+.|++++|.+...++      ..+..+++|+.|++++|.-...++...      ..++|+.|++++| 
T Consensus       419 ~~p~~~~~l~~L~~L~Ls~N~l~~~~~------~~~~~l~~L~~L~L~~n~~~~~~p~~~------~~~~L~~L~ls~n-  485 (968)
T PLN00113        419 ELPSEFTKLPLVYFLDISNNNLQGRIN------SRKWDMPSLQMLSLARNKFFGGLPDSF------GSKRLENLDLSRN-  485 (968)
T ss_pred             ECChhHhcCCCCCEEECcCCcccCccC------hhhccCCCCcEEECcCceeeeecCccc------ccccceEEECcCC-
Confidence            544556677777777777777655432      223356778888887765444443311      2467888888887 


Q ss_pred             cccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccccccccccceeeccccccc
Q 037935          957 NLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALS 1036 (1085)
Q Consensus       957 ~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~ 1036 (1085)
                      ++....|..+.++++|++|++++|. +.... +..+..+++|++|++++|. ++...+.         ....+++|+.|+
T Consensus       486 ~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~-p~~~~~l~~L~~L~Ls~N~-l~~~~p~---------~~~~l~~L~~L~  553 (968)
T PLN00113        486 QFSGAVPRKLGSLSELMQLKLSENK-LSGEI-PDELSSCKKLVSLDLSHNQ-LSGQIPA---------SFSEMPVLSQLD  553 (968)
T ss_pred             ccCCccChhhhhhhccCEEECcCCc-ceeeC-ChHHcCccCCCEEECCCCc-ccccCCh---------hHhCcccCCEEE
Confidence            4555556667788888888888764 44332 3456678888888888865 3332220         122368888888


Q ss_pred             cccccccceecCCCccccCCCcCceeeccCCCcccccCCCc
Q 037935         1037 LFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTKGEL 1077 (1085)
Q Consensus      1037 l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~l~~lp~~~~ 1077 (1085)
                      +++|+....+|..  ..++++|++|++++|+-...+|..+.
T Consensus       554 Ls~N~l~~~~p~~--l~~l~~L~~l~ls~N~l~~~~p~~~~  592 (968)
T PLN00113        554 LSQNQLSGEIPKN--LGNVESLVQVNISHNHLHGSLPSTGA  592 (968)
T ss_pred             CCCCcccccCChh--HhcCcccCEEeccCCcceeeCCCcch
Confidence            8888766677765  46788889999988887777876544

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

Probab=99.98  E-value=2e-31  Score=340.77  Aligned_cols=501  Identities=17%  Similarity=0.148  Sum_probs=326.0

Q ss_pred             cccceEEEeeccCcc-cccccC--CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCccc-CCchhhhccccc
Q 037935          491 LKKCYAISLLNSSIH-EVSLEF--ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLF-SLPSSIGQLTKL  566 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~-~l~~~~--~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~-~lp~~i~~L~~L  566 (1085)
                      .+.++.|++++|.+. .+|...  .+++|++|++++|..  ...+|.   ..+++|++|+|++|.+. .+|..++++++|
T Consensus        92 l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l--~~~~p~---~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L  166 (968)
T PLN00113         92 LPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNF--TGSIPR---GSIPNLETLDLSNNMLSGEIPNDIGSFSSL  166 (968)
T ss_pred             CCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCcc--ccccCc---cccCCCCEEECcCCcccccCChHHhcCCCC
Confidence            345666666666654 444332  556666666666552  223332   33556666666666655 356666666666


Q ss_pred             cEEeccCccccc-ccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC-CCCCcc-
Q 037935          567 RMLDLTDCLQLK-FIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS-ILPDGL-  643 (1085)
Q Consensus       567 ~~L~Ls~~~~l~-~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~-~~~~~~-  643 (1085)
                      ++|++++| .+. .+|.. ++++++|++|++++|.+           ....+..++++++|++|++++|.+. .+|..+ 
T Consensus       167 ~~L~L~~n-~l~~~~p~~-~~~l~~L~~L~L~~n~l-----------~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~  233 (968)
T PLN00113        167 KVLDLGGN-VLVGKIPNS-LTNLTSLEFLTLASNQL-----------VGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIG  233 (968)
T ss_pred             CEEECccC-cccccCChh-hhhCcCCCeeeccCCCC-----------cCcCChHHcCcCCccEEECcCCccCCcCChhHh
Confidence            66666666 433 34443 36666666666666655           2333445555666666666655554 233333 


Q ss_pred             cccccceeeEEecCCCcccccccccccccccccccce----------eehhhhhhcccccccccccccCCCCCccccccc
Q 037935          644 FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIY----------IFCIVMALELNAINVDEIWHYNQLPAMVPCFQS  713 (1085)
Q Consensus       644 ~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~----------l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~  713 (1085)
                      .+++|+.|++..+.-.    ..+...+....+|+.+.          ...+..+..|+.+++..+...+.+|.++..+++
T Consensus       234 ~l~~L~~L~L~~n~l~----~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~  309 (968)
T PLN00113        234 GLTSLNHLDLVYNNLT----GPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQN  309 (968)
T ss_pred             cCCCCCEEECcCceec----cccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCC
Confidence            4555555555433210    00111111112222222          223344556778888888777789999999999


Q ss_pred             ccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCccc
Q 037935          714 LTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTS  793 (1085)
Q Consensus       714 L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~  793 (1085)
                      |+.|++++|.....+  +..+..+++|+.|++++|.....++..        ...+++|+.|+++++.-....+..  ..
T Consensus       310 L~~L~l~~n~~~~~~--~~~~~~l~~L~~L~L~~n~l~~~~p~~--------l~~~~~L~~L~Ls~n~l~~~~p~~--~~  377 (968)
T PLN00113        310 LEILHLFSNNFTGKI--PVALTSLPRLQVLQLWSNKFSGEIPKN--------LGKHNNLTVLDLSTNNLTGEIPEG--LC  377 (968)
T ss_pred             CcEEECCCCccCCcC--ChhHhcCCCCCEEECcCCCCcCcCChH--------HhCCCCCcEEECCCCeeEeeCChh--Hh
Confidence            999999998766655  345889999999999998743332221        225789999999986432222211  23


Q ss_pred             CCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCc
Q 037935          794 EWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDD  873 (1085)
Q Consensus       794 ~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~  873 (1085)
                      .+++|+.|.+.++......|                .....+++|+.|++++|.+++..+..+..  +++|+.|++++|.
T Consensus       378 ~~~~L~~L~l~~n~l~~~~p----------------~~~~~~~~L~~L~L~~n~l~~~~p~~~~~--l~~L~~L~Ls~N~  439 (968)
T PLN00113        378 SSGNLFKLILFSNSLEGEIP----------------KSLGACRSLRRVRLQDNSFSGELPSEFTK--LPLVYFLDISNNN  439 (968)
T ss_pred             CcCCCCEEECcCCEecccCC----------------HHHhCCCCCCEEECcCCEeeeECChhHhc--CCCCCEEECcCCc
Confidence            46789999988876544333                22355899999999999988777666655  8999999999999


Q ss_pred             ccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeee
Q 037935          874 LACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVL  953 (1085)
Q Consensus       874 l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~  953 (1085)
                      ++...+..+..+++|+.|++++|.+....+..       ...++|+.|++++|.--..++..     ...+++|+.|+++
T Consensus       440 l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p~~-------~~~~~L~~L~ls~n~l~~~~~~~-----~~~l~~L~~L~Ls  507 (968)
T PLN00113        440 LQGRINSRKWDMPSLQMLSLARNKFFGGLPDS-------FGSKRLENLDLSRNQFSGAVPRK-----LGSLSELMQLKLS  507 (968)
T ss_pred             ccCccChhhccCCCCcEEECcCceeeeecCcc-------cccccceEEECcCCccCCccChh-----hhhhhccCEEECc
Confidence            99877677778999999999999976554321       13468999999985433333321     2357899999999


Q ss_pred             ccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccccccccccceeecccc
Q 037935          954 HCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLS 1033 (1085)
Q Consensus       954 ~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~ 1033 (1085)
                      +| .+....|..+.++++|++|+|++|. ++.. .+..+..+++|+.|++++|.....++.          ....+++|+
T Consensus       508 ~N-~l~~~~p~~~~~l~~L~~L~Ls~N~-l~~~-~p~~~~~l~~L~~L~Ls~N~l~~~~p~----------~l~~l~~L~  574 (968)
T PLN00113        508 EN-KLSGEIPDELSSCKKLVSLDLSHNQ-LSGQ-IPASFSEMPVLSQLDLSQNQLSGEIPK----------NLGNVESLV  574 (968)
T ss_pred             CC-cceeeCChHHcCccCCCEEECCCCc-cccc-CChhHhCcccCCEEECCCCcccccCCh----------hHhcCcccC
Confidence            98 6666667778899999999999865 5544 245678899999999999874434432          223478999


Q ss_pred             ccccccccccceecCCCccccCCCcCceeeccCCCccc
Q 037935         1034 ALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKL 1071 (1085)
Q Consensus      1034 ~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~l~~ 1071 (1085)
                      .|++++|+....+|...   .+.++....+.++|.+..
T Consensus       575 ~l~ls~N~l~~~~p~~~---~~~~~~~~~~~~n~~lc~  609 (968)
T PLN00113        575 QVNISHNHLHGSLPSTG---AFLAINASAVAGNIDLCG  609 (968)
T ss_pred             EEeccCCcceeeCCCcc---hhcccChhhhcCCccccC
Confidence            99999998878888753   345566666677766643

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

Probab=99.92  E-value=9.9e-26  Score=239.50  Aligned_cols=395  Identities=16%  Similarity=0.182  Sum_probs=275.3

Q ss_pred             ccccccceEEEeeccCccccccc----CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhcc
Q 037935          488 GDALKKCYAISLLNSSIHEVSLE----FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQL  563 (1085)
Q Consensus       488 ~~~~~~~r~Lsl~~~~~~~l~~~----~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L  563 (1085)
                      .......+-++.+...+..+...    .-.+..++|++++|.   ...+...+|.++++|+.+++..|.++.+|...+..
T Consensus        48 a~c~c~~~lldcs~~~lea~~~~~l~g~lp~~t~~LdlsnNk---l~~id~~~f~nl~nLq~v~l~~N~Lt~IP~f~~~s  124 (873)
T KOG4194|consen   48 ATCPCNTRLLDCSDRELEAIDKSRLKGFLPSQTQTLDLSNNK---LSHIDFEFFYNLPNLQEVNLNKNELTRIPRFGHES  124 (873)
T ss_pred             CcCCCCceeeecCccccccccccccCCcCccceeeeeccccc---cccCcHHHHhcCCcceeeeeccchhhhcccccccc
Confidence            33344556666666666554211    234677888888887   66777777888889999999888888888877777


Q ss_pred             ccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc
Q 037935          564 TKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL  643 (1085)
Q Consensus       564 ~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~  643 (1085)
                      .||+.|+|.+| .|.++..+.++-+..|+.|||+.|.+...+.           ..+..-.++++|++++|.++.+..+.
T Consensus       125 ghl~~L~L~~N-~I~sv~se~L~~l~alrslDLSrN~is~i~~-----------~sfp~~~ni~~L~La~N~It~l~~~~  192 (873)
T KOG4194|consen  125 GHLEKLDLRHN-LISSVTSEELSALPALRSLDLSRNLISEIPK-----------PSFPAKVNIKKLNLASNRITTLETGH  192 (873)
T ss_pred             cceeEEeeecc-ccccccHHHHHhHhhhhhhhhhhchhhcccC-----------CCCCCCCCceEEeecccccccccccc
Confidence            88888999888 8888887777888888888888888743322           22444567888888888888776553


Q ss_pred             --cccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcC
Q 037935          644 --FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWG  721 (1085)
Q Consensus       644 --~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~  721 (1085)
                        .+.+|..|.++.+                                          ......+..|..+++|+.|+|..
T Consensus       193 F~~lnsL~tlkLsrN------------------------------------------rittLp~r~Fk~L~~L~~LdLnr  230 (873)
T KOG4194|consen  193 FDSLNSLLTLKLSRN------------------------------------------RITTLPQRSFKRLPKLESLDLNR  230 (873)
T ss_pred             ccccchheeeecccC------------------------------------------cccccCHHHhhhcchhhhhhccc
Confidence              4555555555432                                          22121222455577777777766


Q ss_pred             CCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccce
Q 037935          722 CDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNL  801 (1085)
Q Consensus       722 ~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L  801 (1085)
                      | .++.. ....|..|++|+.|.+..|. +..+....+       ..+.++++|+|+. .++.....+. ...+..|+.|
T Consensus       231 N-~iriv-e~ltFqgL~Sl~nlklqrN~-I~kL~DG~F-------y~l~kme~l~L~~-N~l~~vn~g~-lfgLt~L~~L  298 (873)
T KOG4194|consen  231 N-RIRIV-EGLTFQGLPSLQNLKLQRND-ISKLDDGAF-------YGLEKMEHLNLET-NRLQAVNEGW-LFGLTSLEQL  298 (873)
T ss_pred             c-ceeee-hhhhhcCchhhhhhhhhhcC-cccccCcce-------eeecccceeeccc-chhhhhhccc-ccccchhhhh
Confidence            4 33332 22346777777777777665 322222111       2466777777764 3343333322 2235667777


Q ss_pred             eeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhH
Q 037935          802 VACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDL  881 (1085)
Q Consensus       802 ~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~  881 (1085)
                      +++....-...+    .            ....+++|++|++|+|.++...+..|..  ++.|+.|.+++|.+..+....
T Consensus       299 ~lS~NaI~rih~----d------------~WsftqkL~~LdLs~N~i~~l~~~sf~~--L~~Le~LnLs~Nsi~~l~e~a  360 (873)
T KOG4194|consen  299 DLSYNAIQRIHI----D------------SWSFTQKLKELDLSSNRITRLDEGSFRV--LSQLEELNLSHNSIDHLAEGA  360 (873)
T ss_pred             ccchhhhheeec----c------------hhhhcccceeEeccccccccCChhHHHH--HHHhhhhcccccchHHHHhhH
Confidence            766553222111    1            1245789999999999999988887776  789999999999999999999


Q ss_pred             HhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeecccccccc
Q 037935          882 LERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSL  961 (1085)
Q Consensus       882 ~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~  961 (1085)
                      |..+.+|++|++++|.+.....+.   ...+..+++|+.|.+.+ +++++++...+.    .++.|+.|++.++ -+.++
T Consensus       361 f~~lssL~~LdLr~N~ls~~IEDa---a~~f~gl~~LrkL~l~g-Nqlk~I~krAfs----gl~~LE~LdL~~N-aiaSI  431 (873)
T KOG4194|consen  361 FVGLSSLHKLDLRSNELSWCIEDA---AVAFNGLPSLRKLRLTG-NQLKSIPKRAFS----GLEALEHLDLGDN-AIASI  431 (873)
T ss_pred             HHHhhhhhhhcCcCCeEEEEEecc---hhhhccchhhhheeecC-ceeeecchhhhc----cCcccceecCCCC-cceee
Confidence            999999999999999988776653   34467789999999999 899999887765    6889999999988 56677


Q ss_pred             CCCCcccccCccEEEecc
Q 037935          962 LPSSSVSFRNLTRLETFA  979 (1085)
Q Consensus       962 ~~~~l~~l~~L~~L~l~~  979 (1085)
                      .+.++..+ .|++|.+..
T Consensus       432 q~nAFe~m-~Lk~Lv~nS  448 (873)
T KOG4194|consen  432 QPNAFEPM-ELKELVMNS  448 (873)
T ss_pred             cccccccc-hhhhhhhcc
Confidence            78878777 888887754

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

Probab=99.91  E-value=4.2e-25  Score=234.74  Aligned_cols=317  Identities=18%  Similarity=0.219  Sum_probs=198.8

Q ss_pred             CcceeeeccCCCccccccChhhhcCC--CcceEEEecCCcccCC-chhhhccccccEEeccCcccccccchhhhhccccC
Q 037935          515 QLEFLHIDPKITFAELNIPDNFFKGM--KKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL  591 (1085)
Q Consensus       515 ~Lr~L~l~~~~~~~~~~l~~~~~~~l--~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L  591 (1085)
                      +-+.|+++++.   ...+....+.++  ..-+.||+++|.+..+ +..|.++++|+.+++.+| .++.+|... +...+|
T Consensus        53 ~~~lldcs~~~---lea~~~~~l~g~lp~~t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N-~Lt~IP~f~-~~sghl  127 (873)
T KOG4194|consen   53 NTRLLDCSDRE---LEAIDKSRLKGFLPSQTQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKN-ELTRIPRFG-HESGHL  127 (873)
T ss_pred             CceeeecCccc---cccccccccCCcCccceeeeeccccccccCcHHHHhcCCcceeeeeccc-hhhhccccc-ccccce
Confidence            34566666655   333322222222  3456799999999886 577899999999999999 999999853 566779


Q ss_pred             CEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--cccccceeeEEecCCCcccccccccc
Q 037935          592 EELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLERFDISIGDGSFDSTKIIGND  669 (1085)
Q Consensus       592 ~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~L~l~~~~~~~~~~~~l~~~  669 (1085)
                      ++|+|.+|.+.           ...-+++.-++.|+.|+++.|.++.++...  .-.++++|+++.+.            
T Consensus       128 ~~L~L~~N~I~-----------sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~------------  184 (873)
T KOG4194|consen  128 EKLDLRHNLIS-----------SVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNR------------  184 (873)
T ss_pred             eEEeeeccccc-----------cccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeecccc------------
Confidence            99999999983           445577888999999999999998877643  22344444443221            


Q ss_pred             cccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEecccc
Q 037935          670 WFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCK  749 (1085)
Q Consensus       670 ~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~  749 (1085)
                                                    +...--..|..|.+|..|.|++| .++.+ |...|..||+|+.|++..|.
T Consensus       185 ------------------------------It~l~~~~F~~lnsL~tlkLsrN-rittL-p~r~Fk~L~~L~~LdLnrN~  232 (873)
T KOG4194|consen  185 ------------------------------ITTLETGHFDSLNSLLTLKLSRN-RITTL-PQRSFKRLPKLESLDLNRNR  232 (873)
T ss_pred             ------------------------------ccccccccccccchheeeecccC-ccccc-CHHHhhhcchhhhhhccccc
Confidence                                          00111112334455555555553 33333 23345555555555554433


Q ss_pred             chHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcc
Q 037935          750 SLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLF  829 (1085)
Q Consensus       750 ~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~  829 (1085)
                       ++.                              ..                      .+                    
T Consensus       233 -iri------------------------------ve----------------------~l--------------------  239 (873)
T KOG4194|consen  233 -IRI------------------------------VE----------------------GL--------------------  239 (873)
T ss_pred             -eee------------------------------eh----------------------hh--------------------
Confidence             000                              00                      00                    


Q ss_pred             cccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccc
Q 037935          830 SFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLE  909 (1085)
Q Consensus       830 ~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~  909 (1085)
                       .+..+++|+.|.+..|.+..+....|..  +.++++|++..|++..+..+++-++++|+.|++++|.+..+...     
T Consensus       240 -tFqgL~Sl~nlklqrN~I~kL~DG~Fy~--l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d-----  311 (873)
T KOG4194|consen  240 -TFQGLPSLQNLKLQRNDISKLDDGAFYG--LEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHID-----  311 (873)
T ss_pred             -hhcCchhhhhhhhhhcCcccccCcceee--ecccceeecccchhhhhhcccccccchhhhhccchhhhheeecc-----
Confidence             0234677788888888887777777766  78999999999999998888888899999999999997776432     


Q ss_pred             cccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEecc
Q 037935          910 THARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFA  979 (1085)
Q Consensus       910 ~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~  979 (1085)
                       ....+++|++|+++. +.+++++.+.+.    .+..|+.|.++++ ++..+....+..+++|++|++++
T Consensus       312 -~WsftqkL~~LdLs~-N~i~~l~~~sf~----~L~~Le~LnLs~N-si~~l~e~af~~lssL~~LdLr~  374 (873)
T KOG4194|consen  312 -SWSFTQKLKELDLSS-NRITRLDEGSFR----VLSQLEELNLSHN-SIDHLAEGAFVGLSSLHKLDLRS  374 (873)
T ss_pred             -hhhhcccceeEeccc-cccccCChhHHH----HHHHhhhhccccc-chHHHHhhHHHHhhhhhhhcCcC
Confidence             233455666666666 555555543332    3445555555544 33333333344444555555443

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

Probab=99.89  E-value=4.1e-25  Score=248.10  Aligned_cols=470  Identities=19%  Similarity=0.192  Sum_probs=306.8

Q ss_pred             EEEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCc
Q 037935          496 AISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDC  574 (1085)
Q Consensus       496 ~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~  574 (1085)
                      +++.+++.++.+|..+ .-..+..|++..|.   ....|-++..+.-+|+.||+++|.+..+|..|..+.+|+.|+++.|
T Consensus         2 ~vd~s~~~l~~ip~~i~~~~~~~~ln~~~N~---~l~~pl~~~~~~v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n   78 (1081)
T KOG0618|consen    2 HVDASDEQLELIPEQILNNEALQILNLRRNS---LLSRPLEFVEKRVKLKSLDLSNNQISSFPIQITLLSHLRQLNLSRN   78 (1081)
T ss_pred             CcccccccCcccchhhccHHHHHhhhccccc---cccCchHHhhheeeeEEeeccccccccCCchhhhHHHHhhcccchh
Confidence            3566677777787654 44458888888887   4455556666666799999999999999999999999999999999


Q ss_pred             ccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-cccccceeeE
Q 037935          575 LQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-FTKKLERFDI  653 (1085)
Q Consensus       575 ~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~L~~L~l  653 (1085)
                       .+.++|.+. +++.+|++|+|.+|.+            ...|.++..+++|++|++++|....+|..+ .+..+..+..
T Consensus        79 -~i~~vp~s~-~~~~~l~~lnL~~n~l------------~~lP~~~~~lknl~~LdlS~N~f~~~Pl~i~~lt~~~~~~~  144 (1081)
T KOG0618|consen   79 -YIRSVPSSC-SNMRNLQYLNLKNNRL------------QSLPASISELKNLQYLDLSFNHFGPIPLVIEVLTAEEELAA  144 (1081)
T ss_pred             -hHhhCchhh-hhhhcchhheeccchh------------hcCchhHHhhhcccccccchhccCCCchhHHhhhHHHHHhh
Confidence             999999885 9999999999999986            446778889999999999999999888876 4444444443


Q ss_pred             EecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhh
Q 037935          654 SIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSAST  733 (1085)
Q Consensus       654 ~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~  733 (1085)
                      +.+.                      .+..++... ++.+.++.+...+.++..+..+..  .|+|..+... .+    .
T Consensus       145 s~N~----------------------~~~~lg~~~-ik~~~l~~n~l~~~~~~~i~~l~~--~ldLr~N~~~-~~----d  194 (1081)
T KOG0618|consen  145 SNNE----------------------KIQRLGQTS-IKKLDLRLNVLGGSFLIDIYNLTH--QLDLRYNEME-VL----D  194 (1081)
T ss_pred             hcch----------------------hhhhhcccc-chhhhhhhhhcccchhcchhhhhe--eeecccchhh-hh----h
Confidence            2210                      011111111 334444444445555554444444  4777776443 21    2


Q ss_pred             HhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCccccc
Q 037935          734 IQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQ  813 (1085)
Q Consensus       734 l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~  813 (1085)
                      +..+++|+.|....+. +..+..           .-++|+.|...+++-.... .   .....+|+.++++... +..  
T Consensus       195 ls~~~~l~~l~c~rn~-ls~l~~-----------~g~~l~~L~a~~n~l~~~~-~---~p~p~nl~~~dis~n~-l~~--  255 (1081)
T KOG0618|consen  195 LSNLANLEVLHCERNQ-LSELEI-----------SGPSLTALYADHNPLTTLD-V---HPVPLNLQYLDISHNN-LSN--  255 (1081)
T ss_pred             hhhccchhhhhhhhcc-cceEEe-----------cCcchheeeeccCcceeec-c---ccccccceeeecchhh-hhc--
Confidence            5567777777665544 211110           2456677776665544211 1   1122356666655432 222  


Q ss_pred             CCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEe
Q 037935          814 NDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYL  893 (1085)
Q Consensus       814 ~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  893 (1085)
                                    ++.+...+.+|+.+++.+|.++.++...+.   .++|+.|.+..|.+..+|+. ...+++|+.|++
T Consensus       256 --------------lp~wi~~~~nle~l~~n~N~l~~lp~ri~~---~~~L~~l~~~~nel~yip~~-le~~~sL~tLdL  317 (1081)
T KOG0618|consen  256 --------------LPEWIGACANLEALNANHNRLVALPLRISR---ITSLVSLSAAYNELEYIPPF-LEGLKSLRTLDL  317 (1081)
T ss_pred             --------------chHHHHhcccceEecccchhHHhhHHHHhh---hhhHHHHHhhhhhhhhCCCc-ccccceeeeeee
Confidence                          223455677888888888887666655444   47778887778888777743 356788888888


Q ss_pred             ecccccEEEecCCcccccccccc-ccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCc
Q 037935          894 SDCSYEVVFSNEGYLETHARKLA-LIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNL  972 (1085)
Q Consensus       894 ~~~~l~~~~~~~~~~~~~l~~l~-~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L  972 (1085)
                      ..|.+...+.      ..+..+. +|+.|+.+. +.+..++.-    .....+.|+.|++.++.--+...|. +.++++|
T Consensus       318 ~~N~L~~lp~------~~l~v~~~~l~~ln~s~-n~l~~lp~~----~e~~~~~Lq~LylanN~Ltd~c~p~-l~~~~hL  385 (1081)
T KOG0618|consen  318 QSNNLPSLPD------NFLAVLNASLNTLNVSS-NKLSTLPSY----EENNHAALQELYLANNHLTDSCFPV-LVNFKHL  385 (1081)
T ss_pred             hhccccccch------HHHhhhhHHHHHHhhhh-ccccccccc----cchhhHHHHHHHHhcCcccccchhh-hccccce
Confidence            8888766543      1112222 244555443 455544421    1246788999999988433444454 7888999


Q ss_pred             cEEEeccccCcccccchhhhhhcccccEEEEcCCccccccccc------------ccccccccccceeeccccccccccc
Q 037935          973 TRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIIS------------DEDETANLKEEIVFSKLSALSLFDL 1040 (1085)
Q Consensus       973 ~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~------------~~~~~~~~~~~~~~~~L~~L~l~~c 1040 (1085)
                      +.|++++ ++|..+ +...+.+++.|+.|+++| ++|+.++..            ....+..+|+...++.|+.++++ |
T Consensus       386 KVLhLsy-NrL~~f-pas~~~kle~LeeL~LSG-NkL~~Lp~tva~~~~L~tL~ahsN~l~~fPe~~~l~qL~~lDlS-~  461 (1081)
T KOG0618|consen  386 KVLHLSY-NRLNSF-PASKLRKLEELEELNLSG-NKLTTLPDTVANLGRLHTLRAHSNQLLSFPELAQLPQLKVLDLS-C  461 (1081)
T ss_pred             eeeeecc-cccccC-CHHHHhchHHhHHHhccc-chhhhhhHHHHhhhhhHHHhhcCCceeechhhhhcCcceEEecc-c
Confidence            9999988 567776 567788999999999999 446555421            11123445666677888888876 5


Q ss_pred             cccceecCCCccccC--CCcCceeeccCCC
Q 037935         1041 DSLTSFSSGNYAFKL--PSLQDLWVIGCPK 1068 (1085)
Q Consensus      1041 ~~L~~l~~~~~~~~l--~~L~~L~i~~C~~ 1068 (1085)
                      ++|+.+...   ..+  |.|++|+++|++.
T Consensus       462 N~L~~~~l~---~~~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  462 NNLSEVTLP---EALPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             chhhhhhhh---hhCCCcccceeeccCCcc
Confidence            677655442   223  5788888888775

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

Probab=99.89  E-value=7.6e-26  Score=230.09  Aligned_cols=260  Identities=20%  Similarity=0.255  Sum_probs=152.3

Q ss_pred             ceEEEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEecc
Q 037935          494 CYAISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLT  572 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls  572 (1085)
                      +..+.+++|++..+.... .+..+.+|.+++|.   ...+|+. ++.+..+..|+.++|++.++|+.++.+..|+.|+.+
T Consensus        47 l~~lils~N~l~~l~~dl~nL~~l~vl~~~~n~---l~~lp~a-ig~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s  122 (565)
T KOG0472|consen   47 LQKLILSHNDLEVLREDLKNLACLTVLNVHDNK---LSQLPAA-IGELEALKSLNVSHNKLSELPEQIGSLISLVKLDCS  122 (565)
T ss_pred             hhhhhhccCchhhccHhhhcccceeEEEeccch---hhhCCHH-HHHHHHHHHhhcccchHhhccHHHhhhhhhhhhhcc
Confidence            455666677766665443 66777777777776   5666665 566777777788888887788778888888888888


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-ccccccee
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-FTKKLERF  651 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~L~~L  651 (1085)
                      +| .++.+|+++ +.+..|+.|+..+|.+..            .|+.+.++.+|..+++.+|++..+|+.. .++.|+++
T Consensus       123 ~n-~~~el~~~i-~~~~~l~dl~~~~N~i~s------------lp~~~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~l  188 (565)
T KOG0472|consen  123 SN-ELKELPDSI-GRLLDLEDLDATNNQISS------------LPEDMVNLSKLSKLDLEGNKLKALPENHIAMKRLKHL  188 (565)
T ss_pred             cc-ceeecCchH-HHHhhhhhhhcccccccc------------CchHHHHHHHHHHhhccccchhhCCHHHHHHHHHHhc
Confidence            77 777777775 777777777777777643            3444555556666666666666655543 55555555


Q ss_pred             eEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccch
Q 037935          652 DISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSA  731 (1085)
Q Consensus       652 ~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~  731 (1085)
                      +...+                   +-+.-...+..+.+|+.+.|..+... .+| .|++++.|++|++.. +.++.+ |.
T Consensus       189 d~~~N-------------------~L~tlP~~lg~l~~L~~LyL~~Nki~-~lP-ef~gcs~L~Elh~g~-N~i~~l-pa  245 (565)
T KOG0472|consen  189 DCNSN-------------------LLETLPPELGGLESLELLYLRRNKIR-FLP-EFPGCSLLKELHVGE-NQIEML-PA  245 (565)
T ss_pred             ccchh-------------------hhhcCChhhcchhhhHHHHhhhcccc-cCC-CCCccHHHHHHHhcc-cHHHhh-HH
Confidence            54211                   11111112222333333333332221 234 456677777777754 455555 33


Q ss_pred             hhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCC
Q 037935          732 STIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCD  807 (1085)
Q Consensus       732 ~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~  807 (1085)
                      .....+++|.+|++.+|. +++++.+..        .+.+|++|++++. .+..++..  .+.+ .|+.|.+.+.|
T Consensus       246 e~~~~L~~l~vLDLRdNk-lke~Pde~c--------lLrsL~rLDlSNN-~is~Lp~s--Lgnl-hL~~L~leGNP  308 (565)
T KOG0472|consen  246 EHLKHLNSLLVLDLRDNK-LKEVPDEIC--------LLRSLERLDLSNN-DISSLPYS--LGNL-HLKFLALEGNP  308 (565)
T ss_pred             HHhcccccceeeeccccc-cccCchHHH--------HhhhhhhhcccCC-ccccCCcc--cccc-eeeehhhcCCc
Confidence            445577777777777776 554443322        3566777777762 33333332  2223 44555544443

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

Probab=99.88  E-value=1.3e-24  Score=232.18  Aligned_cols=367  Identities=19%  Similarity=0.248  Sum_probs=203.1

Q ss_pred             CcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEE
Q 037935          515 QLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEEL  594 (1085)
Q Consensus       515 ~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L  594 (1085)
                      -.|-.++++|. |.-..+|.+ ...|+.++-|.|..+++..+|+.++.|.+|++|.+++| ++.++-.+. +.|+.|+.+
T Consensus         8 FVrGvDfsgND-Fsg~~FP~~-v~qMt~~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~HN-~L~~vhGEL-s~Lp~LRsv   83 (1255)
T KOG0444|consen    8 FVRGVDFSGND-FSGDRFPHD-VEQMTQMTWLKLNRTKLEQVPEELSRLQKLEHLSMAHN-QLISVHGEL-SDLPRLRSV   83 (1255)
T ss_pred             eeecccccCCc-CCCCcCchh-HHHhhheeEEEechhhhhhChHHHHHHhhhhhhhhhhh-hhHhhhhhh-ccchhhHHH
Confidence            33444455544 222344544 56677777777777777777777777777777777777 666666553 777777777


Q ss_pred             eccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-cccccceeeEEecCCCcccccccccccccc
Q 037935          595 YMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-FTKKLERFDISIGDGSFDSTKIIGNDWFQT  673 (1085)
Q Consensus       595 ~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~  673 (1085)
                      .++.|++.          ..-.|..+-+|..|.+|+++.|++...|..+ .-+++-.|+++.+                 
T Consensus        84 ~~R~N~LK----------nsGiP~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N-----------------  136 (1255)
T KOG0444|consen   84 IVRDNNLK----------NSGIPTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYN-----------------  136 (1255)
T ss_pred             hhhccccc----------cCCCCchhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccC-----------------
Confidence            77777763          2234555667777777777777777776654 2333333333221                 


Q ss_pred             cccccceeehhhhhhcccccccccccccCCCCC-cccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchH
Q 037935          674 FNIQSIYIFCIVMALELNAINVDEIWHYNQLPA-MVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQ  752 (1085)
Q Consensus       674 ~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~-~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~  752 (1085)
                                               .+. .+|. .+-++..|-.|+|++| .++.+||  .+..|.+|++|.+++|+. .
T Consensus       137 -------------------------~Ie-tIPn~lfinLtDLLfLDLS~N-rLe~LPP--Q~RRL~~LqtL~Ls~NPL-~  186 (1255)
T KOG0444|consen  137 -------------------------NIE-TIPNSLFINLTDLLFLDLSNN-RLEMLPP--QIRRLSMLQTLKLSNNPL-N  186 (1255)
T ss_pred             -------------------------ccc-cCCchHHHhhHhHhhhccccc-hhhhcCH--HHHHHhhhhhhhcCCChh-h
Confidence                                     111 1222 2345667777888774 6777755  377888888888888772 1


Q ss_pred             HHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCccccc
Q 037935          753 EIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFK  832 (1085)
Q Consensus       753 ~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~  832 (1085)
                      ..                     .+..+            .++.+|+.|                               
T Consensus       187 hf---------------------QLrQL------------PsmtsL~vL-------------------------------  202 (1255)
T KOG0444|consen  187 HF---------------------QLRQL------------PSMTSLSVL-------------------------------  202 (1255)
T ss_pred             HH---------------------HHhcC------------ccchhhhhh-------------------------------
Confidence            11                     01110            012222222                               


Q ss_pred             ccCCccceeeeccCC--ceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCcccc
Q 037935          833 KILPNLEGLALSGKD--ITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLET  910 (1085)
Q Consensus       833 ~~l~~L~~L~ls~n~--l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~  910 (1085)
                               .+|+.+  +..+ |..+..  +.+|..+++++|++..+|... -++++|++|++|+|.++.+.-..+    
T Consensus       203 ---------hms~TqRTl~N~-Ptsld~--l~NL~dvDlS~N~Lp~vPecl-y~l~~LrrLNLS~N~iteL~~~~~----  265 (1255)
T KOG0444|consen  203 ---------HMSNTQRTLDNI-PTSLDD--LHNLRDVDLSENNLPIVPECL-YKLRNLRRLNLSGNKITELNMTEG----  265 (1255)
T ss_pred             ---------hcccccchhhcC-CCchhh--hhhhhhccccccCCCcchHHH-hhhhhhheeccCcCceeeeeccHH----
Confidence                     222222  1111 111111  566677777777777666443 367777777777777665532221    


Q ss_pred             ccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchh
Q 037935          911 HARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSS  990 (1085)
Q Consensus       911 ~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~  990 (1085)
                         .-.+|+.|+++. +.|+.+|..     .+.+++|+.|.+.++.--..-.|++++.+.+|+.+...+ ++|.-+  +.
T Consensus       266 ---~W~~lEtLNlSr-NQLt~LP~a-----vcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aan-N~LElV--PE  333 (1255)
T KOG0444|consen  266 ---EWENLETLNLSR-NQLTVLPDA-----VCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAAN-NKLELV--PE  333 (1255)
T ss_pred             ---HHhhhhhhcccc-chhccchHH-----HhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhc-cccccC--ch
Confidence               123456666665 555555542     234566666666655322222466677777777776654 445433  44


Q ss_pred             hhhhcccccEEEEcCCcccccccccccccccccccceeecccccccccccccccee
Q 037935          991 KAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSF 1046 (1085)
Q Consensus       991 ~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l 1046 (1085)
                      .++.+..|+.|.+..+ .+-.++.          ....++.|+.|++...|+|.--
T Consensus       334 glcRC~kL~kL~L~~N-rLiTLPe----------aIHlL~~l~vLDlreNpnLVMP  378 (1255)
T KOG0444|consen  334 GLCRCVKLQKLKLDHN-RLITLPE----------AIHLLPDLKVLDLRENPNLVMP  378 (1255)
T ss_pred             hhhhhHHHHHhccccc-ceeechh----------hhhhcCCcceeeccCCcCccCC
Confidence            5566666676666553 3333322          1122466666666666665433

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

Probab=99.88  E-value=2.3e-24  Score=230.24  Aligned_cols=320  Identities=21%  Similarity=0.309  Sum_probs=197.1

Q ss_pred             ccccceEEEeeccCccccccc-CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccE
Q 037935          490 ALKKCYAISLLNSSIHEVSLE-FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRM  568 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~  568 (1085)
                      ..+++.||++.+|.+..+... ..++.||++.+..|+ .....+|+++|. ++.|.+||||+|++++.|..+..-+++-+
T Consensus        53 ~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~-LKnsGiP~diF~-l~dLt~lDLShNqL~EvP~~LE~AKn~iV  130 (1255)
T KOG0444|consen   53 RLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNN-LKNSGIPTDIFR-LKDLTILDLSHNQLREVPTNLEYAKNSIV  130 (1255)
T ss_pred             HHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccc-cccCCCCchhcc-cccceeeecchhhhhhcchhhhhhcCcEE
Confidence            345777888887777665443 367788888887775 234567777664 78888888888888888888888888888


Q ss_pred             EeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCccccccc
Q 037935          569 LDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKL  648 (1085)
Q Consensus       569 L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L  648 (1085)
                      |+||+| +|..+|...|-+|+.|-.|||++|.+..            .|.....|.+|++|.+++|.+..+.       |
T Consensus       131 LNLS~N-~IetIPn~lfinLtDLLfLDLS~NrLe~------------LPPQ~RRL~~LqtL~Ls~NPL~hfQ-------L  190 (1255)
T KOG0444|consen  131 LNLSYN-NIETIPNSLFINLTDLLFLDLSNNRLEM------------LPPQIRRLSMLQTLKLSNNPLNHFQ-------L  190 (1255)
T ss_pred             EEcccC-ccccCCchHHHhhHhHhhhccccchhhh------------cCHHHHHHhhhhhhhcCCChhhHHH-------H
Confidence            888888 8888888887888888888888887632            3445566777777777776543211       0


Q ss_pred             ceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCC-cc
Q 037935          649 ERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKL-KY  727 (1085)
Q Consensus       649 ~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l-~~  727 (1085)
                                                                           .+    ++++++|+.|++++.+.. .+
T Consensus       191 -----------------------------------------------------rQ----LPsmtsL~vLhms~TqRTl~N  213 (1255)
T KOG0444|consen  191 -----------------------------------------------------RQ----LPSMTSLSVLHMSNTQRTLDN  213 (1255)
T ss_pred             -----------------------------------------------------hc----Cccchhhhhhhcccccchhhc
Confidence                                                                 01    223456677777665543 23


Q ss_pred             ccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCC
Q 037935          728 IFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCD  807 (1085)
Q Consensus       728 l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~  807 (1085)
                      +|  ..+..+.||..++++.|.                   +|                                     
T Consensus       214 ~P--tsld~l~NL~dvDlS~N~-------------------Lp-------------------------------------  235 (1255)
T KOG0444|consen  214 IP--TSLDDLHNLRDVDLSENN-------------------LP-------------------------------------  235 (1255)
T ss_pred             CC--CchhhhhhhhhccccccC-------------------CC-------------------------------------
Confidence            32  235555555555554433                   00                                     


Q ss_pred             CcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccc
Q 037935          808 KITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHN  887 (1085)
Q Consensus       808 ~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~  887 (1085)
                         ..|                .+.-.+++|+.|++|+|.|+.+...   .....+|++|+++.|+++.+|.. +..++.
T Consensus       236 ---~vP----------------ecly~l~~LrrLNLS~N~iteL~~~---~~~W~~lEtLNlSrNQLt~LP~a-vcKL~k  292 (1255)
T KOG0444|consen  236 ---IVP----------------ECLYKLRNLRRLNLSGNKITELNMT---EGEWENLETLNLSRNQLTVLPDA-VCKLTK  292 (1255)
T ss_pred             ---cch----------------HHHhhhhhhheeccCcCceeeeecc---HHHHhhhhhhccccchhccchHH-HhhhHH
Confidence               000                0112357778888888887765332   11257788888888888888854 568899


Q ss_pred             cceEEeeccc--ccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCC
Q 037935          888 LEFLYLSDCS--YEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSS  965 (1085)
Q Consensus       888 L~~L~l~~~~--l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~  965 (1085)
                      |+.|.+.+|+  +.++++.       +..+.+|+.+...+ ++|+-+|.+.     +.|+.|+.|.+..+ .+..+ |++
T Consensus       293 L~kLy~n~NkL~FeGiPSG-------IGKL~~Levf~aan-N~LElVPEgl-----cRC~kL~kL~L~~N-rLiTL-Pea  357 (1255)
T KOG0444|consen  293 LTKLYANNNKLTFEGIPSG-------IGKLIQLEVFHAAN-NKLELVPEGL-----CRCVKLQKLKLDHN-RLITL-PEA  357 (1255)
T ss_pred             HHHHHhccCcccccCCccc-------hhhhhhhHHHHhhc-cccccCchhh-----hhhHHHHHhccccc-ceeec-hhh
Confidence            9999999888  3444332       23455566666655 4454443321     23455555555433 33333 344


Q ss_pred             cccccCccEEEeccccCcc
Q 037935          966 SVSFRNLTRLETFACKKLM  984 (1085)
Q Consensus       966 l~~l~~L~~L~l~~c~~L~  984 (1085)
                      +.-++.|+.|++..+++|.
T Consensus       358 IHlL~~l~vLDlreNpnLV  376 (1255)
T KOG0444|consen  358 IHLLPDLKVLDLRENPNLV  376 (1255)
T ss_pred             hhhcCCcceeeccCCcCcc
Confidence            5555555555555555544

>PLN03210 Resistant to P

Probab=99.86  E-value=2.8e-21  Score=246.30  Aligned_cols=344  Identities=19%  Similarity=0.231  Sum_probs=245.3

Q ss_pred             HHhhcCC-CCcEEEEEeccCCCCCCcccccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccc
Q 037935          618 DELMHLQ-RLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVD  696 (1085)
Q Consensus       618 ~~l~~L~-~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~  696 (1085)
                      ..+..++ +|+.|.+..+.+..+|..+...+|+.|++..+.                                     + 
T Consensus       582 ~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~-------------------------------------l-  623 (1153)
T PLN03210        582 EGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSK-------------------------------------L-  623 (1153)
T ss_pred             cchhhcCcccEEEEecCCCCCCCCCcCCccCCcEEECcCcc-------------------------------------c-
Confidence            3344443 577777777777777777666677766663210                                     0 


Q ss_pred             cccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEe
Q 037935          697 EIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLK  776 (1085)
Q Consensus       697 ~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~  776 (1085)
                           ..+|..+..+++|+.|+|++|..++.+|.   +..+++|+.|++++|..+..++...        ..+++|+.|+
T Consensus       624 -----~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~---ls~l~~Le~L~L~~c~~L~~lp~si--------~~L~~L~~L~  687 (1153)
T PLN03210        624 -----EKLWDGVHSLTGLRNIDLRGSKNLKEIPD---LSMATNLETLKLSDCSSLVELPSSI--------QYLNKLEDLD  687 (1153)
T ss_pred             -----cccccccccCCCCCEEECCCCCCcCcCCc---cccCCcccEEEecCCCCccccchhh--------hccCCCCEEe
Confidence                 01233345678999999999988888743   7889999999999999887665432        2578999999


Q ss_pred             cCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccC
Q 037935          777 LDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDF  856 (1085)
Q Consensus       777 l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~  856 (1085)
                      +++|..+..++...   .+++|+.|.+.+|..+..+|                   ...++|++|++++|.+..++.. +
T Consensus       688 L~~c~~L~~Lp~~i---~l~sL~~L~Lsgc~~L~~~p-------------------~~~~nL~~L~L~~n~i~~lP~~-~  744 (1153)
T PLN03210        688 MSRCENLEILPTGI---NLKSLYRLNLSGCSRLKSFP-------------------DISTNISWLDLDETAIEEFPSN-L  744 (1153)
T ss_pred             CCCCCCcCccCCcC---CCCCCCEEeCCCCCCccccc-------------------cccCCcCeeecCCCcccccccc-c
Confidence            99999998886542   57899999999998877655                   1246899999999998765432 2


Q ss_pred             CcCccCCceEEEecCCc-------ccccchhHHhhccccceEEeeccc-ccEEEecCCccccccccccccceeccCCccc
Q 037935          857 PQHLFGSLKQLRVGDDD-------LACFPLDLLERFHNLEFLYLSDCS-YEVVFSNEGYLETHARKLALIKRLNLTRLNH  928 (1085)
Q Consensus       857 ~~~~~~~L~~L~l~~n~-------l~~~~~~~~~~l~~L~~L~l~~~~-l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~  928 (1085)
                         .+++|++|++..+.       +..+++..+..+++|+.|++++|+ +..++       ..+..+++|+.|++++|++
T Consensus       745 ---~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP-------~si~~L~~L~~L~Ls~C~~  814 (1153)
T PLN03210        745 ---RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELP-------SSIQNLHKLEHLEIENCIN  814 (1153)
T ss_pred             ---cccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccC-------hhhhCCCCCCEEECCCCCC
Confidence               26888888887522       222222233456789999999987 44332       3456788999999999999


Q ss_pred             ccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcc
Q 037935          929 LQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPA 1008 (1085)
Q Consensus       929 L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~ 1008 (1085)
                      ++.+|...      .+++|+.|++++|.++..++..    .++|+.|++++ +.++.+  +..+..+++|+.|++.+|++
T Consensus       815 L~~LP~~~------~L~sL~~L~Ls~c~~L~~~p~~----~~nL~~L~Ls~-n~i~~i--P~si~~l~~L~~L~L~~C~~  881 (1153)
T PLN03210        815 LETLPTGI------NLESLESLDLSGCSRLRTFPDI----STNISDLNLSR-TGIEEV--PWWIEKFSNLSFLDMNGCNN  881 (1153)
T ss_pred             cCeeCCCC------CccccCEEECCCCCcccccccc----ccccCEeECCC-CCCccC--hHHHhcCCCCCEEECCCCCC
Confidence            98887632      4788999999999888665321    35899999987 457766  34567889999999999999


Q ss_pred             cccccccccccccccccceeeccccccccccccccceecCCCcc-----------ccCCCcCceeeccCCCccc
Q 037935         1009 MTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYA-----------FKLPSLQDLWVIGCPKMKL 1071 (1085)
Q Consensus      1009 l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~-----------~~l~~L~~L~i~~C~~l~~ 1071 (1085)
                      ++.++.          ....+++|+.+++.+|++|+.++....+           ..+|+...+.+.+|.++..
T Consensus       882 L~~l~~----------~~~~L~~L~~L~l~~C~~L~~~~l~~~~~~~~~~~~n~~~~~p~~~~l~f~nC~~L~~  945 (1153)
T PLN03210        882 LQRVSL----------NISKLKHLETVDFSDCGALTEASWNGSPSEVAMATDNIHSKLPSTVCINFINCFNLDQ  945 (1153)
T ss_pred             cCccCc----------ccccccCCCeeecCCCcccccccCCCCchhhhhhcccccccCCchhccccccccCCCc
Confidence            888754          2223688888899999988766542211           2345556677788877653

syringae 6; Provisional

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

Probab=99.86  E-value=3.8e-24  Score=217.77  Aligned_cols=452  Identities=21%  Similarity=0.216  Sum_probs=289.3

Q ss_pred             CCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCE
Q 037935          514 PQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEE  593 (1085)
Q Consensus       514 ~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~  593 (1085)
                      ..+..|.+++|.   ...+.++ ..++..|.+|++++|.+.++|.+|+.+..++.|+.++| ++..+|+.+ +.+.+|.+
T Consensus        45 v~l~~lils~N~---l~~l~~d-l~nL~~l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n-~ls~lp~~i-~s~~~l~~  118 (565)
T KOG0472|consen   45 VDLQKLILSHND---LEVLRED-LKNLACLTVLNVHDNKLSQLPAAIGELEALKSLNVSHN-KLSELPEQI-GSLISLVK  118 (565)
T ss_pred             cchhhhhhccCc---hhhccHh-hhcccceeEEEeccchhhhCCHHHHHHHHHHHhhcccc-hHhhccHHH-hhhhhhhh
Confidence            567788898887   5555554 78899999999999999999999999999999999999 999999996 99999999


Q ss_pred             EeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-cccccceeeEEecCCCccccccccccccc
Q 037935          594 LYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-FTKKLERFDISIGDGSFDSTKIIGNDWFQ  672 (1085)
Q Consensus       594 L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~l~~~~~~  672 (1085)
                      |+.++|.+.            +.+.+++.+..|..++..+|++..+|.++ .+.+|..+.+..+                
T Consensus       119 l~~s~n~~~------------el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n----------------  170 (565)
T KOG0472|consen  119 LDCSSNELK------------ELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEGN----------------  170 (565)
T ss_pred             hhcccccee------------ecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhcccc----------------
Confidence            999999874            34556778889999999999999999987 6777777766422                


Q ss_pred             ccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchH
Q 037935          673 TFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQ  752 (1085)
Q Consensus       673 ~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~  752 (1085)
                        ++..+...... .+.|+.++.-.+.. +.+|..++.+.+|..|++..+ .+..+|   .|+.+..|++|++..|. ++
T Consensus       171 --~l~~l~~~~i~-m~~L~~ld~~~N~L-~tlP~~lg~l~~L~~LyL~~N-ki~~lP---ef~gcs~L~Elh~g~N~-i~  241 (565)
T KOG0472|consen  171 --KLKALPENHIA-MKRLKHLDCNSNLL-ETLPPELGGLESLELLYLRRN-KIRFLP---EFPGCSLLKELHVGENQ-IE  241 (565)
T ss_pred             --chhhCCHHHHH-HHHHHhcccchhhh-hcCChhhcchhhhHHHHhhhc-ccccCC---CCCccHHHHHHHhcccH-HH
Confidence              22221111111 33344444333222 357778888889999999885 556654   37888888888887776 66


Q ss_pred             HHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCccccc
Q 037935          753 EIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFK  832 (1085)
Q Consensus       753 ~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~  832 (1085)
                      .++.+..       ..+++|..|++++ .++++.+.+  ...+.+|++|++++.. +..+|                ...
T Consensus       242 ~lpae~~-------~~L~~l~vLDLRd-Nklke~Pde--~clLrsL~rLDlSNN~-is~Lp----------------~sL  294 (565)
T KOG0472|consen  242 MLPAEHL-------KHLNSLLVLDLRD-NKLKEVPDE--ICLLRSLERLDLSNND-ISSLP----------------YSL  294 (565)
T ss_pred             hhHHHHh-------cccccceeeeccc-cccccCchH--HHHhhhhhhhcccCCc-cccCC----------------ccc
Confidence            5544322       2478888899887 466666554  2345678888887763 22222                122


Q ss_pred             ccCCccceeeeccCCceeeecc--------------------------------------cCCc-CccCCceEEEecCCc
Q 037935          833 KILPNLEGLALSGKDITMILQD--------------------------------------DFPQ-HLFGSLKQLRVGDDD  873 (1085)
Q Consensus       833 ~~l~~L~~L~ls~n~l~~~~~~--------------------------------------~~~~-~~~~~L~~L~l~~n~  873 (1085)
                      +++ .|+.|.+.+|++..+-..                                      .|+. ....+.+.|+++.-+
T Consensus       295 gnl-hL~~L~leGNPlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~~q  373 (565)
T KOG0472|consen  295 GNL-HLKFLALEGNPLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSDKQ  373 (565)
T ss_pred             ccc-eeeehhhcCCchHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccccc
Confidence            344 666677777764322111                                      0110 113456677777777


Q ss_pred             ccccchhHHhhcc--ccceEEeecccccEEEecCCccccccccccccc-eeccCCcccccccccCCCchhhhHhhhhcee
Q 037935          874 LACFPLDLLERFH--NLEFLYLSDCSYEVVFSNEGYLETHARKLALIK-RLNLTRLNHLQQLWKHDSKELDFIFQHLQIL  950 (1085)
Q Consensus       874 l~~~~~~~~~~l~--~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~-~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L  950 (1085)
                      ++.+|...|..-.  -.+..+++.|++.+++..       +..+..+. .+.+++ +.+..++.     ....+++|..|
T Consensus       374 lt~VPdEVfea~~~~~Vt~VnfskNqL~elPk~-------L~~lkelvT~l~lsn-n~isfv~~-----~l~~l~kLt~L  440 (565)
T KOG0472|consen  374 LTLVPDEVFEAAKSEIVTSVNFSKNQLCELPKR-------LVELKELVTDLVLSN-NKISFVPL-----ELSQLQKLTFL  440 (565)
T ss_pred             cccCCHHHHHHhhhcceEEEecccchHhhhhhh-------hHHHHHHHHHHHhhc-CccccchH-----HHHhhhcceee
Confidence            7777776664332  266677777776665421       11111121 222222 33322222     22345666666


Q ss_pred             eeeccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccccccccccceeec
Q 037935          951 RVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFS 1030 (1085)
Q Consensus       951 ~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~ 1030 (1085)
                      +++++ -+.++ |..++.+..|+.|+|+.+ +...+  +....-+..|+.+-.++ ..+..+.++         ....+.
T Consensus       441 ~L~NN-~Ln~L-P~e~~~lv~Lq~LnlS~N-rFr~l--P~~~y~lq~lEtllas~-nqi~~vd~~---------~l~nm~  505 (565)
T KOG0472|consen  441 DLSNN-LLNDL-PEEMGSLVRLQTLNLSFN-RFRML--PECLYELQTLETLLASN-NQIGSVDPS---------GLKNMR  505 (565)
T ss_pred             ecccc-hhhhc-chhhhhhhhhheeccccc-ccccc--hHHHhhHHHHHHHHhcc-ccccccChH---------Hhhhhh
Confidence            66665 23333 334556666777777653 33333  22233333333333333 445555431         233467


Q ss_pred             cccccccccccccceecCCCccccCCCcCceeeccCC
Q 037935         1031 KLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCP 1067 (1085)
Q Consensus      1031 ~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~ 1067 (1085)
                      +|+.|++.+ +.++++|.+  .+++++|++|+++|.|
T Consensus       506 nL~tLDL~n-Ndlq~IPp~--LgnmtnL~hLeL~gNp  539 (565)
T KOG0472|consen  506 NLTTLDLQN-NDLQQIPPI--LGNMTNLRHLELDGNP  539 (565)
T ss_pred             hcceeccCC-CchhhCChh--hccccceeEEEecCCc
Confidence            888888876 568999987  6899999999999965

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

Probab=99.86  E-value=2.7e-23  Score=233.67  Aligned_cols=439  Identities=20%  Similarity=0.197  Sum_probs=239.9

Q ss_pred             cceEEEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEec
Q 037935          493 KCYAISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDL  571 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~L  571 (1085)
                      ++.+|++++|.+..+|..+ .+++|+.|.++.|.   +..+|. ...++++|++|+|.+|.+..+|.++..+++|++|++
T Consensus        46 ~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~---i~~vp~-s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~Ldl  121 (1081)
T KOG0618|consen   46 KLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNY---IRSVPS-SCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDL  121 (1081)
T ss_pred             eeEEeeccccccccCCchhhhHHHHhhcccchhh---HhhCch-hhhhhhcchhheeccchhhcCchhHHhhhccccccc
Confidence            3788999999998888766 77899999999887   677774 478899999999999999999999999999999999


Q ss_pred             cCcccccccchhhhhccccCCEEeccCCCcchhhccc--------CCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc
Q 037935          572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKG--------NSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL  643 (1085)
Q Consensus       572 s~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~--------~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~  643 (1085)
                      ++| .+...|.-+ ..++.+..+..++|......+..        .....+..+.++..+++  .|+++.|.+. .-...
T Consensus       122 S~N-~f~~~Pl~i-~~lt~~~~~~~s~N~~~~~lg~~~ik~~~l~~n~l~~~~~~~i~~l~~--~ldLr~N~~~-~~dls  196 (1081)
T KOG0618|consen  122 SFN-HFGPIPLVI-EVLTAEEELAASNNEKIQRLGQTSIKKLDLRLNVLGGSFLIDIYNLTH--QLDLRYNEME-VLDLS  196 (1081)
T ss_pred             chh-ccCCCchhH-HhhhHHHHHhhhcchhhhhhccccchhhhhhhhhcccchhcchhhhhe--eeecccchhh-hhhhh
Confidence            999 898888865 78888888888887211110000        00111222222333333  3555555544 11111


Q ss_pred             cccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCC
Q 037935          644 FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCD  723 (1085)
Q Consensus       644 ~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~  723 (1085)
                      .+.+|+.+....+                  .+..+.+..    .+|+.+....+......+.  +.-.+|++++++.+ 
T Consensus       197 ~~~~l~~l~c~rn------------------~ls~l~~~g----~~l~~L~a~~n~l~~~~~~--p~p~nl~~~dis~n-  251 (1081)
T KOG0618|consen  197 NLANLEVLHCERN------------------QLSELEISG----PSLTALYADHNPLTTLDVH--PVPLNLQYLDISHN-  251 (1081)
T ss_pred             hccchhhhhhhhc------------------ccceEEecC----cchheeeeccCcceeeccc--cccccceeeecchh-
Confidence            2233333222111                  111111110    0111111111111111111  11236666666664 


Q ss_pred             CCccccchhhHhhcccccEEEeccccchHHHhccCCc--------------cccccc-ccCCcccEEecCCCCccccccC
Q 037935          724 KLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRT--------------DQVTAY-FVFPRVTTLKLDGLPELRCLYP  788 (1085)
Q Consensus       724 ~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~--------------~~~~~~-~~~~~L~~L~l~~~~~l~~~~~  788 (1085)
                      .+..+|  .+++.+++|+.+.+.+|. +..++...+.              ...++. ..+.+|++|++... ++..++.
T Consensus       252 ~l~~lp--~wi~~~~nle~l~~n~N~-l~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N-~L~~lp~  327 (1081)
T KOG0618|consen  252 NLSNLP--EWIGACANLEALNANHNR-LVALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSN-NLPSLPD  327 (1081)
T ss_pred             hhhcch--HHHHhcccceEecccchh-HHhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhc-cccccch
Confidence            344442  556666666666666555 2333222210              000000 12444555554431 2222211


Q ss_pred             CCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEE
Q 037935          789 GMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLR  868 (1085)
Q Consensus       789 ~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~  868 (1085)
                      ......-.+|..|..+ |.++...|.               .-...++.|+.|++.+|.+++.....+..  +.+|+.|+
T Consensus       328 ~~l~v~~~~l~~ln~s-~n~l~~lp~---------------~~e~~~~~Lq~LylanN~Ltd~c~p~l~~--~~hLKVLh  389 (1081)
T KOG0618|consen  328 NFLAVLNASLNTLNVS-SNKLSTLPS---------------YEENNHAALQELYLANNHLTDSCFPVLVN--FKHLKVLH  389 (1081)
T ss_pred             HHHhhhhHHHHHHhhh-hcccccccc---------------ccchhhHHHHHHHHhcCcccccchhhhcc--ccceeeee
Confidence            1000000012222211 111222110               00123577888888888877654444443  68888888


Q ss_pred             ecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhc
Q 037935          869 VGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQ  948 (1085)
Q Consensus       869 l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~  948 (1085)
                      |++|.+..+|...+.+++.|+.|++|+|.++.++       +....+..|+.|...+ +.|..+|..      ..++.|+
T Consensus       390 LsyNrL~~fpas~~~kle~LeeL~LSGNkL~~Lp-------~tva~~~~L~tL~ahs-N~l~~fPe~------~~l~qL~  455 (1081)
T KOG0618|consen  390 LSYNRLNSFPASKLRKLEELEELNLSGNKLTTLP-------DTVANLGRLHTLRAHS-NQLLSFPEL------AQLPQLK  455 (1081)
T ss_pred             ecccccccCCHHHHhchHHhHHHhcccchhhhhh-------HHHHhhhhhHHHhhcC-Cceeechhh------hhcCcce
Confidence            8888888888888888888888888888887763       3455677777777766 666666531      2467777


Q ss_pred             eeeeecccccccc-CCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcC
Q 037935          949 ILRVLHCQNLLSL-LPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFG 1005 (1085)
Q Consensus       949 ~L~i~~c~~l~~~-~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~ 1005 (1085)
                      .++++.+ ++... .+.... -++|++|+++++.++.  +....+..+.++..+++.-
T Consensus       456 ~lDlS~N-~L~~~~l~~~~p-~p~LkyLdlSGN~~l~--~d~~~l~~l~~l~~~~i~~  509 (1081)
T KOG0618|consen  456 VLDLSCN-NLSEVTLPEALP-SPNLKYLDLSGNTRLV--FDHKTLKVLKSLSQMDITL  509 (1081)
T ss_pred             EEecccc-hhhhhhhhhhCC-CcccceeeccCCcccc--cchhhhHHhhhhhheeccc
Confidence            7777655 44322 222122 2577777777765433  3344455555555554443

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

Probab=99.69  E-value=1.6e-18  Score=177.07  Aligned_cols=127  Identities=20%  Similarity=0.299  Sum_probs=107.6

Q ss_pred             ccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEeccCcccccc
Q 037935          501 NSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDCLQLKF  579 (1085)
Q Consensus       501 ~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~~l~~  579 (1085)
                      +-.+.++|..+. +....+.|..|.   +..||+.+|+.+++||.||||+|.|+.+ |++|.+|..|-.|-+.++.+|+.
T Consensus        55 ~~GL~eVP~~LP-~~tveirLdqN~---I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~  130 (498)
T KOG4237|consen   55 GKGLTEVPANLP-PETVEIRLDQNQ---ISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITD  130 (498)
T ss_pred             CCCcccCcccCC-CcceEEEeccCC---cccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhh
Confidence            445666776553 466778888887   8999999999999999999999999997 88999999998888877449999


Q ss_pred             cchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCc
Q 037935          580 IVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDG  642 (1085)
Q Consensus       580 lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  642 (1085)
                      +|.+.|++|..||.|.+.-|.+           .-.....|..|++|+.|.+..|.+..++..
T Consensus       131 l~k~~F~gL~slqrLllNan~i-----------~Cir~~al~dL~~l~lLslyDn~~q~i~~~  182 (498)
T KOG4237|consen  131 LPKGAFGGLSSLQRLLLNANHI-----------NCIRQDALRDLPSLSLLSLYDNKIQSICKG  182 (498)
T ss_pred             hhhhHhhhHHHHHHHhcChhhh-----------cchhHHHHHHhhhcchhcccchhhhhhccc
Confidence            9999999999999999988887           233456789999999999999988877764

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.60  E-value=3.7e-15  Score=175.38  Aligned_cols=115  Identities=20%  Similarity=0.169  Sum_probs=67.8

Q ss_pred             CccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccc
Q 037935          836 PNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKL  915 (1085)
Q Consensus       836 ~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l  915 (1085)
                      ++|+.|++++|.++.++..      .++|+.|++++|+++.+|.    ...+|+.|++++|+++.++..          .
T Consensus       342 ~~Lq~LdLS~N~Ls~LP~l------p~~L~~L~Ls~N~L~~LP~----l~~~L~~LdLs~N~Lt~LP~l----------~  401 (788)
T PRK15387        342 SGLQELSVSDNQLASLPTL------PSELYKLWAYNNRLTSLPA----LPSGLKELIVSGNRLTSLPVL----------P  401 (788)
T ss_pred             cccceEecCCCccCCCCCC------CcccceehhhccccccCcc----cccccceEEecCCcccCCCCc----------c
Confidence            3566677777666654321      3556666777777766653    234667777777766544321          2


Q ss_pred             cccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEecccc
Q 037935          916 ALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACK  981 (1085)
Q Consensus       916 ~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~  981 (1085)
                      ++|+.|++++ +.++.++.        .+.+|+.|++++| ++..+ |..+..+++|+.|++++|+
T Consensus       402 s~L~~LdLS~-N~LssIP~--------l~~~L~~L~Ls~N-qLt~L-P~sl~~L~~L~~LdLs~N~  456 (788)
T PRK15387        402 SELKELMVSG-NRLTSLPM--------LPSGLLSLSVYRN-QLTRL-PESLIHLSSETTVNLEGNP  456 (788)
T ss_pred             cCCCEEEccC-CcCCCCCc--------chhhhhhhhhccC-ccccc-ChHHhhccCCCeEECCCCC
Confidence            3466666666 44555543        2345666777665 45544 4446677777777777644

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.60  E-value=6.5e-15  Score=173.29  Aligned_cols=257  Identities=18%  Similarity=0.130  Sum_probs=149.0

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCc
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDC  574 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~  574 (1085)
                      ..|+++.+.++.+|..+. ++|+.|.+.+|.   +..+|.    .+++|++|++++|+++.+|..   .++|++|++++|
T Consensus       204 ~~LdLs~~~LtsLP~~l~-~~L~~L~L~~N~---Lt~LP~----lp~~Lk~LdLs~N~LtsLP~l---p~sL~~L~Ls~N  272 (788)
T PRK15387        204 AVLNVGESGLTTLPDCLP-AHITTLVIPDNN---LTSLPA----LPPELRTLEVSGNQLTSLPVL---PPGLLELSIFSN  272 (788)
T ss_pred             cEEEcCCCCCCcCCcchh-cCCCEEEccCCc---CCCCCC----CCCCCcEEEecCCccCcccCc---ccccceeeccCC
Confidence            356666777777776543 467777777766   555654    246777778877777777742   356777777777


Q ss_pred             ccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccceeeEE
Q 037935          575 LQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDIS  654 (1085)
Q Consensus       575 ~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~  654 (1085)
                       .++.+|..    ..+|+.|++++|.+...+            .   .+++|+.|++++|.+..+|...  .+|+.|.+.
T Consensus       273 -~L~~Lp~l----p~~L~~L~Ls~N~Lt~LP------------~---~p~~L~~LdLS~N~L~~Lp~lp--~~L~~L~Ls  330 (788)
T PRK15387        273 -PLTHLPAL----PSGLCKLWIFGNQLTSLP------------V---LPPGLQELSVSDNQLASLPALP--SELCKLWAY  330 (788)
T ss_pred             -chhhhhhc----hhhcCEEECcCCcccccc------------c---cccccceeECCCCccccCCCCc--ccccccccc
Confidence             67777652    245667777777763221            1   2356777777777766655421  223333221


Q ss_pred             ecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhH
Q 037935          655 IGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTI  734 (1085)
Q Consensus       655 ~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l  734 (1085)
                      .+                                          .. ..+|..   ..+|+.|+|++| .+..+|+.   
T Consensus       331 ~N------------------------------------------~L-~~LP~l---p~~Lq~LdLS~N-~Ls~LP~l---  360 (788)
T PRK15387        331 NN------------------------------------------QL-TSLPTL---PSGLQELSVSDN-QLASLPTL---  360 (788)
T ss_pred             cC------------------------------------------cc-cccccc---ccccceEecCCC-ccCCCCCC---
Confidence            10                                          00 012211   125566666553 33333221   


Q ss_pred             hhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccC
Q 037935          735 QSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQN  814 (1085)
Q Consensus       735 ~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~  814 (1085)
                        .++|+.|++++|.                                 +..++     ...++|+.|+++++. +..+| 
T Consensus       361 --p~~L~~L~Ls~N~---------------------------------L~~LP-----~l~~~L~~LdLs~N~-Lt~LP-  398 (788)
T PRK15387        361 --PSELYKLWAYNNR---------------------------------LTSLP-----ALPSGLKELIVSGNR-LTSLP-  398 (788)
T ss_pred             --Ccccceehhhccc---------------------------------cccCc-----ccccccceEEecCCc-ccCCC-
Confidence              2344555544443                                 11111     112346666665552 33332 


Q ss_pred             CCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEee
Q 037935          815 DENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS  894 (1085)
Q Consensus       815 ~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  894 (1085)
                                        ...++|+.|++++|.++.++.  +    +.+|+.|++++|+++.+|.. +..+++|+.|+++
T Consensus       399 ------------------~l~s~L~~LdLS~N~LssIP~--l----~~~L~~L~Ls~NqLt~LP~s-l~~L~~L~~LdLs  453 (788)
T PRK15387        399 ------------------VLPSELKELMVSGNRLTSLPM--L----PSGLLSLSVYRNQLTRLPES-LIHLSSETTVNLE  453 (788)
T ss_pred             ------------------CcccCCCEEEccCCcCCCCCc--c----hhhhhhhhhccCcccccChH-HhhccCCCeEECC
Confidence                              113578888999988876542  1    35788888889999888854 5688899999999


Q ss_pred             cccccEE
Q 037935          895 DCSYEVV  901 (1085)
Q Consensus       895 ~~~l~~~  901 (1085)
                      +|++...
T Consensus       454 ~N~Ls~~  460 (788)
T PRK15387        454 GNPLSER  460 (788)
T ss_pred             CCCCCch
Confidence            9987653

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

Probab=99.57  E-value=1.4e-15  Score=155.79  Aligned_cols=124  Identities=21%  Similarity=0.246  Sum_probs=92.0

Q ss_pred             eEEEecCccccCCCccccccceEEEeeccCcccccccC--CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecC-
Q 037935          474 VFLVRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEF--ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTR-  550 (1085)
Q Consensus       474 ~~~~~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~-  550 (1085)
                      .+..++..+.+.|. +.+....-+.+..|.|+.+|...  .+++||.|++++|.   +..|.++.|.+++.|..|-+.+ 
T Consensus        50 ~VdCr~~GL~eVP~-~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~---Is~I~p~AF~GL~~l~~Lvlyg~  125 (498)
T KOG4237|consen   50 IVDCRGKGLTEVPA-NLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNN---ISFIAPDAFKGLASLLSLVLYGN  125 (498)
T ss_pred             eEEccCCCcccCcc-cCCCcceEEEeccCCcccCChhhccchhhhceecccccc---hhhcChHhhhhhHhhhHHHhhcC
Confidence            34455666666654 46777888999999999998754  88999999999998   7888888999999888887766 


Q ss_pred             CcccCCch-hhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcc
Q 037935          551 VRLFSLPS-SIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIK  602 (1085)
Q Consensus       551 ~~i~~lp~-~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~  602 (1085)
                      |+|+.+|. .|++|..|+-|.+.-| .+..++.+.|..|.+|..|.+..|.+.
T Consensus       126 NkI~~l~k~~F~gL~slqrLllNan-~i~Cir~~al~dL~~l~lLslyDn~~q  177 (498)
T KOG4237|consen  126 NKITDLPKGAFGGLSSLQRLLLNAN-HINCIRQDALRDLPSLSLLSLYDNKIQ  177 (498)
T ss_pred             CchhhhhhhHhhhHHHHHHHhcChh-hhcchhHHHHHHhhhcchhcccchhhh
Confidence            88999884 5667777777666666 666666666666666666655555443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.43  E-value=4.7e-13  Score=159.14  Aligned_cols=121  Identities=15%  Similarity=0.195  Sum_probs=79.4

Q ss_pred             ceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccC
Q 037935          494 CYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~  573 (1085)
                      ...|.+.+++++.+|..+ .++|+.|++.+|.   +..+|..++   .+|++|++++|+++.+|..+.  .+|+.|+|++
T Consensus       180 ~~~L~L~~~~LtsLP~~I-p~~L~~L~Ls~N~---LtsLP~~l~---~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls~  250 (754)
T PRK15370        180 KTELRLKILGLTTIPACI-PEQITTLILDNNE---LKSLPENLQ---GNIKTLYANSNQLTSIPATLP--DTIQEMELSI  250 (754)
T ss_pred             ceEEEeCCCCcCcCCccc-ccCCcEEEecCCC---CCcCChhhc---cCCCEEECCCCccccCChhhh--ccccEEECcC
Confidence            456777777777777644 2567788887776   566776544   367888888888877776554  4678888888


Q ss_pred             cccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCC
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPD  641 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  641 (1085)
                      | .+..+|..+ .  .+|+.|++++|.+...            +..+  ..+|+.|++++|.+..+|.
T Consensus       251 N-~L~~LP~~l-~--s~L~~L~Ls~N~L~~L------------P~~l--~~sL~~L~Ls~N~Lt~LP~  300 (754)
T PRK15370        251 N-RITELPERL-P--SALQSLDLFHNKISCL------------PENL--PEELRYLSVYDNSIRTLPA  300 (754)
T ss_pred             C-ccCcCChhH-h--CCCCEEECcCCccCcc------------cccc--CCCCcEEECCCCccccCcc
Confidence            7 777777654 2  4677788877776321            1112  1367777777776655443

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

Probab=99.41  E-value=3.8e-15  Score=134.53  Aligned_cols=167  Identities=23%  Similarity=0.331  Sum_probs=130.2

Q ss_pred             cccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchh
Q 037935          504 IHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPN  583 (1085)
Q Consensus       504 ~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~  583 (1085)
                      +.+++..+.++++..|.+++|.   ...+|+. +..+.+|++|++++|+|+++|.+|+.++.|+.|+++-| .+..+|.+
T Consensus        23 f~~~~gLf~~s~ITrLtLSHNK---l~~vppn-ia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmn-rl~~lprg   97 (264)
T KOG0617|consen   23 FEELPGLFNMSNITRLTLSHNK---LTVVPPN-IAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMN-RLNILPRG   97 (264)
T ss_pred             HhhcccccchhhhhhhhcccCc---eeecCCc-HHHhhhhhhhhcccchhhhcChhhhhchhhhheecchh-hhhcCccc
Confidence            4556667788888888888887   6777877 66799999999999999999999999999999999998 88889988


Q ss_pred             hhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-cccccceeeEEecCCCccc
Q 037935          584 ILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-FTKKLERFDISIGDGSFDS  662 (1085)
Q Consensus       584 ~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~  662 (1085)
                       |+.++-|+.||+.+|++.          ....+..|-.++.|+.|.++.|+...+|.++ .+++|+-|.+..++-    
T Consensus        98 -fgs~p~levldltynnl~----------e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndl----  162 (264)
T KOG0617|consen   98 -FGSFPALEVLDLTYNNLN----------ENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDL----  162 (264)
T ss_pred             -cCCCchhhhhhccccccc----------cccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCch----
Confidence             499999999999998874          3456677777888888888888888888877 666666665543210    


Q ss_pred             ccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccc
Q 037935          663 TKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFS  730 (1085)
Q Consensus       663 ~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~  730 (1085)
                                                             -.+|..++.+..|++|++.++ .+..+||
T Consensus       163 ---------------------------------------l~lpkeig~lt~lrelhiqgn-rl~vlpp  190 (264)
T KOG0617|consen  163 ---------------------------------------LSLPKEIGDLTRLRELHIQGN-RLTVLPP  190 (264)
T ss_pred             ---------------------------------------hhCcHHHHHHHHHHHHhcccc-eeeecCh
Confidence                                                   135556667778888888774 5666654

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.41  E-value=9.2e-13  Score=156.65  Aligned_cols=74  Identities=19%  Similarity=0.189  Sum_probs=36.7

Q ss_pred             cceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEe
Q 037935          516 LEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELY  595 (1085)
Q Consensus       516 Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~  595 (1085)
                      ...|.+.++.   ...+|..+   .++|+.|+|++|+++.+|..+.  .+|++|++++| +++.+|..+   ..+|+.|+
T Consensus       180 ~~~L~L~~~~---LtsLP~~I---p~~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N-~LtsLP~~l---~~~L~~L~  247 (754)
T PRK15370        180 KTELRLKILG---LTTIPACI---PEQITTLILDNNELKSLPENLQ--GNIKTLYANSN-QLTSIPATL---PDTIQEME  247 (754)
T ss_pred             ceEEEeCCCC---cCcCCccc---ccCCcEEEecCCCCCcCChhhc--cCCCEEECCCC-ccccCChhh---hccccEEE
Confidence            3445554443   34444332   1345555555555555554443  35555555555 555555432   12455555


Q ss_pred             ccCCCc
Q 037935          596 MGSCSI  601 (1085)
Q Consensus       596 L~~~~~  601 (1085)
                      +++|.+
T Consensus       248 Ls~N~L  253 (754)
T PRK15370        248 LSINRI  253 (754)
T ss_pred             CcCCcc
Confidence            555554

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

Probab=99.24  E-value=3.1e-13  Score=122.37  Aligned_cols=149  Identities=23%  Similarity=0.333  Sum_probs=100.2

Q ss_pred             ccccccceEEEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccc
Q 037935          488 GDALKKCYAISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKL  566 (1085)
Q Consensus       488 ~~~~~~~r~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L  566 (1085)
                      --.+..+.+|.+++|.+..+|..+ .+.+|++|++++|.   +.++|.. ++.++.||.|+++-|++..+|..||.++-|
T Consensus        29 Lf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnq---ie~lp~~-issl~klr~lnvgmnrl~~lprgfgs~p~l  104 (264)
T KOG0617|consen   29 LFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQ---IEELPTS-ISSLPKLRILNVGMNRLNILPRGFGSFPAL  104 (264)
T ss_pred             ccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccch---hhhcChh-hhhchhhhheecchhhhhcCccccCCCchh
Confidence            334456677777777777776655 66777777777766   6666665 566777777777777777777777777777


Q ss_pred             cEEeccCccccc--ccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-
Q 037935          567 RMLDLTDCLQLK--FIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-  643 (1085)
Q Consensus       567 ~~L~Ls~~~~l~--~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-  643 (1085)
                      +.|||.+| ++.  .+|..+ -.|+.|+.|++++|.+.            ..+..++++++|+.|.+..|++-.+|..+ 
T Consensus       105 evldltyn-nl~e~~lpgnf-f~m~tlralyl~dndfe------------~lp~dvg~lt~lqil~lrdndll~lpkeig  170 (264)
T KOG0617|consen  105 EVLDLTYN-NLNENSLPGNF-FYMTTLRALYLGDNDFE------------ILPPDVGKLTNLQILSLRDNDLLSLPKEIG  170 (264)
T ss_pred             hhhhcccc-ccccccCCcch-hHHHHHHHHHhcCCCcc------------cCChhhhhhcceeEEeeccCchhhCcHHHH
Confidence            77777776 543  356553 56677777777777652            23455667777777777777777677666 


Q ss_pred             cccccceeeEE
Q 037935          644 FTKKLERFDIS  654 (1085)
Q Consensus       644 ~l~~L~~L~l~  654 (1085)
                      .+..|+.|.+.
T Consensus       171 ~lt~lrelhiq  181 (264)
T KOG0617|consen  171 DLTRLRELHIQ  181 (264)
T ss_pred             HHHHHHHHhcc
Confidence            56666666654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.16  E-value=4.6e-09  Score=134.46  Aligned_cols=273  Identities=15%  Similarity=0.231  Sum_probs=169.6

Q ss_pred             CCccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHh
Q 037935          159 GYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKL  237 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l  237 (1085)
                      ....++-|....+.+-+   ....+++.|.|++|.||||++..+.+.      ++.++|+++.. ..++..+...++..+
T Consensus        12 ~~~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         12 RLHNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             CccccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHH
Confidence            34567778765555533   245789999999999999999998853      23589999964 456677777777776


Q ss_pred             CCCCCC--------------chHHHHHHHHHHHHHc-CCcEEEEEeCCCCccc--cc-ccccccCCCCCCcEEEe-----
Q 037935          238 GLELSD--------------EAEYRRASRLYERLKN-ENKILVILDNIWKYLD--LD-TIGIPFGNDHEGYNFLI-----  294 (1085)
Q Consensus       238 ~~~~~~--------------~~~~~~~~~~~~~l~~-~~~~LlvlDdv~~~~~--~~-~~~~~~~~~~~gs~ilv-----  294 (1085)
                      +.....              ......+..+...+.. +.+++||+||+...++  .. .+...+.....+.+++|     
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~  162 (903)
T PRK04841         83 QQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNL  162 (903)
T ss_pred             HHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCC
Confidence            421110              1111223344444433 7899999999976421  11 12111111122223323     


Q ss_pred             -----------------c----CCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHhcCCHHHHH
Q 037935          295 -----------------G----NLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWK  353 (1085)
Q Consensus       295 -----------------~----~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~~~~~~~w~  353 (1085)
                                       +    +|+.+|+.++|....+...    -.+...+|.+.|+|.|+++..++..+...... ..
T Consensus       163 ~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~----~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~-~~  237 (903)
T PRK04841        163 PPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI----EAAESSRLCDDVEGWATALQLIALSARQNNSS-LH  237 (903)
T ss_pred             CCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC----CHHHHHHHHHHhCChHHHHHHHHHHHhhCCCc-hh
Confidence                             2    8999999999988775322    25667899999999999999888776533110 00


Q ss_pred             HHHHHhcCCCCCCCCC-CcccchhhHH-HHHhcCChHHHHHHHHhccccCCCCCHHHHHHHHhhcCCCCCCchHHHHHHH
Q 037935          354 NALRELQTPSVVNFEG-VPAETYSSIE-LSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNK  431 (1085)
Q Consensus       354 ~~~~~l~~~~~~~~~~-~~~~~~~~l~-~sy~~L~~~~~k~cf~~~s~fp~~i~~~~li~~w~~~g~~~~~~~~~~~~~~  431 (1085)
                      .....+        .+ ....+...+. -.++.||+ ..+..+...|+++ .|+.+-+-...   |   .    .+.   
T Consensus       238 ~~~~~~--------~~~~~~~~~~~l~~~v~~~l~~-~~~~~l~~~a~~~-~~~~~l~~~l~---~---~----~~~---  294 (903)
T PRK04841        238 DSARRL--------AGINASHLSDYLVEEVLDNVDL-ETRHFLLRCSVLR-SMNDALIVRVT---G---E----ENG---  294 (903)
T ss_pred             hhhHhh--------cCCCchhHHHHHHHHHHhcCCH-HHHHHHHHhcccc-cCCHHHHHHHc---C---C----CcH---
Confidence            111111        11 1123444433 34889997 6999999999987 56654333221   1   1    111   


Q ss_pred             HHHHHHHHhHccccee-c-CCcceEEEcHHHHHHHHHHhh
Q 037935          432 LYALVHELRDCCLLLE-G-DRNETFYMHDVVCDVAVSIAC  469 (1085)
Q Consensus       432 ~~~~~~~L~~~~ll~~-~-~~~~~~~mHdl~~~~~~~~~~  469 (1085)
                       .+.+++|.+++++.. . +...+|+.|++++++++....
T Consensus       295 -~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l~  333 (903)
T PRK04841        295 -QMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRCQ  333 (903)
T ss_pred             -HHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHHH
Confidence             234788889998653 2 334589999999999987753

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

Probab=99.13  E-value=6.4e-13  Score=137.99  Aligned_cols=138  Identities=22%  Similarity=0.239  Sum_probs=71.9

Q ss_pred             cccccceeccCCcccccccccCCCchhhhHhhhhceeeeecccccccc-CCCCcccccCccEEEeccccCcccccc---h
Q 037935          914 KLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSL-LPSSSVSFRNLTRLETFACKKLMNLLT---S  989 (1085)
Q Consensus       914 ~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~-~~~~l~~l~~L~~L~l~~c~~L~~l~~---~  989 (1085)
                      +.++|+.|.++.|..++......   ..-.++.|+.+++..|...... .-.--.+++.|+.|.+++|.-+++...   .
T Consensus       318 ~~~~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  318 HCHNLQVLELSGCQQFSDRGFTM---LGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLS  394 (483)
T ss_pred             CCCceEEEeccccchhhhhhhhh---hhcCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhh
Confidence            34555555555555433332111   1234566666666666433221 111123466677777777766655411   1


Q ss_pred             hhhhhcccccEEEEcCCcccccccccccccccccccceeeccccccccccccccceecCCCccccCCCcCceee
Q 037935          990 SKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWV 1063 (1085)
Q Consensus       990 ~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i 1063 (1085)
                      ....+...|+.|.+.+||.+++-..         ......++|+.+++.+|...+.-+...+..++|+++....
T Consensus       395 ~~~c~~~~l~~lEL~n~p~i~d~~L---------e~l~~c~~Leri~l~~~q~vtk~~i~~~~~~lp~i~v~a~  459 (483)
T KOG4341|consen  395 SSSCSLEGLEVLELDNCPLITDATL---------EHLSICRNLERIELIDCQDVTKEAISRFATHLPNIKVHAY  459 (483)
T ss_pred             hccccccccceeeecCCCCchHHHH---------HHHhhCcccceeeeechhhhhhhhhHHHHhhCccceehhh
Confidence            1224456677777777776655422         1222356777777777777665555444556666655443

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.13  E-value=1.7e-08  Score=115.32  Aligned_cols=269  Identities=16%  Similarity=0.121  Sum_probs=159.0

Q ss_pred             CCccccchHHHHHHHHHHhc----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          159 GYEAFESRVSTLKSIQNALT----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      .++.++||+++++++...+.    ......+.|+|++|+|||++++.++++.......-.++++++....+...++..++
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            45679999999999998874    23446688999999999999999999876543223467777777778889999999


Q ss_pred             HHhCCC-C--CCchHHHHHHHHHHHHH-cCCcEEEEEeCCCCcc------cccccccccCCCCCCcE-------------
Q 037935          235 EKLGLE-L--SDEAEYRRASRLYERLK-NENKILVILDNIWKYL------DLDTIGIPFGNDHEGYN-------------  291 (1085)
Q Consensus       235 ~~l~~~-~--~~~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~~------~~~~~~~~~~~~~~gs~-------------  291 (1085)
                      .++... .  ...+..+....+.+.+. .+++.+||+|+++...      .+..+..... ...+++             
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~-~~~~~~v~vI~i~~~~~~~  186 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHE-EYPGARIGVIGISSDLTFL  186 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhh-ccCCCeEEEEEEECCcchh
Confidence            999752 1  12223344455555554 3567899999998642      1111111111 111222             


Q ss_pred             ---------------EEecCCCHHHHHHHHHHhcCCCC-CCCCchHHHHHHHHHh----CCchHHHHHHHHHHh-----c
Q 037935          292 ---------------FLIGNLSEEEAWRLFKIMNGDDV-ENCKFKPTAINVAQAC----GGLPIALTTVARALR-----N  346 (1085)
Q Consensus       292 ---------------ilv~~l~~~~~~~lf~~~~~~~~-~~~~~~~~~~~i~~~~----~glPlai~~~~~~l~-----~  346 (1085)
                                     |.+.|++.++..+++..++.... ...-..+..+.|++.+    |..+.|+.++-....     +
T Consensus       187 ~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~  266 (394)
T PRK00411        187 YILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREG  266 (394)
T ss_pred             hhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcC
Confidence                           22388999999999988762111 1111234444455444    557777766543321     1


Q ss_pred             ---CCHHHHHHHHHHhcCCCCCCCCCCcccchhhHHHHHhcCChHHHHHHHHhcc-ccC---CCCCHHHHHHH--HhhcC
Q 037935          347 ---KSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCS-LIG---NSFYLIDLLRY--SMGLG  417 (1085)
Q Consensus       347 ---~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s-~fp---~~i~~~~li~~--w~~~g  417 (1085)
                         -+.+++..+.+.+.              .....-.++.||. +.|..+..++ ...   ..+...++...  .+++.
T Consensus       267 ~~~I~~~~v~~a~~~~~--------------~~~~~~~~~~L~~-~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~  331 (394)
T PRK00411        267 SRKVTEEDVRKAYEKSE--------------IVHLSEVLRTLPL-HEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEE  331 (394)
T ss_pred             CCCcCHHHHHHHHHHHH--------------HHHHHHHHhcCCH-HHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHH
Confidence               16677777776541              1223446789996 3333333222 222   12566665543  23322


Q ss_pred             CCCCCchHHHHHHHHHHHHHHHhHccccee
Q 037935          418 LFHGVNKMEDARNKLYALVHELRDCCLLLE  447 (1085)
Q Consensus       418 ~~~~~~~~~~~~~~~~~~~~~L~~~~ll~~  447 (1085)
                      +-...-    ....+.+++++|...+++..
T Consensus       332 ~~~~~~----~~~~~~~~l~~L~~~glI~~  357 (394)
T PRK00411        332 LGYEPR----THTRFYEYINKLDMLGIINT  357 (394)
T ss_pred             cCCCcC----cHHHHHHHHHHHHhcCCeEE
Confidence            111000    12345567888888888864

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.08  E-value=1.9e-10  Score=139.33  Aligned_cols=290  Identities=23%  Similarity=0.293  Sum_probs=175.5

Q ss_pred             cccceEEEeeccC--cccccc--cCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccc
Q 037935          491 LKKCYAISLLNSS--IHEVSL--EFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKL  566 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~--~~~l~~--~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L  566 (1085)
                      ..+++.|-+..+.  +..++.  +..++.||+|++++|..  ..++|.. ++++-+||||+++++.+..+|..+++|+.|
T Consensus       544 ~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~--l~~LP~~-I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L  620 (889)
T KOG4658|consen  544 NPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSS--LSKLPSS-IGELVHLRYLDLSDTGISHLPSGLGNLKKL  620 (889)
T ss_pred             CCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCc--cCcCChH-HhhhhhhhcccccCCCccccchHHHHHHhh
Confidence            3368899998886  666665  34799999999999876  7888875 889999999999999999999999999999


Q ss_pred             cEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCccccc
Q 037935          567 RMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTK  646 (1085)
Q Consensus       567 ~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~  646 (1085)
                      .|||+.++..+..+ +++...|.+|++|.+......         .......++.+|.+|+.+.+.......+-....+.
T Consensus       621 ~~Lnl~~~~~l~~~-~~i~~~L~~Lr~L~l~~s~~~---------~~~~~l~el~~Le~L~~ls~~~~s~~~~e~l~~~~  690 (889)
T KOG4658|consen  621 IYLNLEVTGRLESI-PGILLELQSLRVLRLPRSALS---------NDKLLLKELENLEHLENLSITISSVLLLEDLLGMT  690 (889)
T ss_pred             heeccccccccccc-cchhhhcccccEEEeeccccc---------cchhhHHhhhcccchhhheeecchhHhHhhhhhhH
Confidence            99999999555555 455578999999999776521         13456677778888887777544431111111333


Q ss_pred             ccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCc-----cc-ccccccEEEEc
Q 037935          647 KLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAM-----VP-CFQSLTRLIVW  720 (1085)
Q Consensus       647 ~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~-----~~-~l~~L~~L~L~  720 (1085)
                      .|..+........ .....+              +..+..+..|+.+.+..+........|     .. .|+++..+.+.
T Consensus       691 ~L~~~~~~l~~~~-~~~~~~--------------~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~  755 (889)
T KOG4658|consen  691 RLRSLLQSLSIEG-CSKRTL--------------ISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSIL  755 (889)
T ss_pred             HHHHHhHhhhhcc-ccccee--------------ecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhh
Confidence            3332221110000 000111              111222222333333322221111111     01 24456666666


Q ss_pred             CCCCCccccchhhHhhcccccEEEeccccchHHHhccCCccccc--ccccCCcccEE-ecCCCCccccccCCCcccCCCc
Q 037935          721 GCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVT--AYFVFPRVTTL-KLDGLPELRCLYPGMHTSEWPA  797 (1085)
Q Consensus       721 ~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~--~~~~~~~L~~L-~l~~~~~l~~~~~~~~~~~~~~  797 (1085)
                      +|.....+.   +....|+|+.|.+.+|..++.+..........  ....|.++..+ .+.+.+.+..+...  +..++.
T Consensus       756 ~~~~~r~l~---~~~f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~--~l~~~~  830 (889)
T KOG4658|consen  756 NCHMLRDLT---WLLFAPHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLEGLRMLCSLGGLPQLYWL--PLSFLK  830 (889)
T ss_pred             ccccccccc---hhhccCcccEEEEecccccccCCCHHHHhhhcccEEecccccccceeeecCCCCceeEec--ccCccc
Confidence            665555532   24455777777777777665543322111110  12346666666 46666666655444  345677


Q ss_pred             ccceeeccCCCccccc
Q 037935          798 LKNLVACNCDKITLSQ  813 (1085)
Q Consensus       798 L~~L~i~~c~~L~~~~  813 (1085)
                      |+.+.+..||++...|
T Consensus       831 l~~~~ve~~p~l~~~P  846 (889)
T KOG4658|consen  831 LEELIVEECPKLGKLP  846 (889)
T ss_pred             hhheehhcCcccccCc
Confidence            9999999999988754

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

Probab=99.07  E-value=1.6e-08  Score=108.86  Aligned_cols=163  Identities=16%  Similarity=0.202  Sum_probs=106.6

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHH----
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLY----  254 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~----  254 (1085)
                      ..+.+++.|+|++|+||||+++.+++...... + .++|+ +....+..++++.++..++.+............+.    
T Consensus        40 ~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~-~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~  116 (269)
T TIGR03015        40 SQREGFILITGEVGAGKTTLIRNLLKRLDQER-V-VAAKL-VNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLI  116 (269)
T ss_pred             hcCCCEEEEEcCCCCCHHHHHHHHHHhcCCCC-e-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHH
Confidence            34456899999999999999999998865321 1 23343 33456778899999999987654433332223332    


Q ss_pred             HHHHcCCcEEEEEeCCCCcc--cccccccccC---CCCCC------------------------c----EEEecCCCHHH
Q 037935          255 ERLKNENKILVILDNIWKYL--DLDTIGIPFG---NDHEG------------------------Y----NFLIGNLSEEE  301 (1085)
Q Consensus       255 ~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~---~~~~g------------------------s----~ilv~~l~~~~  301 (1085)
                      .....+++.++|+||++...  .++.+.....   .....                        +    ++-+++++.+|
T Consensus       117 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e  196 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREE  196 (269)
T ss_pred             HHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHHH
Confidence            22336888999999998753  2333221110   00000                        1    12238999999


Q ss_pred             HHHHHHHhcCC---CCCCCCchHHHHHHHHHhCCchHHHHHHHHHH
Q 037935          302 AWRLFKIMNGD---DVENCKFKPTAINVAQACGGLPIALTTVARAL  344 (1085)
Q Consensus       302 ~~~lf~~~~~~---~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l  344 (1085)
                      ..+++......   .....-..+..+.|++.++|.|..|..++..+
T Consensus       197 ~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       197 TREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            99999877631   11122346788999999999999999988876

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.

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

Probab=99.06  E-value=1.1e-10  Score=112.64  Aligned_cols=137  Identities=20%  Similarity=0.269  Sum_probs=46.8

Q ss_pred             ccCcccccccCCCCCcceeeeccCCCccccccChhhhc-CCCcceEEEecCCcccCCchhhhccccccEEeccCcccccc
Q 037935          501 NSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFK-GMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKF  579 (1085)
Q Consensus       501 ~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~-~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~  579 (1085)
                      .+-|..++...++.++|.|++.+|.   +..+..  +. .+.+|++|+|++|.|+.++ .+..+++|++|++++| .++.
T Consensus         6 ~~~i~~~~~~~n~~~~~~L~L~~n~---I~~Ie~--L~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~N-~I~~   78 (175)
T PF14580_consen    6 ANMIEQIAQYNNPVKLRELNLRGNQ---ISTIEN--LGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNN-RISS   78 (175)
T ss_dssp             ---------------------------------S----TT-TT--EEE-TTS--S--T-T----TT--EEE--SS----S
T ss_pred             ccccccccccccccccccccccccc---cccccc--hhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCCC-CCCc
Confidence            3445555666666677778887776   455443  33 4677888888888887775 4777888888888888 7887


Q ss_pred             cchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-----cccccceeeEE
Q 037935          580 IVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-----FTKKLERFDIS  654 (1085)
Q Consensus       580 lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-----~l~~L~~L~l~  654 (1085)
                      +++.+...+++|++|++++|.+.          .-..+..+..+++|+.|++.+|.+...+..-     .+++|+.|+-.
T Consensus        79 i~~~l~~~lp~L~~L~L~~N~I~----------~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   79 ISEGLDKNLPNLQELYLSNNKIS----------DLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             -CHHHHHH-TT--EEE-TTS-------------SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTE
T ss_pred             cccchHHhCCcCCEEECcCCcCC----------ChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCE
Confidence            76554346788888888888773          2234566777888888888877776554321     56666666543

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

Probab=99.05  E-value=8.8e-11  Score=130.58  Aligned_cols=91  Identities=20%  Similarity=0.158  Sum_probs=52.8

Q ss_pred             hhhcCCCcceEEEecCCcccC-----CchhhhccccccEEeccCcccccccch------hhhhccccCCEEeccCCCcch
Q 037935          535 NFFKGMKKLRVVDLTRVRLFS-----LPSSIGQLTKLRMLDLTDCLQLKFIVP------NILSSFTRLEELYMGSCSIKW  603 (1085)
Q Consensus       535 ~~~~~l~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~lp~------~~~~~L~~L~~L~L~~~~~~~  603 (1085)
                      ..|..+..|++|+++++.++.     ++..+...++|++|+++++ .+...+.      ..+.++++|++|++++|.+. 
T Consensus        17 ~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~-~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~-   94 (319)
T cd00116          17 ELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLN-ETGRIPRGLQSLLQGLTKGCGLQELDLSDNALG-   94 (319)
T ss_pred             HHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEecccc-ccCCcchHHHHHHHHHHhcCceeEEEccCCCCC-
Confidence            345666677777777777632     4555666667777777776 4442111      22466777777777777662 


Q ss_pred             hhcccCCccccccHHHhhcC---CCCcEEEEEeccCC
Q 037935          604 EVRKGNSERSNASLDELMHL---QRLTTLEIDVEDDS  637 (1085)
Q Consensus       604 ~~~~~~~~~~~~~~~~l~~L---~~L~~L~l~~~~~~  637 (1085)
                                ......+..+   ++|++|++++|.+.
T Consensus        95 ----------~~~~~~~~~l~~~~~L~~L~ls~~~~~  121 (319)
T cd00116          95 ----------PDGCGVLESLLRSSSLQELKLNNNGLG  121 (319)
T ss_pred             ----------hhHHHHHHHHhccCcccEEEeeCCccc
Confidence                      1122233333   33777777766543

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).

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

Probab=99.02  E-value=1.2e-11  Score=128.78  Aligned_cols=293  Identities=20%  Similarity=0.236  Sum_probs=190.4

Q ss_pred             cccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccC
Q 037935          709 PCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYP  788 (1085)
Q Consensus       709 ~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  788 (1085)
                      ..++++++|.+.+|..+++-.-...-..+++|++|++..|..+....-....      ..+++|++|+++.|+....--.
T Consensus       161 ~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la------~gC~kL~~lNlSwc~qi~~~gv  234 (483)
T KOG4341|consen  161 SNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLA------EGCRKLKYLNLSWCPQISGNGV  234 (483)
T ss_pred             hhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHH------HhhhhHHHhhhccCchhhcCcc
Confidence            4678999999999987776433334457899999999999888766433211      1489999999999987776222


Q ss_pred             CCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCC-ceeeecccCCcCccCCceEE
Q 037935          789 GMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKD-ITMILQDDFPQHLFGSLKQL  867 (1085)
Q Consensus       789 ~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~-l~~~~~~~~~~~~~~~L~~L  867 (1085)
                      .........++++...+|..+..-              .+.....+++-+..+++.+|. +++.....+.. .+..|+.|
T Consensus       235 ~~~~rG~~~l~~~~~kGC~e~~le--------------~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~-~c~~lq~l  299 (483)
T KOG4341|consen  235 QALQRGCKELEKLSLKGCLELELE--------------ALLKAAAYCLEILKLNLQHCNQLTDEDLWLIAC-GCHALQVL  299 (483)
T ss_pred             hHHhccchhhhhhhhcccccccHH--------------HHHHHhccChHhhccchhhhccccchHHHHHhh-hhhHhhhh
Confidence            222233445666666677655432              222334556777788877887 66544322222 26788999


Q ss_pred             Eec-CCcccccchhHH-hhccccceEEeeccc-ccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHh
Q 037935          868 RVG-DDDLACFPLDLL-ERFHNLEFLYLSDCS-YEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIF  944 (1085)
Q Consensus       868 ~l~-~n~l~~~~~~~~-~~l~~L~~L~l~~~~-l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l  944 (1085)
                      ..+ ++.++..+...+ .+.++|+.|.++.|+ ++..    ++.. --.+.+.|+.+++.+|.....-....   ....+
T Consensus       300 ~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~----~ft~-l~rn~~~Le~l~~e~~~~~~d~tL~s---ls~~C  371 (483)
T KOG4341|consen  300 CYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDR----GFTM-LGRNCPHLERLDLEECGLITDGTLAS---LSRNC  371 (483)
T ss_pred             cccCCCCCchHHHHHHhcCCCceEEEeccccchhhhh----hhhh-hhcCChhhhhhcccccceehhhhHhh---hccCC
Confidence            988 677776654444 478999999999999 3332    2111 11356788999988876554432211   23468


Q ss_pred             hhhceeeeecccccccc----CCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccccc
Q 037935          945 QHLQILRVLHCQNLLSL----LPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDET 1020 (1085)
Q Consensus       945 ~~L~~L~i~~c~~l~~~----~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~ 1020 (1085)
                      +.|+.|.++.|..+++.    ...+-.+...|..|.+++|+.+++- ....+..+++|+.+++.+|..+..-...     
T Consensus       372 ~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~-~Le~l~~c~~Leri~l~~~q~vtk~~i~-----  445 (483)
T KOG4341|consen  372 PRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDA-TLEHLSICRNLERIELIDCQDVTKEAIS-----  445 (483)
T ss_pred             chhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHH-HHHHHhhCcccceeeeechhhhhhhhhH-----
Confidence            99999999999766443    1222345667999999999988765 4566778889999999999876554321     


Q ss_pred             cccccceeecccccccccc
Q 037935         1021 ANLKEEIVFSKLSALSLFD 1039 (1085)
Q Consensus      1021 ~~~~~~~~~~~L~~L~l~~ 1039 (1085)
                         +....+|+++...+..
T Consensus       446 ---~~~~~lp~i~v~a~~a  461 (483)
T KOG4341|consen  446 ---RFATHLPNIKVHAYFA  461 (483)
T ss_pred             ---HHHhhCccceehhhcc
Confidence               1222356666655443

>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=98.91  E-value=3.9e-09  Score=111.39  Aligned_cols=175  Identities=23%  Similarity=0.323  Sum_probs=95.5

Q ss_pred             ccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH---------HH
Q 037935          163 FESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG---------EI  233 (1085)
Q Consensus       163 ~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~---------~i  233 (1085)
                      |+||++++++|.+++..+..+.+.|+|+.|+|||+|++.+.+..+... + .++|+.............         .+
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~-~-~~~y~~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKG-Y-KVVYIDFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--E-E-CCCHHCCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcC-C-cEEEEecccchhhhHHHHHHHHHHHHHHH
Confidence            789999999999999876678999999999999999999999874321 1 244444433332221111         11


Q ss_pred             HHHh----CCCC-------CCchHHHHHHHHHHHHH-cCCcEEEEEeCCCCcc-ccc---c----ccccc---CCCCCC-
Q 037935          234 AEKL----GLEL-------SDEAEYRRASRLYERLK-NENKILVILDNIWKYL-DLD---T----IGIPF---GNDHEG-  289 (1085)
Q Consensus       234 ~~~l----~~~~-------~~~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~~-~~~---~----~~~~~---~~~~~g-  289 (1085)
                      .+.+    ....       ...........+.+.+. .+++.+||+||+.... ..+   .    +...+   ....+. 
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  158 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVS  158 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEE
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCce
Confidence            1112    1110       11222334555666655 3456999999987655 111   1    11111   111111 


Q ss_pred             -------------------------cEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHH
Q 037935          290 -------------------------YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTT  339 (1085)
Q Consensus       290 -------------------------s~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  339 (1085)
                                               ..+-+++++.+++++++.....+...-+.-.+..++|+..+||.|..|..
T Consensus       159 ~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  159 IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC------HHHHHHHHHHHTT-HHHHHH
T ss_pred             EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHhCCCHHHHhc
Confidence                                     22333999999999999997632211122356679999999999998754

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

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.90  E-value=4.2e-07  Score=102.70  Aligned_cols=269  Identities=16%  Similarity=0.164  Sum_probs=155.0

Q ss_pred             CccccchHHHHHHHHHHhc----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhc-cCC---CEEEEEEeCCCcCHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALT----DVNVSIIGVYGMGGIGKTTLVKEFARQAREK-KLF---DRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~f---~~~~wv~~~~~~~~~~~~~  231 (1085)
                      ++.++||+.++++|..++.    ....+.+.|+|++|+|||++++.+++..... ...   -..+|+++....+...++.
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~   93 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLV   93 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHH
Confidence            4579999999999999886    2344678999999999999999999876432 111   1467888877778889999


Q ss_pred             HHHHHh---CCCCC--CchHHHHHHHHHHHHH-cCCcEEEEEeCCCCcc-ccc----cccccc-CCCCCCc---------
Q 037935          232 EIAEKL---GLELS--DEAEYRRASRLYERLK-NENKILVILDNIWKYL-DLD----TIGIPF-GNDHEGY---------  290 (1085)
Q Consensus       232 ~i~~~l---~~~~~--~~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~~-~~~----~~~~~~-~~~~~gs---------  290 (1085)
                      .|++++   +....  ..+..+....+.+.+. .+++++||+|+++... ..+    .+.... .....++         
T Consensus        94 ~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n  173 (365)
T TIGR02928        94 ELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISN  173 (365)
T ss_pred             HHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEEC
Confidence            999998   33221  1223333455555554 3678899999998761 111    111100 0011111         


Q ss_pred             -------------------EEEecCCCHHHHHHHHHHhcC---C-CCCCCCchHHHHHHHHHhCCchHHH-HHHHHHH--
Q 037935          291 -------------------NFLIGNLSEEEAWRLFKIMNG---D-DVENCKFKPTAINVAQACGGLPIAL-TTVARAL--  344 (1085)
Q Consensus       291 -------------------~ilv~~l~~~~~~~lf~~~~~---~-~~~~~~~~~~~~~i~~~~~glPlai-~~~~~~l--  344 (1085)
                                         .|.+.|.+.++..+++..++.   . ....++..+....++....|-|..+ .++-...  
T Consensus       174 ~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~  253 (365)
T TIGR02928       174 DLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEI  253 (365)
T ss_pred             CcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence                               233388899999999988763   1 1111222233445566666777433 3322211  


Q ss_pred             h---c---CCHHHHHHHHHHhcCCCCCCCCCCcccchhhHHHHHhcCChHHHHHHHHhcccc---CCC-CCHHHHHHHH-
Q 037935          345 R---N---KSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLI---GNS-FYLIDLLRYS-  413 (1085)
Q Consensus       345 ~---~---~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~f---p~~-i~~~~li~~w-  413 (1085)
                      .   +   .+.++.+.+.+.+.              .....-++..||. +.+..+..++..   ... +...++...+ 
T Consensus       254 a~~~~~~~it~~~v~~a~~~~~--------------~~~~~~~i~~l~~-~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~  318 (365)
T TIGR02928       254 AEREGAERVTEDHVEKAQEKIE--------------KDRLLELIRGLPT-HSKLVLLAIANLAANDEDPFRTGEVYEVYK  318 (365)
T ss_pred             HHHcCCCCCCHHHHHHHHHHHH--------------HHHHHHHHHcCCH-HHHHHHHHHHHHHhcCCCCccHHHHHHHHH
Confidence            1   1   25666666665431              1223345678886 455444433311   222 6777766632 


Q ss_pred             -hhcCCCCCCchHHHHHHHHHHHHHHHhHccccee
Q 037935          414 -MGLGLFHGVNKMEDARNKLYALVHELRDCCLLLE  447 (1085)
Q Consensus       414 -~~~g~~~~~~~~~~~~~~~~~~~~~L~~~~ll~~  447 (1085)
                       +++.+--.    .-....+.+++.+|...|++..
T Consensus       319 ~~~~~~~~~----~~~~~~~~~~l~~l~~~gli~~  349 (365)
T TIGR02928       319 EVCEDIGVD----PLTQRRISDLLNELDMLGLVEA  349 (365)
T ss_pred             HHHHhcCCC----CCcHHHHHHHHHHHHhcCCeEE
Confidence             22211100    1112445667888888998864

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.

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

Probab=98.87  E-value=2.8e-09  Score=102.81  Aligned_cols=128  Identities=20%  Similarity=0.251  Sum_probs=57.3

Q ss_pred             ccceEEEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhh-hccccccEE
Q 037935          492 KKCYAISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRML  569 (1085)
Q Consensus       492 ~~~r~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i-~~L~~L~~L  569 (1085)
                      .+.+.|++.++.|..+.... .+.+|++|++++|.   +.+++.  +..++.|++|++++|.|+.++..+ ..+++|++|
T Consensus        19 ~~~~~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   93 (175)
T PF14580_consen   19 VKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQ---ITKLEG--LPGLPRLKTLDLSNNRISSISEGLDKNLPNLQEL   93 (175)
T ss_dssp             -----------------S--TT-TT--EEE-TTS-----S--TT------TT--EEE--SS---S-CHHHHHH-TT--EE
T ss_pred             cccccccccccccccccchhhhhcCCCEEECCCCC---CccccC--ccChhhhhhcccCCCCCCccccchHHhCCcCCEE
Confidence            35789999999999987654 57899999999998   777765  788999999999999999997666 469999999


Q ss_pred             eccCcccccccch-hhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEe
Q 037935          570 DLTDCLQLKFIVP-NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDV  633 (1085)
Q Consensus       570 ~Ls~~~~l~~lp~-~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~  633 (1085)
                      ++++| +|..+.. ..++.+++|++|++.+|++...        ......-+..+++|+.||-..
T Consensus        94 ~L~~N-~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~--------~~YR~~vi~~lP~Lk~LD~~~  149 (175)
T PF14580_consen   94 YLSNN-KISDLNELEPLSSLPKLRVLSLEGNPVCEK--------KNYRLFVIYKLPSLKVLDGQD  149 (175)
T ss_dssp             E-TTS----SCCCCGGGGG-TT--EEE-TT-GGGGS--------TTHHHHHHHH-TT-SEETTEE
T ss_pred             ECcCC-cCCChHHhHHHHcCCCcceeeccCCcccch--------hhHHHHHHHHcChhheeCCEE
Confidence            99999 8876543 2367899999999999998421        233445578899999998653

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

Probab=98.83  E-value=1.3e-09  Score=121.27  Aligned_cols=86  Identities=19%  Similarity=0.125  Sum_probs=57.6

Q ss_pred             EEEecCCccc--CCchhhhccccccEEeccCccccc-----ccchhhhhccccCCEEeccCCCcchhhcccCCccccccH
Q 037935          545 VVDLTRVRLF--SLPSSIGQLTKLRMLDLTDCLQLK-----FIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASL  617 (1085)
Q Consensus       545 ~L~Ls~~~i~--~lp~~i~~L~~L~~L~Ls~~~~l~-----~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~  617 (1085)
                      .|+|.++.++  ..+..+..+.+|++|++++| .++     .++.. +...++|++|+++++.+...+.     .....+
T Consensus         2 ~l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~-~l~~~~~~~i~~~-l~~~~~l~~l~l~~~~~~~~~~-----~~~~~~   74 (319)
T cd00116           2 QLSLKGELLKTERATELLPKLLCLQVLRLEGN-TLGEEAAKALASA-LRPQPSLKELCLSLNETGRIPR-----GLQSLL   74 (319)
T ss_pred             ccccccCcccccchHHHHHHHhhccEEeecCC-CCcHHHHHHHHHH-HhhCCCceEEeccccccCCcch-----HHHHHH
Confidence            4667777665  24566778888999999998 663     34443 4677889999998887631000     012234


Q ss_pred             HHhhcCCCCcEEEEEeccCC
Q 037935          618 DELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       618 ~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      ..+..+++|+.|+++++.+.
T Consensus        75 ~~l~~~~~L~~L~l~~~~~~   94 (319)
T cd00116          75 QGLTKGCGLQELDLSDNALG   94 (319)
T ss_pred             HHHHhcCceeEEEccCCCCC
Confidence            55677888999988887665

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).

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.71  E-value=1.4e-06  Score=100.98  Aligned_cols=114  Identities=20%  Similarity=0.208  Sum_probs=80.2

Q ss_pred             CccccchHHHHHHHHHHhcc-----CCceEEEEEcCCCCcHHHHHHHHHHHHhhc---cCCC--EEEEEEeCCCcCHHHH
Q 037935          160 YEAFESRVSTLKSIQNALTD-----VNVSIIGVYGMGGIGKTTLVKEFARQAREK---KLFD--RVVFSEVSQTPDIKKI  229 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~---~~f~--~~~wv~~~~~~~~~~~  229 (1085)
                      ++.+.|||+++++|...|..     ....++.|+|.+|+|||++++.|.+.....   ....  .+++|++..-.+...+
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            45688999999999988762     223577899999999999999998876421   1222  2567877777788999


Q ss_pred             HHHHHHHhCCCCC--CchHHHHHHHHHHHHHc--CCcEEEEEeCCCCc
Q 037935          230 QGEIAEKLGLELS--DEAEYRRASRLYERLKN--ENKILVILDNIWKY  273 (1085)
Q Consensus       230 ~~~i~~~l~~~~~--~~~~~~~~~~~~~~l~~--~~~~LlvlDdv~~~  273 (1085)
                      +..|++++.....  .....+.+..++..+..  ....+||||+|+..
T Consensus       834 YqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L  881 (1164)
T PTZ00112        834 YQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYL  881 (1164)
T ss_pred             HHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhh
Confidence            9999998844322  22233445566665531  33468999999864

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.69  E-value=2e-06  Score=99.14  Aligned_cols=275  Identities=19%  Similarity=0.218  Sum_probs=173.9

Q ss_pred             CCCccccchHHHHHHHHHHhcc-CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHH
Q 037935          158 KGYEAFESRVSTLKSIQNALTD-VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAE  235 (1085)
Q Consensus       158 ~~~~~~~gr~~~~~~l~~~l~~-~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~  235 (1085)
                      ..+...+-|..    +++.|.+ .+.+.+.|..++|.||||++.+.......+   ..+.|.++.. ..++..+.+-++.
T Consensus        16 ~~~~~~v~R~r----L~~~L~~~~~~RL~li~APAGfGKttl~aq~~~~~~~~---~~v~Wlslde~dndp~rF~~yLi~   88 (894)
T COG2909          16 VRPDNYVVRPR----LLDRLRRANDYRLILISAPAGFGKTTLLAQWRELAADG---AAVAWLSLDESDNDPARFLSYLIA   88 (894)
T ss_pred             CCcccccccHH----HHHHHhcCCCceEEEEeCCCCCcHHHHHHHHHHhcCcc---cceeEeecCCccCCHHHHHHHHHH
Confidence            33455666765    4454543 478999999999999999999998733322   3599999965 4578888888888


Q ss_pred             HhCCCCCCc--------------hHHHHHHHHHHHHH-cCCcEEEEEeCCCCcc--cc-cccccccCCCCCCcEEEe---
Q 037935          236 KLGLELSDE--------------AEYRRASRLYERLK-NENKILVILDNIWKYL--DL-DTIGIPFGNDHEGYNFLI---  294 (1085)
Q Consensus       236 ~l~~~~~~~--------------~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~~--~~-~~~~~~~~~~~~gs~ilv---  294 (1085)
                      .++.-....              +-...+..++..+. -.++..+||||-.-..  .. ..+...+.....+-..+|   
T Consensus        89 al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR  168 (894)
T COG2909          89 ALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSR  168 (894)
T ss_pred             HHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEec
Confidence            886322211              11123344455443 3678999999964331  12 222222333334445554   


Q ss_pred             -----------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHh-cCCHH
Q 037935          295 -----------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALR-NKSLH  350 (1085)
Q Consensus       295 -----------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~-~~~~~  350 (1085)
                                             =.++.+|+-++|....+..-+    ....+.+.+...|-+-|+..++=.++ +.+.+
T Consensus       169 ~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~Ld----~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~  244 (894)
T COG2909         169 SRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPLD----AADLKALYDRTEGWAAALQLIALALRNNTSAE  244 (894)
T ss_pred             cCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCCC----hHHHHHHHhhcccHHHHHHHHHHHccCCCcHH
Confidence                                   457899999999888743322    55678899999999999988887776 33333


Q ss_pred             HHHHHHHHhcCCCCCCCCCCcccch-hhHHHHHhcCChHHHHHHHHhccccCCCCCHHHHHHHHhhcCCCCCCchHHHHH
Q 037935          351 EWKNALRELQTPSVVNFEGVPAETY-SSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDAR  429 (1085)
Q Consensus       351 ~w~~~~~~l~~~~~~~~~~~~~~~~-~~l~~sy~~L~~~~~k~cf~~~s~fp~~i~~~~li~~w~~~g~~~~~~~~~~~~  429 (1085)
                      .-...+.           +..+-+. ....--++.||+ .++..+.-||++++-  -+.|+..--+             .
T Consensus       245 q~~~~Ls-----------G~~~~l~dYL~eeVld~Lp~-~l~~FLl~~svl~~f--~~eL~~~Ltg-------------~  297 (894)
T COG2909         245 QSLRGLS-----------GAASHLSDYLVEEVLDRLPP-ELRDFLLQTSVLSRF--NDELCNALTG-------------E  297 (894)
T ss_pred             HHhhhcc-----------chHHHHHHHHHHHHHhcCCH-HHHHHHHHHHhHHHh--hHHHHHHHhc-------------C
Confidence            3222111           1111111 122344788998 699999999998752  1223222100             1


Q ss_pred             HHHHHHHHHHhHccccee--cCCcceEEEcHHHHHHHHHHhhc
Q 037935          430 NKLYALVHELRDCCLLLE--GDRNETFYMHDVVCDVAVSIACR  470 (1085)
Q Consensus       430 ~~~~~~~~~L~~~~ll~~--~~~~~~~~mHdl~~~~~~~~~~~  470 (1085)
                      +...+.+++|.+++++..  .+..++|+-|.++.||.+..-+.
T Consensus       298 ~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~  340 (894)
T COG2909         298 ENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQR  340 (894)
T ss_pred             CcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhhcc
Confidence            122345889999998753  35678999999999999876554

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

Probab=98.67  E-value=4.2e-09  Score=110.66  Aligned_cols=216  Identities=16%  Similarity=0.183  Sum_probs=128.4

Q ss_pred             ccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCC
Q 037935          710 CFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPG  789 (1085)
Q Consensus       710 ~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  789 (1085)
                      .+.+|+.+.|.+|. ....+.......|++++.|+++.|-. ..+..-..     -...+|+|+.|+++.. .+......
T Consensus       119 n~kkL~~IsLdn~~-V~~~~~~~~~k~~~~v~~LdLS~NL~-~nw~~v~~-----i~eqLp~Le~LNls~N-rl~~~~~s  190 (505)
T KOG3207|consen  119 NLKKLREISLDNYR-VEDAGIEEYSKILPNVRDLDLSRNLF-HNWFPVLK-----IAEQLPSLENLNLSSN-RLSNFISS  190 (505)
T ss_pred             hHHhhhheeecCcc-ccccchhhhhhhCCcceeecchhhhH-HhHHHHHH-----HHHhcccchhcccccc-cccCCccc
Confidence            56677888887764 23222113456788888888877652 11110000     0014788888888763 33333344


Q ss_pred             CcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEe
Q 037935          790 MHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRV  869 (1085)
Q Consensus       790 ~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l  869 (1085)
                      .....++.|++|.++.|.-- .              ..+..+...+|+|+.|++..|....+  ..++...+..|+.|+|
T Consensus       191 ~~~~~l~~lK~L~l~~CGls-~--------------k~V~~~~~~fPsl~~L~L~~N~~~~~--~~~~~~i~~~L~~LdL  253 (505)
T KOG3207|consen  191 NTTLLLSHLKQLVLNSCGLS-W--------------KDVQWILLTFPSLEVLYLEANEIILI--KATSTKILQTLQELDL  253 (505)
T ss_pred             cchhhhhhhheEEeccCCCC-H--------------HHHHHHHHhCCcHHHhhhhcccccce--ecchhhhhhHHhhccc
Confidence            44556788888888888421 1              01122335589999999999862211  2223333678899999


Q ss_pred             cCCcccccch-hHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhc
Q 037935          870 GDDDLACFPL-DLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQ  948 (1085)
Q Consensus       870 ~~n~l~~~~~-~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~  948 (1085)
                      ++|++..++. .....++.|+.|+++.|.+.++....+...+-...+++|++|.+.. +++..++.-..   ...+++|+
T Consensus       254 s~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~-N~I~~w~sl~~---l~~l~nlk  329 (505)
T KOG3207|consen  254 SNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISE-NNIRDWRSLNH---LRTLENLK  329 (505)
T ss_pred             cCCcccccccccccccccchhhhhccccCcchhcCCCccchhhhcccccceeeeccc-Cccccccccch---hhccchhh
Confidence            9888877662 2346788999999999888777554444444456678888888877 55544433211   12345555


Q ss_pred             eeeeec
Q 037935          949 ILRVLH  954 (1085)
Q Consensus       949 ~L~i~~  954 (1085)
                      .|.+..
T Consensus       330 ~l~~~~  335 (505)
T KOG3207|consen  330 HLRITL  335 (505)
T ss_pred             hhhccc
Confidence            555543

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

Probab=98.61  E-value=5.8e-09  Score=103.68  Aligned_cols=137  Identities=17%  Similarity=0.179  Sum_probs=113.6

Q ss_pred             ccccccceEEEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccc
Q 037935          488 GDALKKCYAISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKL  566 (1085)
Q Consensus       488 ~~~~~~~r~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L  566 (1085)
                      .+.|+.+..+++++|.|+.+..+. -.+.+|.|++++|.   +..+..  +..+.+|..||||+|.++++-.+=.+|-|.
T Consensus       280 ~dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~---i~~v~n--La~L~~L~~LDLS~N~Ls~~~Gwh~KLGNI  354 (490)
T KOG1259|consen  280 ADTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNR---IRTVQN--LAELPQLQLLDLSGNLLAECVGWHLKLGNI  354 (490)
T ss_pred             cchHhhhhhccccccchhhhhhhhhhccceeEEeccccc---eeeehh--hhhcccceEeecccchhHhhhhhHhhhcCE
Confidence            356778899999999999887776 56899999999997   555544  677899999999999998887777889999


Q ss_pred             cEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCc
Q 037935          567 RMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDG  642 (1085)
Q Consensus       567 ~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  642 (1085)
                      ++|.|+.| .+..+..  +++|++|..||+++|.+..          -.....+++|+-|.++.+.+|.+..+++.
T Consensus       355 KtL~La~N-~iE~LSG--L~KLYSLvnLDl~~N~Ie~----------ldeV~~IG~LPCLE~l~L~~NPl~~~vdY  417 (490)
T KOG1259|consen  355 KTLKLAQN-KIETLSG--LRKLYSLVNLDLSSNQIEE----------LDEVNHIGNLPCLETLRLTGNPLAGSVDY  417 (490)
T ss_pred             eeeehhhh-hHhhhhh--hHhhhhheeccccccchhh----------HHHhcccccccHHHHHhhcCCCccccchH
Confidence            99999999 8888875  6999999999999999852          23456678899999999999988777653

>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=98.58  E-value=4e-08  Score=77.67  Aligned_cols=60  Identities=28%  Similarity=0.481  Sum_probs=45.5

Q ss_pred             CcceEEEecCCcccCCc-hhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCc
Q 037935          541 KKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       541 ~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      ++|++|++++|+++.+| ..|.++++|++|++++| .++.+|++.|.++++|++|++++|.+
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N-~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNN-NLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSS-SESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCC-ccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            35777788888777776 46677888888888877 77777777777888888888877753

...

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

Probab=98.55  E-value=1.2e-08  Score=101.46  Aligned_cols=82  Identities=18%  Similarity=0.229  Sum_probs=52.0

Q ss_pred             CcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHh
Q 037935          541 KKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDEL  620 (1085)
Q Consensus       541 ~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l  620 (1085)
                      +.|+.||||+|.|+.+..++.-++.+|.|++|+| .+..+..  +..|++|++|||++|.+...            ...=
T Consensus       284 q~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N-~i~~v~n--La~L~~L~~LDLS~N~Ls~~------------~Gwh  348 (490)
T KOG1259|consen  284 QELTELDLSGNLITQIDESVKLAPKLRRLILSQN-RIRTVQN--LAELPQLQLLDLSGNLLAEC------------VGWH  348 (490)
T ss_pred             hhhhhccccccchhhhhhhhhhccceeEEecccc-ceeeehh--hhhcccceEeecccchhHhh------------hhhH
Confidence            4567777777777777767766777777777777 6666654  46777777777777765211            1112


Q ss_pred             hcCCCCcEEEEEeccCC
Q 037935          621 MHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       621 ~~L~~L~~L~l~~~~~~  637 (1085)
                      .+|-+.++|.++.|.+.
T Consensus       349 ~KLGNIKtL~La~N~iE  365 (490)
T KOG1259|consen  349 LKLGNIKTLKLAQNKIE  365 (490)
T ss_pred             hhhcCEeeeehhhhhHh
Confidence            34556666666666544

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.53  E-value=3.6e-06  Score=92.35  Aligned_cols=246  Identities=15%  Similarity=0.075  Sum_probs=134.7

Q ss_pred             ccccchHHHHHHHHHHhc-----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALT-----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  235 (1085)
                      ..|+|++..++.+..++.     ......+.++|++|+|||+||+.+.+.....  +   ..+..+...... .+...+.
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~--~---~~~~~~~~~~~~-~l~~~l~   77 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN--L---KITSGPALEKPG-DLAAILT   77 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC--E---EEeccchhcCch-hHHHHHH
Confidence            468999999999888876     2345678899999999999999999987532  2   122222111222 2223333


Q ss_pred             HhCCCC-------CCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcccccccccc----------------cCCCCCCcEE
Q 037935          236 KLGLEL-------SDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIP----------------FGNDHEGYNF  292 (1085)
Q Consensus       236 ~l~~~~-------~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~~~~~~~~----------------~~~~~~gs~i  292 (1085)
                      .++...       .... ....+.+...+ .+.+..+|+|+..+...|.....+                +.. .-+-.+
T Consensus        78 ~~~~~~vl~iDEi~~l~-~~~~e~l~~~~-~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~s-R~~~~~  154 (305)
T TIGR00635        78 NLEEGDVLFIDEIHRLS-PAVEELLYPAM-EDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRD-RFGIIL  154 (305)
T ss_pred             hcccCCEEEEehHhhhC-HHHHHHhhHHH-hhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHh-hcceEE
Confidence            343221       0001 11122333333 356667788876555433221110                000 012233


Q ss_pred             EecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHh------c---CCHHHHHHHHHHhcCCC
Q 037935          293 LIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALR------N---KSLHEWKNALRELQTPS  363 (1085)
Q Consensus       293 lv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~------~---~~~~~w~~~~~~l~~~~  363 (1085)
                      -+++++.++..+++...+... ...-.++....|++.|+|.|-.+..++..+.      +   .+.+..+.++       
T Consensus       155 ~l~~l~~~e~~~il~~~~~~~-~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l-------  226 (305)
T TIGR00635       155 RLEFYTVEELAEIVSRSAGLL-NVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKAL-------  226 (305)
T ss_pred             EeCCCCHHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHH-------
Confidence            459999999999999887522 1223356778999999999976654444321      0   0222222222       


Q ss_pred             CCCCCCCcccchhhHHHHHhcCChHHHHHHHH-hccccCCC-CCHHHHHHHHhhcCCCCCCchHHHHHHHHHHHHH-HHh
Q 037935          364 VVNFEGVPAETYSSIELSFKYLKGEQLKKIFL-LCSLIGNS-FYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVH-ELR  440 (1085)
Q Consensus       364 ~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~-~~s~fp~~-i~~~~li~~w~~~g~~~~~~~~~~~~~~~~~~~~-~L~  440 (1085)
                                  ..+...|..++. +.+..+. ..+.++.+ +..+.+....   |.     +...+    ...++ .|+
T Consensus       227 ------------~~l~~~~~~l~~-~~~~~L~al~~~~~~~~~~~~~ia~~l---g~-----~~~~~----~~~~e~~Li  281 (305)
T TIGR00635       227 ------------EMLMIDELGLDE-IDRKLLSVLIEQFQGGPVGLKTLAAAL---GE-----DADTI----EDVYEPYLL  281 (305)
T ss_pred             ------------HHhCCCCCCCCH-HHHHHHHHHHHHhCCCcccHHHHHHHh---CC-----CcchH----HHhhhHHHH
Confidence                        223445677775 4444444 55666544 6665554431   11     11122    22356 588


Q ss_pred             Hcccceec
Q 037935          441 DCCLLLEG  448 (1085)
Q Consensus       441 ~~~ll~~~  448 (1085)
                      +.+|++..
T Consensus       282 ~~~li~~~  289 (305)
T TIGR00635       282 QIGFLQRT  289 (305)
T ss_pred             HcCCcccC
Confidence            99999754

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

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.51  E-value=4.8e-06  Score=91.83  Aligned_cols=257  Identities=13%  Similarity=0.107  Sum_probs=136.4

Q ss_pred             CccccchHHHHHHHHHHhc-----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALT-----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      -.+|+||+..++.+..++.     ......+.|+|++|+|||++|+.+++.....  +   .++..+ .......+..++
T Consensus        24 ~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~--~---~~~~~~-~~~~~~~l~~~l   97 (328)
T PRK00080         24 LDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVN--I---RITSGP-ALEKPGDLAAIL   97 (328)
T ss_pred             HHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCC--e---EEEecc-cccChHHHHHHH
Confidence            3569999999998877765     2345688999999999999999999987642  2   122221 112222333444


Q ss_pred             HHhCCCC----CCch--HHHHHHHHHHHHHcCCcEEEEEeCCCCccccc----------------ccccccCCCCCCcEE
Q 037935          235 EKLGLEL----SDEA--EYRRASRLYERLKNENKILVILDNIWKYLDLD----------------TIGIPFGNDHEGYNF  292 (1085)
Q Consensus       235 ~~l~~~~----~~~~--~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~~~----------------~~~~~~~~~~~gs~i  292 (1085)
                      ..++...    ++..  .....+.+...+ .+.+..+|+|+..+...+.                .+..++.. .-|..+
T Consensus        98 ~~l~~~~vl~IDEi~~l~~~~~e~l~~~~-e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~s-Rf~~~~  175 (328)
T PRK00080         98 TNLEEGDVLFIDEIHRLSPVVEEILYPAM-EDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRD-RFGIVQ  175 (328)
T ss_pred             HhcccCCEEEEecHhhcchHHHHHHHHHH-HhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHH-hcCeee
Confidence            4443221    0000  011112223333 3556667777654432211                01111100 012344


Q ss_pred             EecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCCCCCCCcc
Q 037935          293 LIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPA  372 (1085)
Q Consensus       293 lv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~~~~~~~~~~~  372 (1085)
                      -+++++.++..+++...+... ...--++....|++.|+|.|-.+..+...+     ..|....   ....+ . ...-.
T Consensus       176 ~l~~~~~~e~~~il~~~~~~~-~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~-----~~~a~~~---~~~~I-~-~~~v~  244 (328)
T PRK00080        176 RLEFYTVEELEKIVKRSARIL-GVEIDEEGALEIARRSRGTPRIANRLLRRV-----RDFAQVK---GDGVI-T-KEIAD  244 (328)
T ss_pred             ecCCCCHHHHHHHHHHHHHHc-CCCcCHHHHHHHHHHcCCCchHHHHHHHHH-----HHHHHHc---CCCCC-C-HHHHH
Confidence            559999999999999887532 122335678999999999996554444332     1221110   00000 0 00111


Q ss_pred             cchhhHHHHHhcCChHHHHHHHH-hccccCCC-CCHHHHHHHHhhcCCCCCCchHHHHHHHHHHHHH-HHhHcccceec
Q 037935          373 ETYSSIELSFKYLKGEQLKKIFL-LCSLIGNS-FYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVH-ELRDCCLLLEG  448 (1085)
Q Consensus       373 ~~~~~l~~sy~~L~~~~~k~cf~-~~s~fp~~-i~~~~li~~w~~~g~~~~~~~~~~~~~~~~~~~~-~L~~~~ll~~~  448 (1085)
                      .....+...|..|++ ..+..+. ....|+.+ +..+.+....   |  .+..+.+++       ++ .|++.+|++..
T Consensus       245 ~~l~~~~~~~~~l~~-~~~~~l~~~~~~~~~~~~~~~~~a~~l---g--~~~~~~~~~-------~e~~Li~~~li~~~  310 (328)
T PRK00080        245 KALDMLGVDELGLDE-MDRKYLRTIIEKFGGGPVGLDTLAAAL---G--EERDTIEDV-------YEPYLIQQGFIQRT  310 (328)
T ss_pred             HHHHHhCCCcCCCCH-HHHHHHHHHHHHcCCCceeHHHHHHHH---C--CCcchHHHH-------hhHHHHHcCCcccC
Confidence            223334555677876 3444443 66667665 7777664432   1  112222322       34 67889998754

>PTZ00202 tuzin; Provisional

Probab=98.50  E-value=6.5e-06  Score=88.48  Aligned_cols=144  Identities=17%  Similarity=0.228  Sum_probs=91.5

Q ss_pred             CCCCccccchHHHHHHHHHHhcc---CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHH
Q 037935          157 NKGYEAFESRVSTLKSIQNALTD---VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEI  233 (1085)
Q Consensus       157 ~~~~~~~~gr~~~~~~l~~~l~~---~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  233 (1085)
                      +.+...|+||+.++..+...|.+   ...+++.|+|++|+|||||++.+.....    +. ...++. .  +..++++.+
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~~-qL~vNp-r--g~eElLr~L  329 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----MP-AVFVDV-R--GTEDTLRSV  329 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----ce-EEEECC-C--CHHHHHHHH
Confidence            44567899999999999998862   2346999999999999999999986543    21 222322 2  679999999


Q ss_pred             HHHhCCCCCCchHHHHHHHHHHHHH----c-CCcEEEEEeCCCCccccccc---ccccCCCCCCcEEEe-----------
Q 037935          234 AEKLGLELSDEAEYRRASRLYERLK----N-ENKILVILDNIWKYLDLDTI---GIPFGNDHEGYNFLI-----------  294 (1085)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~~~~l~----~-~~~~LlvlDdv~~~~~~~~~---~~~~~~~~~gs~ilv-----------  294 (1085)
                      +.++|.+.... ..+....+.+.+.    . +++.+||+- +.+...+..+   ...+.....-|.|++           
T Consensus       330 L~ALGV~p~~~-k~dLLrqIqeaLl~~~~e~GrtPVLII~-lreg~~l~rvyne~v~la~drr~ch~v~evpleslt~~~  407 (550)
T PTZ00202        330 VKALGVPNVEA-CGDLLDFISEACRRAKKMNGETPLLVLK-LREGSSLQRVYNEVVALACDRRLCHVVIEVPLESLTIAN  407 (550)
T ss_pred             HHHcCCCCccc-HHHHHHHHHHHHHHHHHhCCCCEEEEEE-ecCCCcHHHHHHHHHHHHccchhheeeeeehHhhcchhc
Confidence            99999743322 2222333333322    2 677777764 2222222111   122333344455555           


Q ss_pred             -----------cCCCHHHHHHHHHHhc
Q 037935          295 -----------GNLSEEEAWRLFKIMN  310 (1085)
Q Consensus       295 -----------~~l~~~~~~~lf~~~~  310 (1085)
                                 .+++.++|.+..++..
T Consensus       408 ~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        408 TLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             ccCccceeEecCCCCHHHHHHHHhhcc
Confidence                       8888888888877665

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

Probab=98.50  E-value=5.2e-09  Score=113.41  Aligned_cols=135  Identities=23%  Similarity=0.389  Sum_probs=61.9

Q ss_pred             eeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccc
Q 037935          499 LLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQL  577 (1085)
Q Consensus       499 l~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l  577 (1085)
                      +..|.+..+|..+ .+..|..|+++.|.   ...+|..+ +.| -|++|-+++|+++.+|..|+.+.+|..||.+.| .+
T Consensus       105 Ly~n~~r~ip~~i~~L~~lt~l~ls~Nq---lS~lp~~l-C~l-pLkvli~sNNkl~~lp~~ig~~~tl~~ld~s~n-ei  178 (722)
T KOG0532|consen  105 LYHNCIRTIPEAICNLEALTFLDLSSNQ---LSHLPDGL-CDL-PLKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKN-EI  178 (722)
T ss_pred             HHhccceecchhhhhhhHHHHhhhccch---hhcCChhh-hcC-cceeEEEecCccccCCcccccchhHHHhhhhhh-hh
Confidence            3333444443332 33444444444443   33444432 212 244555555555555555554455555555555 45


Q ss_pred             cccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-cccccceeeE
Q 037935          578 KFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-FTKKLERFDI  653 (1085)
Q Consensus       578 ~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~L~~L~l  653 (1085)
                      ..+|... +++.+|+.|+++.|.+.            ..+.++..| .|..|++++|++..+|..+ .+++|+.|.+
T Consensus       179 ~slpsql-~~l~slr~l~vrRn~l~------------~lp~El~~L-pLi~lDfScNkis~iPv~fr~m~~Lq~l~L  241 (722)
T KOG0532|consen  179 QSLPSQL-GYLTSLRDLNVRRNHLE------------DLPEELCSL-PLIRLDFSCNKISYLPVDFRKMRHLQVLQL  241 (722)
T ss_pred             hhchHHh-hhHHHHHHHHHhhhhhh------------hCCHHHhCC-ceeeeecccCceeecchhhhhhhhheeeee
Confidence            5555443 45555555555544442            223344422 3555555555555555554 4555555444

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

Probab=98.50  E-value=7.9e-06  Score=89.72  Aligned_cols=182  Identities=22%  Similarity=0.266  Sum_probs=119.1

Q ss_pred             ccccchHHHHHHHHHHhc----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALT----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEK  236 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  236 (1085)
                      +.+.+|+.+++++...|.    .....-+.|+|..|+|||+.++.|.+..+....=..++.|++-...+..+++..|+++
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~   96 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNK   96 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHH
Confidence            448899999999998876    2333348999999999999999999988754211127889999999999999999999


Q ss_pred             hCC-CCCCchHHHHHHHHHHHHH-cCCcEEEEEeCCCCcccc--cccccccCCCC-CCcEEEe-----------------
Q 037935          237 LGL-ELSDEAEYRRASRLYERLK-NENKILVILDNIWKYLDL--DTIGIPFGNDH-EGYNFLI-----------------  294 (1085)
Q Consensus       237 l~~-~~~~~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~~~~--~~~~~~~~~~~-~gs~ilv-----------------  294 (1085)
                      ++. +.......+....+.+.+. .++.+++|||+++....-  +-+...+.... ..++|.+                 
T Consensus        97 ~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld~rv  176 (366)
T COG1474          97 LGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPRV  176 (366)
T ss_pred             cCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhhhhh
Confidence            963 3334455555666666665 378999999999865322  11111121111 1344444                 


Q ss_pred             -----------cCCCHHHHHHHHHHhcC----CCCCCCCchH-HHHHHHHHhCCchHHHHHHHH
Q 037935          295 -----------GNLSEEEAWRLFKIMNG----DDVENCKFKP-TAINVAQACGGLPIALTTVAR  342 (1085)
Q Consensus       295 -----------~~l~~~~~~~lf~~~~~----~~~~~~~~~~-~~~~i~~~~~glPlai~~~~~  342 (1085)
                                 .|-+.+|-..++..++.    +....+..-+ ++...++..|-.-.||.++-.
T Consensus       177 ~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~  240 (366)
T COG1474         177 KSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRR  240 (366)
T ss_pred             hhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHH
Confidence                       78888888888887772    1222223333 333344444455566655443

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

Probab=98.47  E-value=1.9e-06  Score=90.80  Aligned_cols=148  Identities=20%  Similarity=0.199  Sum_probs=93.6

Q ss_pred             CCccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          159 GYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      +.++++|.++.+.++++   .+++....+||++|+||||||+.+.......  |     ..+|...+-.+-++++++.. 
T Consensus        28 GQ~HLlg~~~~lrr~v~---~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~--f-----~~~sAv~~gvkdlr~i~e~a-   96 (436)
T COG2256          28 GQEHLLGEGKPLRRAVE---AGHLHSMILWGPPGTGKTTLARLIAGTTNAA--F-----EALSAVTSGVKDLREIIEEA-   96 (436)
T ss_pred             ChHhhhCCCchHHHHHh---cCCCceeEEECCCCCCHHHHHHHHHHhhCCc--e-----EEeccccccHHHHHHHHHHH-
Confidence            34455555555444444   6788889999999999999999999977643  4     44444443333333333322 


Q ss_pred             CCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe----------------------
Q 037935          239 LELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI----------------------  294 (1085)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv----------------------  294 (1085)
                                     .+....+++.+|++|.|..-+  +-+.+   +|.-.+|..|+|                      
T Consensus        97 ---------------~~~~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf  158 (436)
T COG2256          97 ---------------RKNRLLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRARVF  158 (436)
T ss_pred             ---------------HHHHhcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhhhee
Confidence                           122224899999999997542  22223   444556766666                      


Q ss_pred             --cCCCHHHHHHHHHHhcC-CCCC----CC-CchHHHHHHHHHhCCchH
Q 037935          295 --GNLSEEEAWRLFKIMNG-DDVE----NC-KFKPTAINVAQACGGLPI  335 (1085)
Q Consensus       295 --~~l~~~~~~~lf~~~~~-~~~~----~~-~~~~~~~~i~~~~~glPl  335 (1085)
                        +||+.+|-.+++.+.+- ....    .. --++.-.-+++.++|=--
T Consensus       159 ~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R  207 (436)
T COG2256         159 ELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDAR  207 (436)
T ss_pred             eeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHH
Confidence              99999999999988442 1111    11 224466778888887543

>PF05729 NACHT: NACHT domain

Probab=98.45  E-value=1.1e-06  Score=86.91  Aligned_cols=87  Identities=24%  Similarity=0.371  Sum_probs=56.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccC----CCEEEEEEeCCCcCHH---HHHHHHHHHhCCCCCCchHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKL----FDRVVFSEVSQTPDIK---KIQGEIAEKLGLELSDEAEYRRASRLYE  255 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~~~  255 (1085)
                      +++.|+|.+|+||||+++.++........    +...+|+.........   .+...+..+..........     ....
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~-----~~~~   75 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEE-----LLQE   75 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHH-----HHHH
Confidence            57899999999999999999998876543    3456777776544332   3444444444322211111     1222


Q ss_pred             HHHcCCcEEEEEeCCCCcc
Q 037935          256 RLKNENKILVILDNIWKYL  274 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv~~~~  274 (1085)
                      .....+++++|+|++++..
T Consensus        76 ~~~~~~~~llilDglDE~~   94 (166)
T PF05729_consen   76 LLEKNKRVLLILDGLDELE   94 (166)
T ss_pred             HHHcCCceEEEEechHhcc
Confidence            3336899999999998753

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.45  E-value=5.9e-06  Score=101.29  Aligned_cols=243  Identities=17%  Similarity=0.238  Sum_probs=152.1

Q ss_pred             cccchHHHHHHHHHHhc---cCCceEEEEEcCCCCcHHHHHHHHHHHHhhc-cCCCEEEEEEeCCCcC---HHHHHHHHH
Q 037935          162 AFESRVSTLKSIQNALT---DVNVSIIGVYGMGGIGKTTLVKEFARQAREK-KLFDRVVFSEVSQTPD---IKKIQGEIA  234 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~~---~~~~~~~i~  234 (1085)
                      +++||+.+++.|...+.   .+...++.+.|.+|+|||+++++|......+ +.|-.-.+-.......   ..+.++++.
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~   80 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLM   80 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHH
Confidence            36899999999999887   4566799999999999999999999987654 2221111111222222   222333333


Q ss_pred             HHh-------------------CCCCC-----------------------CchHHHHHH----H-HHHHHHcCCcEEEEE
Q 037935          235 EKL-------------------GLELS-----------------------DEAEYRRAS----R-LYERLKNENKILVIL  267 (1085)
Q Consensus       235 ~~l-------------------~~~~~-----------------------~~~~~~~~~----~-~~~~l~~~~~~Llvl  267 (1085)
                      .++                   +....                       .........    . +.....+.|+.++|+
T Consensus        81 ~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~l  160 (849)
T COG3899          81 GQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVL  160 (849)
T ss_pred             HHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEE
Confidence            333                   11100                       000011111    1 111122577999999


Q ss_pred             eCCC-Cccc----cc----ccc--cc------------------cCCCCCCcEEEecCCCHHHHHHHHHHhcCCCCCCCC
Q 037935          268 DNIW-KYLD----LD----TIG--IP------------------FGNDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCK  318 (1085)
Q Consensus       268 Ddv~-~~~~----~~----~~~--~~------------------~~~~~~gs~ilv~~l~~~~~~~lf~~~~~~~~~~~~  318 (1085)
                      ||+. -+..    .+    .+.  .+                  .......+.|-+.||+..+...+.....+..  ...
T Consensus       161 eDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~--~~~  238 (849)
T COG3899         161 EDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCT--KLL  238 (849)
T ss_pred             ecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCc--ccc
Confidence            9984 2210    00    010  00                  0001233556669999999999999988642  233


Q ss_pred             chHHHHHHHHHhCCchHHHHHHHHHHhcC-------CHHHHHHHHHHhcCCCCCCCCCCcccchhhHHHHHhcCChHHHH
Q 037935          319 FKPTAINVAQACGGLPIALTTVARALRNK-------SLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLK  391 (1085)
Q Consensus       319 ~~~~~~~i~~~~~glPlai~~~~~~l~~~-------~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k  391 (1085)
                      ..+....|.++..|.|+.+.-+-..+...       +...|+.-...+...     + .-+++.+.+..-.+.||. ..+
T Consensus       239 ~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~-----~-~~~~vv~~l~~rl~kL~~-~t~  311 (849)
T COG3899         239 PAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGIL-----A-TTDAVVEFLAARLQKLPG-TTR  311 (849)
T ss_pred             cchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCc-----h-hhHHHHHHHHHHHhcCCH-HHH
Confidence            46778999999999999999988888732       445555443332221     1 223366678889999997 689


Q ss_pred             HHHHhccccCCCCCHHHHHHHH
Q 037935          392 KIFLLCSLIGNSFYLIDLLRYS  413 (1085)
Q Consensus       392 ~cf~~~s~fp~~i~~~~li~~w  413 (1085)
                      +.....|++...|+.+.|...|
T Consensus       312 ~Vl~~AA~iG~~F~l~~La~l~  333 (849)
T COG3899         312 EVLKAAACIGNRFDLDTLAALA  333 (849)
T ss_pred             HHHHHHHHhCccCCHHHHHHHH
Confidence            9999999999889988887776

>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=98.43  E-value=2.6e-07  Score=73.03  Aligned_cols=61  Identities=34%  Similarity=0.591  Sum_probs=51.7

Q ss_pred             CccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccc
Q 037935          836 PNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSY  898 (1085)
Q Consensus       836 ~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l  898 (1085)
                      |+|++|++++|.++.+++..|..  +++|++|++++|.++.+++..|..+++|+.|++++|++
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~--l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSN--LPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTT--GTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcC--CCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            57888888888888888777776  78899999998888888888888888899998888863

...

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

Probab=98.42  E-value=1e-06  Score=83.04  Aligned_cols=93  Identities=28%  Similarity=0.399  Sum_probs=68.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhc---cCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC-chHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREK---KLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD-EAEYRRASRLYER  256 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~~~~  256 (1085)
                      +-+++.|+|.+|+|||++++.+.++....   ..-..++|+.++...+...+.+.++.+++..... .........+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~   82 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDA   82 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHH
Confidence            34789999999999999999999976431   0123477999988889999999999999987765 4445556777777


Q ss_pred             HHcCCcEEEEEeCCCCc
Q 037935          257 LKNENKILVILDNIWKY  273 (1085)
Q Consensus       257 l~~~~~~LlvlDdv~~~  273 (1085)
                      +.+.+..+||+||++..
T Consensus        83 l~~~~~~~lviDe~~~l   99 (131)
T PF13401_consen   83 LDRRRVVLLVIDEADHL   99 (131)
T ss_dssp             HHHCTEEEEEEETTHHH
T ss_pred             HHhcCCeEEEEeChHhc
Confidence            77666689999998764

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.40  E-value=2.2e-06  Score=97.42  Aligned_cols=160  Identities=18%  Similarity=0.178  Sum_probs=95.0

Q ss_pred             ccccchHHHHHH---HHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKS---IQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKL  237 (1085)
Q Consensus       161 ~~~~gr~~~~~~---l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  237 (1085)
                      +.++|++..+..   +..++.......+.++|++|+||||+|+.+++.....  |     +.++....-....+++++..
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~--~-----~~l~a~~~~~~~ir~ii~~~   84 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAP--F-----EALSAVTSGVKDLREVIEEA   84 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCCC--E-----EEEecccccHHHHHHHHHHH
Confidence            457888877655   7777766777788999999999999999999876532  2     33322211111122222211


Q ss_pred             CCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCC---------------------CCCcEEEe
Q 037935          238 GLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGND---------------------HEGYNFLI  294 (1085)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~---------------------~~gs~ilv  294 (1085)
                                      ......+++.+|++|+++...  ..+.+...+..+                     .....+-+
T Consensus        85 ----------------~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~~~iilI~att~n~~~~l~~aL~SR~~~~~~  148 (413)
T PRK13342         85 ----------------RQRRSAGRRTILFIDEIHRFNKAQQDALLPHVEDGTITLIGATTENPSFEVNPALLSRAQVFEL  148 (413)
T ss_pred             ----------------HHhhhcCCceEEEEechhhhCHHHHHHHHHHhhcCcEEEEEeCCCChhhhccHHHhccceeeEe
Confidence                            111123678899999998652  222221111100                     00112223


Q ss_pred             cCCCHHHHHHHHHHhcCCC-CCC-CCchHHHHHHHHHhCCchHHHHHHHHH
Q 037935          295 GNLSEEEAWRLFKIMNGDD-VEN-CKFKPTAINVAQACGGLPIALTTVARA  343 (1085)
Q Consensus       295 ~~l~~~~~~~lf~~~~~~~-~~~-~~~~~~~~~i~~~~~glPlai~~~~~~  343 (1085)
                      .+++.++.++++....... ... .-.++....|++.|+|-+..+..+...
T Consensus       149 ~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~  199 (413)
T PRK13342        149 KPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLEL  199 (413)
T ss_pred             CCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            8999999999998876321 111 233567788999999998766554443

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

Probab=98.40  E-value=3.4e-08  Score=107.29  Aligned_cols=136  Identities=18%  Similarity=0.228  Sum_probs=119.7

Q ss_pred             ccccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEE
Q 037935          490 ALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRML  569 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L  569 (1085)
                      ....+..++++.|.++.+|..+..--|+.|.+++|.   ...+|++ ++.+..|..||.+.|.+..+|..++.|..|+.|
T Consensus       119 ~L~~lt~l~ls~NqlS~lp~~lC~lpLkvli~sNNk---l~~lp~~-ig~~~tl~~ld~s~nei~slpsql~~l~slr~l  194 (722)
T KOG0532|consen  119 NLEALTFLDLSSNQLSHLPDGLCDLPLKVLIVSNNK---LTSLPEE-IGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDL  194 (722)
T ss_pred             hhhHHHHhhhccchhhcCChhhhcCcceeEEEecCc---cccCCcc-cccchhHHHhhhhhhhhhhchHHhhhHHHHHHH
Confidence            455678889999999999988866779999999988   7888887 568999999999999999999999999999999


Q ss_pred             eccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCccc
Q 037935          570 DLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLF  644 (1085)
Q Consensus       570 ~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~  644 (1085)
                      +++.| .+..+|++. + .-.|..||++.|++.            ..|-.|.+|++|++|-|.+|.+..-|..+.
T Consensus       195 ~vrRn-~l~~lp~El-~-~LpLi~lDfScNkis------------~iPv~fr~m~~Lq~l~LenNPLqSPPAqIC  254 (722)
T KOG0532|consen  195 NVRRN-HLEDLPEEL-C-SLPLIRLDFSCNKIS------------YLPVDFRKMRHLQVLQLENNPLQSPPAQIC  254 (722)
T ss_pred             HHhhh-hhhhCCHHH-h-CCceeeeecccCcee------------ecchhhhhhhhheeeeeccCCCCCChHHHH
Confidence            99999 999999986 6 556999999999984            356778999999999999999998887773

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.39  E-value=8.3e-07  Score=91.73  Aligned_cols=93  Identities=14%  Similarity=0.138  Sum_probs=66.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC--cCHHHHHHHH-----HHHhCCCCCCc-hHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT--PDIKKIQGEI-----AEKLGLELSDE-AEYRRAS  251 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i-----~~~l~~~~~~~-~~~~~~~  251 (1085)
                      ..-..++|+|++|+|||||++.++++...+ +|+.++|+.+.+.  +++.++++.+     +.+++.+.... .....+.
T Consensus        14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~   92 (249)
T cd01128          14 GKGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVL   92 (249)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHH
Confidence            345789999999999999999999988765 8999999998776  7999999999     44444321110 0111122


Q ss_pred             HHHHHH-HcCCcEEEEEeCCCCc
Q 037935          252 RLYERL-KNENKILVILDNIWKY  273 (1085)
Q Consensus       252 ~~~~~l-~~~~~~LlvlDdv~~~  273 (1085)
                      ...+.+ ..+++.++++|++...
T Consensus        93 ~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          93 EKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHCCCCEEEEEECHHHh
Confidence            222222 3589999999998653

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.

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

Probab=98.37  E-value=1.5e-07  Score=99.26  Aligned_cols=153  Identities=24%  Similarity=0.271  Sum_probs=100.3

Q ss_pred             cccccceEEEeeccCcccccc---cCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchh--hhcc
Q 037935          489 DALKKCYAISLLNSSIHEVSL---EFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS--IGQL  563 (1085)
Q Consensus       489 ~~~~~~r~Lsl~~~~~~~l~~---~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~--i~~L  563 (1085)
                      ...+++|.+++.++.....+.   .-.|+++|.|++++|-...... --.+...+++|+.|+|+.|.+....++  -..+
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~-v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l  196 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFP-VLKIAEQLPSLENLNLSSNRLSNFISSNTTLLL  196 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHH-HHHHHHhcccchhcccccccccCCccccchhhh
Confidence            345678999999988876663   2378999999998875211112 234567889999999999987653222  2467


Q ss_pred             ccccEEeccCcccccccc-hhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCc
Q 037935          564 TKLRMLDLTDCLQLKFIV-PNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDG  642 (1085)
Q Consensus       564 ~~L~~L~Ls~~~~l~~lp-~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  642 (1085)
                      .||+.|.|+.| ++..-. ..+...+++|+.|+|..|....           .......-++.|+.|+|+.|.+-.++..
T Consensus       197 ~~lK~L~l~~C-Gls~k~V~~~~~~fPsl~~L~L~~N~~~~-----------~~~~~~~i~~~L~~LdLs~N~li~~~~~  264 (505)
T KOG3207|consen  197 SHLKQLVLNSC-GLSWKDVQWILLTFPSLEVLYLEANEIIL-----------IKATSTKILQTLQELDLSNNNLIDFDQG  264 (505)
T ss_pred             hhhheEEeccC-CCCHHHHHHHHHhCCcHHHhhhhcccccc-----------eecchhhhhhHHhhccccCCcccccccc
Confidence            88999999998 766211 1224677889999998885321           1112234567788888888877666543


Q ss_pred             c---cccccceeeEE
Q 037935          643 L---FTKKLERFDIS  654 (1085)
Q Consensus       643 ~---~l~~L~~L~l~  654 (1085)
                      .   .++.|+.|+++
T Consensus       265 ~~~~~l~~L~~Lnls  279 (505)
T KOG3207|consen  265 YKVGTLPGLNQLNLS  279 (505)
T ss_pred             cccccccchhhhhcc
Confidence            3   45555555543

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.37  E-value=1.3e-06  Score=93.70  Aligned_cols=100  Identities=15%  Similarity=0.153  Sum_probs=68.5

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc--CHHHHHHHHHHHhCCCCCCchHHH-
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP--DIKKIQGEIAEKLGLELSDEAEYR-  248 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~-  248 (1085)
                      +++.+. =+.-....|+|++|+||||||+.+|+....+ ||+.++||.+.+..  ++.++++++...+-....+..... 
T Consensus       159 vID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~  237 (416)
T PRK09376        159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERH  237 (416)
T ss_pred             eeeeecccccCceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHH
Confidence            445444 1344678899999999999999999998876 89999999999888  788888888632211111111111 


Q ss_pred             -----HHHHHHHHH-HcCCcEEEEEeCCCCc
Q 037935          249 -----RASRLYERL-KNENKILVILDNIWKY  273 (1085)
Q Consensus       249 -----~~~~~~~~l-~~~~~~LlvlDdv~~~  273 (1085)
                           .+....+++ ..+++++|++|++...
T Consensus       238 ~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        238 VQVAEMVIEKAKRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHHHHHHHHHHHHcCCCEEEEEEChHHH
Confidence                 111222222 2689999999998643

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

Probab=98.27  E-value=7.5e-07  Score=101.93  Aligned_cols=174  Identities=25%  Similarity=0.284  Sum_probs=108.5

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCC-cceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhcccc
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMK-KLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTR  590 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~-~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~  590 (1085)
                      ..+.+..|.+.++.   +..+++. ...+. +|+.|++++|.+..+|..++.+++|+.|++++| .+..+|... +.+.+
T Consensus       114 ~~~~l~~L~l~~n~---i~~i~~~-~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N-~l~~l~~~~-~~~~~  187 (394)
T COG4886         114 ELTNLTSLDLDNNN---ITDIPPL-IGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFN-DLSDLPKLL-SNLSN  187 (394)
T ss_pred             cccceeEEecCCcc---cccCccc-cccchhhcccccccccchhhhhhhhhccccccccccCCc-hhhhhhhhh-hhhhh
Confidence            44677777777776   5666653 33343 788888888888888777888888888888888 888888753 57888


Q ss_pred             CCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-cccccceeeEEecCCCcccccccccc
Q 037935          591 LEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-FTKKLERFDISIGDGSFDSTKIIGND  669 (1085)
Q Consensus       591 L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~l~~~  669 (1085)
                      |+.|++++|.+..            .+.....+..|++|.++.|.....+..+ .+.++..+.+..+.            
T Consensus       188 L~~L~ls~N~i~~------------l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~------------  243 (394)
T COG4886         188 LNNLDLSGNKISD------------LPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNK------------  243 (394)
T ss_pred             hhheeccCCcccc------------CchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCce------------
Confidence            8888888887732            2222344555777777777533333222 33333333221100            


Q ss_pred             cccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEecccc
Q 037935          670 WFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCK  749 (1085)
Q Consensus       670 ~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~  749 (1085)
                                                    . ..+|..++.+++++.|++++| .+..++.   ++.+.+|+.|+++++.
T Consensus       244 ------------------------------~-~~~~~~~~~l~~l~~L~~s~n-~i~~i~~---~~~~~~l~~L~~s~n~  288 (394)
T COG4886         244 ------------------------------L-EDLPESIGNLSNLETLDLSNN-QISSISS---LGSLTNLRELDLSGNS  288 (394)
T ss_pred             ------------------------------e-eeccchhccccccceeccccc-ccccccc---ccccCccCEEeccCcc
Confidence                                          0 011445556677888888765 4444422   7777888888887776


Q ss_pred             c
Q 037935          750 S  750 (1085)
Q Consensus       750 ~  750 (1085)
                      .
T Consensus       289 ~  289 (394)
T COG4886         289 L  289 (394)
T ss_pred             c
Confidence            3

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

Probab=98.23  E-value=9.9e-05  Score=76.36  Aligned_cols=93  Identities=20%  Similarity=0.306  Sum_probs=63.1

Q ss_pred             CCccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          159 GYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      +.++++|.+..+   .++++.+.+..+.+||++|+||||||+.+....+...    ..||..|....-.+-.+.|.++..
T Consensus       142 GQ~hlv~q~gll---rs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq  214 (554)
T KOG2028|consen  142 GQSHLVGQDGLL---RSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQ  214 (554)
T ss_pred             chhhhcCcchHH---HHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHH
Confidence            334445544433   3444467889999999999999999999999876543    567888776655555566655432


Q ss_pred             CCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          239 LELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      .             .  ....++|.+|.+|+|..-
T Consensus       215 ~-------------~--~~l~krkTilFiDEiHRF  234 (554)
T KOG2028|consen  215 N-------------E--KSLTKRKTILFIDEIHRF  234 (554)
T ss_pred             H-------------H--HhhhcceeEEEeHHhhhh
Confidence            1             1  111378899999998643

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

Probab=98.23  E-value=4.4e-06  Score=84.23  Aligned_cols=48  Identities=21%  Similarity=0.359  Sum_probs=34.9

Q ss_pred             cccchHHHHHHHHHHhc---cCCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          162 AFESRVSTLKSIQNALT---DVNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      .|+||+++++++.+.+.   ....+.+.|+|.+|+|||+|.++++......
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            38999999999999993   4556899999999999999999999988766

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=98.20  E-value=0.00011  Score=79.17  Aligned_cols=183  Identities=12%  Similarity=0.133  Sum_probs=114.5

Q ss_pred             CCccccchHHHHHHHHHHhc----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          159 GYEAFESRVSTLKSIQNALT----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      .+..+.||+.++..+.+++.    ....+.+.|.|.+|.|||.+...|+.+......=..++.+++..-....+++..|.
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHH
Confidence            34568999999999998876    35668899999999999999999999876432222456677666567788888888


Q ss_pred             HHh-CCCCCCchHHHHHHHHHHHHHcCC-cEEEEEeCCCCccc--ccccccccCC-CCCCcEEEe---------------
Q 037935          235 EKL-GLELSDEAEYRRASRLYERLKNEN-KILVILDNIWKYLD--LDTIGIPFGN-DHEGYNFLI---------------  294 (1085)
Q Consensus       235 ~~l-~~~~~~~~~~~~~~~~~~~l~~~~-~~LlvlDdv~~~~~--~~~~~~~~~~-~~~gs~ilv---------------  294 (1085)
                      ..+ ..........+....+.+...+.+ .+|+|+|.++....  -.-+...|-+ ...++++++               
T Consensus       228 ~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~Lp  307 (529)
T KOG2227|consen  228 SSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFLP  307 (529)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHHhh
Confidence            777 222222222333444555555444 89999999876421  1111111111 123444333               


Q ss_pred             ---------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCC----chHHHHHHH
Q 037935          295 ---------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGG----LPIALTTVA  341 (1085)
Q Consensus       295 ---------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~g----lPlai~~~~  341 (1085)
                                     +|.+.++-.+++..+..............+.+|+|+.|    +--|+-+.-
T Consensus       308 rL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R  373 (529)
T KOG2227|consen  308 RLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCR  373 (529)
T ss_pred             hhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHH
Confidence                           89999999999998884333333333445555555544    444444433

>PRK04195 replication factor C large subunit; Provisional

Probab=98.16  E-value=0.00015  Score=84.30  Aligned_cols=234  Identities=13%  Similarity=0.076  Sum_probs=124.4

Q ss_pred             CccccchHHHHHHHHHHhcc----CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALTD----VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~----~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  235 (1085)
                      -..++|+++.++.+.+|+..    ...+.+.|+|++|+||||+|+.++++..    |+. +-++.+...+... ...++.
T Consensus        13 l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~----~~~-ielnasd~r~~~~-i~~~i~   86 (482)
T PRK04195         13 LSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG----WEV-IELNASDQRTADV-IERVAG   86 (482)
T ss_pred             HHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CCE-EEEcccccccHHH-HHHHHH
Confidence            35689999999999998862    1267899999999999999999999864    333 3344444333222 222222


Q ss_pred             HhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCccc------ccccccccCC--------------------CCCC
Q 037935          236 KLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLD------LDTIGIPFGN--------------------DHEG  289 (1085)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~------~~~~~~~~~~--------------------~~~g  289 (1085)
                      ......              .+...++-+||+|+++....      +..+...+..                    ...+
T Consensus        87 ~~~~~~--------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~~~~iIli~n~~~~~~~k~Lrsr~  152 (482)
T PRK04195         87 EAATSG--------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKKAKQPIILTANDPYDPSLRELRNAC  152 (482)
T ss_pred             HhhccC--------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHcCCCCEEEeccCccccchhhHhccc
Confidence            211100              01012566788888765421      1222111110                    0111


Q ss_pred             cEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHh-cC---CHHHHHHHHHHhcCCCCC
Q 037935          290 YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALR-NK---SLHEWKNALRELQTPSVV  365 (1085)
Q Consensus       290 s~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~-~~---~~~~w~~~~~~l~~~~~~  365 (1085)
                      ..|-+.+++.++....+...+.... ..--.+....|++.++|-.-.+......+. +.   +......+..        
T Consensus       153 ~~I~f~~~~~~~i~~~L~~i~~~eg-i~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~~--------  223 (482)
T PRK04195        153 LMIEFKRLSTRSIVPVLKRICRKEG-IECDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGR--------  223 (482)
T ss_pred             eEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhhc--------
Confidence            2233378888888888777663111 112256778899999886655543333333 22   3333332221        


Q ss_pred             CCCCCcccchhhHHHHHhcCChHHHHHHHHhccccCCCCCHHHHHHHHhhcCCCCCCchHHHHHH
Q 037935          366 NFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARN  430 (1085)
Q Consensus       366 ~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~fp~~i~~~~li~~w~~~g~~~~~~~~~~~~~  430 (1085)
                        .+....++.++..-+..=....+...+.     --+++.+ .+-.|+.+.+.......+++..
T Consensus       224 --~d~~~~if~~l~~i~~~k~~~~a~~~~~-----~~~~~~~-~i~~~l~en~~~~~~~~~~~~~  280 (482)
T PRK04195        224 --RDREESIFDALDAVFKARNADQALEASY-----DVDEDPD-DLIEWIDENIPKEYDDPEDIAR  280 (482)
T ss_pred             --CCCCCCHHHHHHHHHCCCCHHHHHHHHH-----cccCCHH-HHHHHHHhccccccCCHHHHHH
Confidence              1123455666665554222222332221     1234554 4567999998875444444443

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.15  E-value=5.2e-06  Score=90.23  Aligned_cols=32  Identities=19%  Similarity=0.355  Sum_probs=16.0

Q ss_pred             CCceEEEecCCcccccchhHHhhccccceEEeeccc
Q 037935          862 GSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCS  897 (1085)
Q Consensus       862 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~  897 (1085)
                      ..++.|+++++.++.+|    ...++|+.|.+++|.
T Consensus        52 ~~l~~L~Is~c~L~sLP----~LP~sLtsL~Lsnc~   83 (426)
T PRK15386         52 RASGRLYIKDCDIESLP----VLPNELTEITIENCN   83 (426)
T ss_pred             cCCCEEEeCCCCCcccC----CCCCCCcEEEccCCC
Confidence            44555555555555554    123345555555554

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.10  E-value=4.5e-06  Score=90.65  Aligned_cols=154  Identities=20%  Similarity=0.214  Sum_probs=101.1

Q ss_pred             HhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeecccccccc
Q 037935          882 LERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSL  961 (1085)
Q Consensus       882 ~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~  961 (1085)
                      +..+.+++.|++++|.++.++.   +       .++|+.|.+++|++|+.++.       ..+++|+.|++++|+++..+
T Consensus        48 ~~~~~~l~~L~Is~c~L~sLP~---L-------P~sLtsL~Lsnc~nLtsLP~-------~LP~nLe~L~Ls~Cs~L~sL  110 (426)
T PRK15386         48 IEEARASGRLYIKDCDIESLPV---L-------PNELTEITIENCNNLTTLPG-------SIPEGLEKLTVCHCPEISGL  110 (426)
T ss_pred             HHHhcCCCEEEeCCCCCcccCC---C-------CCCCcEEEccCCCCcccCCc-------hhhhhhhheEccCccccccc
Confidence            3457999999999999887752   1       23699999999999988875       24679999999999888665


Q ss_pred             CCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccccccccccceeecccccccccccc
Q 037935          962 LPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLD 1041 (1085)
Q Consensus       962 ~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~ 1041 (1085)
                      +       .+|+.|++.+ +.+..+     ..-.++|+.|.+.++........         + ...+++|+.|.+.+|.
T Consensus       111 P-------~sLe~L~L~~-n~~~~L-----~~LPssLk~L~I~~~n~~~~~~l---------p-~~LPsSLk~L~Is~c~  167 (426)
T PRK15386        111 P-------ESVRSLEIKG-SATDSI-----KNVPNGLTSLSINSYNPENQARI---------D-NLISPSLKTLSLTGCS  167 (426)
T ss_pred             c-------cccceEEeCC-CCCccc-----ccCcchHhheecccccccccccc---------c-cccCCcccEEEecCCC
Confidence            3       2588888853 433322     11224578888765331111100         1 1135899999999998


Q ss_pred             ccceecCCCccccCCCcCceeeccCCCc-ccccCCCcCCc
Q 037935         1042 SLTSFSSGNYAFKLPSLQDLWVIGCPKM-KLFTKGELSTP 1080 (1085)
Q Consensus      1042 ~L~~l~~~~~~~~l~~L~~L~i~~C~~l-~~lp~~~~~~~ 1080 (1085)
                      .+. +|.+ ++   .+|+.|++..+... -.++.+.+|.+
T Consensus       168 ~i~-LP~~-LP---~SLk~L~ls~n~~~sLeI~~~sLP~n  202 (426)
T PRK15386        168 NII-LPEK-LP---ESLQSITLHIEQKTTWNISFEGFPDG  202 (426)
T ss_pred             ccc-Cccc-cc---ccCcEEEecccccccccCcccccccc
Confidence            663 4432 22   58999999876422 23444455443

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

Probab=98.09  E-value=2.9e-06  Score=97.12  Aligned_cols=174  Identities=22%  Similarity=0.323  Sum_probs=126.4

Q ss_pred             hcCCCcceEEEecCCcccCCchhhhccc-cccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccc
Q 037935          537 FKGMKKLRVVDLTRVRLFSLPSSIGQLT-KLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNA  615 (1085)
Q Consensus       537 ~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~-~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~  615 (1085)
                      ...++.++.|++.++.++.+|...+.+. +|+.|++++| .+..+|.. ++.+++|+.|++++|.+..            
T Consensus       112 ~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N-~i~~l~~~-~~~l~~L~~L~l~~N~l~~------------  177 (394)
T COG4886         112 LLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDN-KIESLPSP-LRNLPNLKNLDLSFNDLSD------------  177 (394)
T ss_pred             hhcccceeEEecCCcccccCccccccchhhccccccccc-chhhhhhh-hhccccccccccCCchhhh------------
Confidence            4456889999999999999999888885 9999999999 99999755 4999999999999999842            


Q ss_pred             cHHHhhcCCCCcEEEEEeccCCCCCCcc-cccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccc
Q 037935          616 SLDELMHLQRLTTLEIDVEDDSILPDGL-FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAIN  694 (1085)
Q Consensus       616 ~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~  694 (1085)
                      .+.....+++|+.|++++|.+..+|..+ ....|+.+.+..+.                                     
T Consensus       178 l~~~~~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~-------------------------------------  220 (394)
T COG4886         178 LPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNS-------------------------------------  220 (394)
T ss_pred             hhhhhhhhhhhhheeccCCccccCchhhhhhhhhhhhhhcCCc-------------------------------------
Confidence            2333348889999999999999999875 44447766664321                                     


Q ss_pred             cccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccE
Q 037935          695 VDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTT  774 (1085)
Q Consensus       695 L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~  774 (1085)
                            ....+..+..+.++..+.+.++. +..+  +..++.+++|+.|++++|. +..+..         ...+.+++.
T Consensus       221 ------~~~~~~~~~~~~~l~~l~l~~n~-~~~~--~~~~~~l~~l~~L~~s~n~-i~~i~~---------~~~~~~l~~  281 (394)
T COG4886         221 ------IIELLSSLSNLKNLSGLELSNNK-LEDL--PESIGNLSNLETLDLSNNQ-ISSISS---------LGSLTNLRE  281 (394)
T ss_pred             ------ceecchhhhhcccccccccCCce-eeec--cchhccccccceecccccc-cccccc---------ccccCccCE
Confidence                  01233345566677777765543 3332  2347788889999988876 333322         224667777


Q ss_pred             EecCCC
Q 037935          775 LKLDGL  780 (1085)
Q Consensus       775 L~l~~~  780 (1085)
                      |++++.
T Consensus       282 L~~s~n  287 (394)
T COG4886         282 LDLSGN  287 (394)
T ss_pred             EeccCc
Confidence            777763

>TIGR00767 rho transcription termination factor Rho

Probab=98.08  E-value=1.6e-05  Score=85.90  Aligned_cols=93  Identities=14%  Similarity=0.160  Sum_probs=65.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC--cCHHHHHHHHHHHhCCCCCCchH---H---HHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT--PDIKKIQGEIAEKLGLELSDEAE---Y---RRAS  251 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~---~---~~~~  251 (1085)
                      +.-..++|+|++|+|||||++.+++....+ +|+..+||.+.+.  .++.++++.+...+-....+.+.   .   ..+.
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~  244 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVI  244 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHH
Confidence            345789999999999999999999988765 8999999999866  78999999994433221111111   1   1122


Q ss_pred             HHHHHH-HcCCcEEEEEeCCCCc
Q 037935          252 RLYERL-KNENKILVILDNIWKY  273 (1085)
Q Consensus       252 ~~~~~l-~~~~~~LlvlDdv~~~  273 (1085)
                      ...+++ ..+++.+|++|++...
T Consensus       245 e~Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       245 EKAKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHHHcCCCeEEEEEChhHH
Confidence            222222 2689999999998643

Members of this family differ in the specificity of RNA binding.

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.07  E-value=6e-07  Score=89.82  Aligned_cols=63  Identities=19%  Similarity=0.151  Sum_probs=43.2

Q ss_pred             ccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCC
Q 037935          710 CFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGL  780 (1085)
Q Consensus       710 ~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~  780 (1085)
                      .+++|.+|+|++|..++.. -...+-+++.|++|.++.|+.+.--.       .......|+|.+|++-+|
T Consensus       311 rcp~l~~LDLSD~v~l~~~-~~~~~~kf~~L~~lSlsRCY~i~p~~-------~~~l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  311 RCPNLVHLDLSDSVMLKND-CFQEFFKFNYLQHLSLSRCYDIIPET-------LLELNSKPSLVYLDVFGC  373 (419)
T ss_pred             hCCceeeeccccccccCch-HHHHHHhcchheeeehhhhcCCChHH-------eeeeccCcceEEEEeccc
Confidence            5678999999999888763 34567788999999999998653110       011224677777777664

>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=98.07  E-value=3.7e-06  Score=60.37  Aligned_cols=41  Identities=29%  Similarity=0.528  Sum_probs=30.0

Q ss_pred             CcceEEEecCCcccCCchhhhccccccEEeccCcccccccch
Q 037935          541 KKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVP  582 (1085)
Q Consensus       541 ~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~  582 (1085)
                      ++|++|++++|+|+.+|..+++|++|++|++++| .++.+++
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNN-PISDISP   41 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSS-CCSBEGG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCC-CCCCCcC
Confidence            4678888888888888777888888888888888 7776654

...

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.06  E-value=4.5e-05  Score=90.51  Aligned_cols=162  Identities=16%  Similarity=0.207  Sum_probs=96.5

Q ss_pred             ccccchHHHHHHHHHHhccCCceE-EEEEcCCCCcHHHHHHHHHHHHhhccC-------------------CCEEEEEEe
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSI-IGVYGMGGIGKTTLVKEFARQAREKKL-------------------FDRVVFSEV  220 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~G~GKTtLa~~v~~~~~~~~~-------------------f~~~~wv~~  220 (1085)
                      +.++|.+..++.|.+++..+++.. +.++|+.|+||||+|+.+++.......                   |.-++++..
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviEidA   95 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIEVDA   95 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEEecc
Confidence            568999999999999888777765 479999999999999999987654211                   111222322


Q ss_pred             CCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc--ccccccccccCCCCCCcEEEe----
Q 037935          221 SQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY--LDLDTIGIPFGNDHEGYNFLI----  294 (1085)
Q Consensus       221 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~--~~~~~~~~~~~~~~~gs~ilv----  294 (1085)
                      .....+..+ ++|.+.+.                ..-..+++-++|+|++...  ..++.+...+-.-....++|+    
T Consensus        96 as~~kVDdI-ReLie~v~----------------~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe  158 (944)
T PRK14949         96 ASRTKVDDT-RELLDNVQ----------------YRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTD  158 (944)
T ss_pred             ccccCHHHH-HHHHHHHH----------------hhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCC
Confidence            211122221 22222221                0111367778999998765  233333222211111122222    


Q ss_pred             -----------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHH
Q 037935          295 -----------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTV  340 (1085)
Q Consensus       295 -----------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~  340 (1085)
                                       .+++.++..+.+.+.+... ....-.+....|++.++|.|--+..+
T Consensus       159 ~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~E-gI~~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        159 PQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQE-QLPFEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             chhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence                             9999999999988876321 12223567788999999988644443

>PLN03150 hypothetical protein; Provisional

Probab=98.05  E-value=1e-05  Score=96.89  Aligned_cols=81  Identities=25%  Similarity=0.409  Sum_probs=38.4

Q ss_pred             cceeeeccCCCccccccChhhhcCCCcceEEEecCCccc-CCchhhhccccccEEeccCccccc-ccchhhhhccccCCE
Q 037935          516 LEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLF-SLPSSIGQLTKLRMLDLTDCLQLK-FIVPNILSSFTRLEE  593 (1085)
Q Consensus       516 Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~-~lp~~i~~L~~L~~L~Ls~~~~l~-~lp~~~~~~L~~L~~  593 (1085)
                      ++.|++.++..  ...+|.. +..+++|++|+|++|.+. .+|..++.+++|++|+|++| .+. .+|.. +++|++|++
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~~  494 (623)
T PLN03150        420 IDGLGLDNQGL--RGFIPND-ISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYN-SFNGSIPES-LGQLTSLRI  494 (623)
T ss_pred             EEEEECCCCCc--cccCCHH-HhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCC-CCCCCCchH-HhcCCCCCE
Confidence            44444444432  2233332 444555555555555554 34555555555555555555 443 23333 355555555


Q ss_pred             EeccCCCc
Q 037935          594 LYMGSCSI  601 (1085)
Q Consensus       594 L~L~~~~~  601 (1085)
                      |+|++|.+
T Consensus       495 L~Ls~N~l  502 (623)
T PLN03150        495 LNLNGNSL  502 (623)
T ss_pred             EECcCCcc
Confidence            55555544

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

Probab=98.05  E-value=9.1e-05  Score=73.24  Aligned_cols=51  Identities=20%  Similarity=0.286  Sum_probs=36.1

Q ss_pred             CCccccchHHHHHHHHHHhc-----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          159 GYEAFESRVSTLKSIQNALT-----DVNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      .-++|+|.+..++.+.-++.     .+.+..+-+||++|+||||||..+.++....
T Consensus        22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~   77 (233)
T PF05496_consen   22 SLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVN   77 (233)
T ss_dssp             SCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--
T ss_pred             CHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCC
Confidence            45679999998887654443     3457889999999999999999999998754

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.

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

Probab=98.04  E-value=3.1e-05  Score=74.78  Aligned_cols=96  Identities=17%  Similarity=0.172  Sum_probs=62.1

Q ss_pred             cchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC
Q 037935          164 ESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD  243 (1085)
Q Consensus       164 ~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~  243 (1085)
                      +||+..+..+...+.....+.+.|+|.+|+|||++++.+++.....  -..++++..............+...       
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~-------   71 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP--GAPFLYLNASDLLEGLVVAELFGHF-------   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhhhhhHHHHHhhhh-------
Confidence            4788889999998876667889999999999999999999987522  2346677665543322222111100       


Q ss_pred             chHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          244 EAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       244 ~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                           ............++.++|+||++..
T Consensus        72 -----~~~~~~~~~~~~~~~~lilDe~~~~   96 (151)
T cd00009          72 -----LVRLLFELAEKAKPGVLFIDEIDSL   96 (151)
T ss_pred             -----hHhHHHHhhccCCCeEEEEeChhhh
Confidence                 0001111111367889999999854

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.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.04  E-value=0.0001  Score=80.67  Aligned_cols=156  Identities=18%  Similarity=0.231  Sum_probs=97.5

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh----hccCCCEEEEEEe-CCCcCHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR----EKKLFDRVVFSEV-SQTPDIKKIQGEIA  234 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~----~~~~f~~~~wv~~-~~~~~~~~~~~~i~  234 (1085)
                      .+++|.+...+.+..++..+.+ ..+.++|+.|+||||+|+.+++..-    ...|+|...|... +....+.++ +++.
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~i-r~~~   82 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDI-RNII   82 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHH-HHHH
Confidence            3578988889999999876655 4668999999999999999998653    2356777666553 333444443 3333


Q ss_pred             HHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC--cccccccccccCCCCCCcEEEe------------------
Q 037935          235 EKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK--YLDLDTIGIPFGNDHEGYNFLI------------------  294 (1085)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~--~~~~~~~~~~~~~~~~gs~ilv------------------  294 (1085)
                      +.+.....                .+++-++|+|+++.  ...++.+...+.....++.+++                  
T Consensus        83 ~~~~~~p~----------------~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~  146 (313)
T PRK05564         83 EEVNKKPY----------------EGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQI  146 (313)
T ss_pred             HHHhcCcc----------------cCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhcee
Confidence            33322110                13444555555433  3445555555554444444444                  


Q ss_pred             ---cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHH
Q 037935          295 ---GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALT  338 (1085)
Q Consensus       295 ---~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  338 (1085)
                         .++++++....+......     ...+.++.++..++|.|.-+.
T Consensus       147 ~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        147 YKLNRLSKEEIEKFISYKYND-----IKEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             eeCCCcCHHHHHHHHHHHhcC-----CCHHHHHHHHHHcCCCHHHHH
Confidence               778888887777665421     113446788899999887554

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.03  E-value=0.00019  Score=80.06  Aligned_cols=159  Identities=13%  Similarity=0.143  Sum_probs=90.4

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhccC-------------------CCEEEEEEe
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKKL-------------------FDRVVFSEV  220 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-------------------f~~~~wv~~  220 (1085)
                      ++++|.+..++.+...+..+++ ..+.++|+.|+||||+|+.+.+.......                   +....++..
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~~~~~   95 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLIEIDA   95 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceEEecc
Confidence            4688999999999988876655 45689999999999999999987643211                   111222222


Q ss_pred             CCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe----
Q 037935          221 SQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI----  294 (1085)
Q Consensus       221 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv----  294 (1085)
                      +....+.+ .+++.+.+....                ..+++-++|+|+++...  .++.+...+.......++++    
T Consensus        96 ~~~~~v~~-ir~i~~~~~~~p----------------~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~  158 (363)
T PRK14961         96 ASRTKVEE-MREILDNIYYSP----------------SKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTD  158 (363)
T ss_pred             cccCCHHH-HHHHHHHHhcCc----------------ccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCC
Confidence            11111111 122222211000                02455678888887653  24433333322222223332    


Q ss_pred             -----------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHH
Q 037935          295 -----------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIAL  337 (1085)
Q Consensus       295 -----------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  337 (1085)
                                       .|++.++..+.+...+... ...--++.+..|++.++|.|-.+
T Consensus       159 ~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~-g~~i~~~al~~ia~~s~G~~R~a  217 (363)
T PRK14961        159 VEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKE-SIDTDEYALKLIAYHAHGSMRDA  217 (363)
T ss_pred             hHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHH
Confidence                             8888888888777765211 11122456778888898877543

>PLN03025 replication factor C subunit; Provisional

Probab=98.03  E-value=5.9e-05  Score=82.80  Aligned_cols=159  Identities=14%  Similarity=0.094  Sum_probs=87.2

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCC-EEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFD-RVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      +.++|.+..++.+..++..++.+.+.++|++|+||||+|+.+++..... .|. .++-++.+...... ..+++++.+..
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~-~~~~~~~eln~sd~~~~~-~vr~~i~~~~~   90 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGP-NYKEAVLELNASDDRGID-VVRNKIKMFAQ   90 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc-cCccceeeecccccccHH-HHHHHHHHHHh
Confidence            4578988888888888777777778899999999999999999986432 132 12223333332322 22222222110


Q ss_pred             CCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe---------------------cC
Q 037935          240 ELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI---------------------GN  296 (1085)
Q Consensus       240 ~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv---------------------~~  296 (1085)
                      ...             ....++.-++|+|+++...  ..+.+...+......+++++                     .+
T Consensus        91 ~~~-------------~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~  157 (319)
T PLN03025         91 KKV-------------TLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSR  157 (319)
T ss_pred             ccc-------------cCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCC
Confidence            000             0001445688888887652  11222211111112222222                     77


Q ss_pred             CCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchH
Q 037935          297 LSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPI  335 (1085)
Q Consensus       297 l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  335 (1085)
                      +++++..+.+...+.... -.--.+....|++.++|-.-
T Consensus       158 l~~~~l~~~L~~i~~~eg-i~i~~~~l~~i~~~~~gDlR  195 (319)
T PLN03025        158 LSDQEILGRLMKVVEAEK-VPYVPEGLEAIIFTADGDMR  195 (319)
T ss_pred             CCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHH
Confidence            777777777776652111 11124566777777777543

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.99  E-value=9.7e-05  Score=82.57  Aligned_cols=48  Identities=25%  Similarity=0.320  Sum_probs=41.9

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +.++|++..++.+..++..+..+.+.++|+.|+||||+|+.+.+....
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~   62 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYG   62 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            568899999999999888777678889999999999999999987653

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.97  E-value=1.6e-06  Score=89.30  Aligned_cols=89  Identities=27%  Similarity=0.342  Sum_probs=52.4

Q ss_pred             CCCCcceeeeccCCCc-cccccChhhhcCCCcceEEEecCCc----ccCCch-------hhhccccccEEeccCcccccc
Q 037935          512 ECPQLEFLHIDPKITF-AELNIPDNFFKGMKKLRVVDLTRVR----LFSLPS-------SIGQLTKLRMLDLTDCLQLKF  579 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~-~~~~l~~~~~~~l~~Lr~L~Ls~~~----i~~lp~-------~i~~L~~L~~L~Ls~~~~l~~  579 (1085)
                      ....+..+++++|..- .-.......+.+.+.||..++++.-    ..++|+       .+-.+++|++||||+| -+..
T Consensus        28 ~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDN-A~G~  106 (382)
T KOG1909|consen   28 PMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDN-AFGP  106 (382)
T ss_pred             ccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeecccc-ccCc
Confidence            4567777888877520 0011222345666778888877641    233444       3345567888888887 4431


Q ss_pred             -cc---hhhhhccccCCEEeccCCCc
Q 037935          580 -IV---PNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       580 -lp---~~~~~~L~~L~~L~L~~~~~  601 (1085)
                       -+   ...+.+++.|++|+|.+|.+
T Consensus       107 ~g~~~l~~ll~s~~~L~eL~L~N~Gl  132 (382)
T KOG1909|consen  107 KGIRGLEELLSSCTDLEELYLNNCGL  132 (382)
T ss_pred             cchHHHHHHHHhccCHHHHhhhcCCC
Confidence             11   12356777888888888876

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

Probab=97.97  E-value=3.2e-05  Score=85.28  Aligned_cols=108  Identities=20%  Similarity=0.204  Sum_probs=74.4

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLE  240 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  240 (1085)
                      .++++.+...+.+...+..  .+.|.++|++|+|||++|+.+++.......|+.+.||.+++.++..++.....-. +..
T Consensus       175 ~d~~i~e~~le~l~~~L~~--~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~-~vg  251 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPN-GVG  251 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCC-CCC
Confidence            3467788889999998864  3678889999999999999999988766678899999999998877776533110 111


Q ss_pred             CCCchHHHHHHHHHHHHH--cCCcEEEEEeCCCCc
Q 037935          241 LSDEAEYRRASRLYERLK--NENKILVILDNIWKY  273 (1085)
Q Consensus       241 ~~~~~~~~~~~~~~~~l~--~~~~~LlvlDdv~~~  273 (1085)
                      ..  .......++.+...  ..+++++|+|++...
T Consensus       252 y~--~~~G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        252 FR--RKDGIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             eE--ecCchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence            00  00011222222222  257899999998654

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.96  E-value=0.0002  Score=79.29  Aligned_cols=159  Identities=13%  Similarity=0.102  Sum_probs=89.0

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe--CCCcCHHHHHHHHHHHhC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV--SQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~--~~~~~~~~~~~~i~~~l~  238 (1085)
                      ++++|++..++.+..++..+..+.+.++|..|+||||+|+.+.+...... +. ..++.+  +.......+ ++.+.++.
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~-~~-~~~i~~~~~~~~~~~~~-~~~i~~~~   93 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGED-WR-ENFLELNASDERGIDVI-RNKIKEFA   93 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCc-cc-cceEEeccccccchHHH-HHHHHHHH
Confidence            45889999999999998876677789999999999999999998865332 21 122333  222222211 11111111


Q ss_pred             CCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCC---------------------CcEEEec
Q 037935          239 LELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHE---------------------GYNFLIG  295 (1085)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~---------------------gs~ilv~  295 (1085)
                      ....              .....+-++++|+++...  ..+.+...+.....                     +..+-+.
T Consensus        94 ~~~~--------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~  159 (319)
T PRK00440         94 RTAP--------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFS  159 (319)
T ss_pred             hcCC--------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeC
Confidence            0000              001234466666665431  11122111111111                     2223337


Q ss_pred             CCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHH
Q 037935          296 NLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIAL  337 (1085)
Q Consensus       296 ~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  337 (1085)
                      +++.++....+...+.... ..-.++....+++.++|-+.-+
T Consensus       160 ~l~~~ei~~~l~~~~~~~~-~~i~~~al~~l~~~~~gd~r~~  200 (319)
T PRK00440        160 PLKKEAVAERLRYIAENEG-IEITDDALEAIYYVSEGDMRKA  200 (319)
T ss_pred             CCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            8888888888887763211 1123567788899999877554

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.96  E-value=0.00015  Score=83.47  Aligned_cols=173  Identities=14%  Similarity=0.063  Sum_probs=93.7

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      +.++|.+...+.+..++..+... .+.++|++|+||||+|+.+++.....+.+...+|.|.+... +..........+..
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~-i~~~~h~dv~el~~   92 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA-VRRGAHPDVLEIDA   92 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH-HhcCCCCceEEecc
Confidence            45789999888888888766654 55899999999999999999987643323222232221100 00000000000000


Q ss_pred             CCCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEE--------------------
Q 037935          240 ELSDEAEYRRASRLYERLK----NENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFL--------------------  293 (1085)
Q Consensus       240 ~~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~il--------------------  293 (1085)
                      .  .....+.+..+.+.+.    .+++-++|+|+++...  .++.+...+........+|                    
T Consensus        93 ~--~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~~~  170 (504)
T PRK14963         93 A--SNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHF  170 (504)
T ss_pred             c--ccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceEEE
Confidence            0  0000111122222211    2556688888887542  2333333322211222222                    


Q ss_pred             -ecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHH
Q 037935          294 -IGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIAL  337 (1085)
Q Consensus       294 -v~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  337 (1085)
                       +.+++.++..+.+...+.... ...-.+....|++.++|.+--+
T Consensus       171 ~f~~ls~~el~~~L~~i~~~eg-i~i~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        171 RFRRLTEEEIAGKLRRLLEAEG-REAEPEALQLVARLADGAMRDA  214 (504)
T ss_pred             EecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence             289999999999988763211 1123567788999999987544

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

Probab=97.92  E-value=0.00025  Score=80.22  Aligned_cols=102  Identities=22%  Similarity=0.303  Sum_probs=69.3

Q ss_pred             CccccchHHHHHHHHHHhc------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALT------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEI  233 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  233 (1085)
                      .++-+|.++.+++|++++.      +-+-++++.+|++|||||.+|+.++.....+  |   +-++|..-.+..+|-..-
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRk--F---fRfSvGG~tDvAeIkGHR  484 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRK--F---FRFSVGGMTDVAEIKGHR  484 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCc--e---EEEeccccccHHhhcccc
Confidence            3456899999999999986      3356899999999999999999999988754  4   335666666665554333


Q ss_pred             HHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          234 AEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      -..+|.      ....+.+..+.. +..+=|+++|.|+..
T Consensus       485 RTYVGA------MPGkiIq~LK~v-~t~NPliLiDEvDKl  517 (906)
T KOG2004|consen  485 RTYVGA------MPGKIIQCLKKV-KTENPLILIDEVDKL  517 (906)
T ss_pred             eeeecc------CChHHHHHHHhh-CCCCceEEeehhhhh
Confidence            222221      112233333344 366778999998643

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.92  E-value=0.00012  Score=84.13  Aligned_cols=159  Identities=12%  Similarity=0.167  Sum_probs=90.8

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhcc-------------------CCCEEEEEEe
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKK-------------------LFDRVVFSEV  220 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~-------------------~f~~~~wv~~  220 (1085)
                      +.++|.+...+.+..++..+++ ..+.++|+.|+||||+|+.+.+......                   .|.-++.++.
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviEIDA   94 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIEIDA   94 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEEecc
Confidence            5689999999999999886654 5678999999999999999988764321                   1111222222


Q ss_pred             CCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe----
Q 037935          221 SQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI----  294 (1085)
Q Consensus       221 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv----  294 (1085)
                      +....+.++ ++++..+..                .-..+++-++|+|++....  ..+.+...+.....+.++|+    
T Consensus        95 As~~~VddI-Reli~~~~y----------------~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd  157 (702)
T PRK14960         95 ASRTKVEDT-RELLDNVPY----------------APTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTD  157 (702)
T ss_pred             cccCCHHHH-HHHHHHHhh----------------hhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECC
Confidence            222222111 112211100                0012566788899987652  33333333322222233333    


Q ss_pred             -----------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHH
Q 037935          295 -----------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIAL  337 (1085)
Q Consensus       295 -----------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  337 (1085)
                                       .+++.++..+.+...+... ....-.+....|++.++|-+..+
T Consensus       158 ~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kE-gI~id~eAL~~IA~~S~GdLRdA  216 (702)
T PRK14960        158 PQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKE-QIAADQDAIWQIAESAQGSLRDA  216 (702)
T ss_pred             hHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHH
Confidence                             7788888777777665311 11222456677888888866443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.91  E-value=0.003  Score=75.21  Aligned_cols=61  Identities=23%  Similarity=0.270  Sum_probs=46.1

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCC---EEEEEEeC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFD---RVVFSEVS  221 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~---~~~wv~~~  221 (1085)
                      +.++|++..++.+...+.......+.|+|++|+||||+|+.+++..+...++.   ..-|+.+.
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~  217 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVD  217 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEe
Confidence            45789999998888877656667899999999999999999998775433331   23455553

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.

>PF13173 AAA_14: AAA domain

Probab=97.88  E-value=3.1e-05  Score=72.14  Aligned_cols=93  Identities=18%  Similarity=0.258  Sum_probs=60.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNEN  261 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~  261 (1085)
                      -+++.|.|+.|+||||++++++++..   ....++++++...........+                ..+.+.+.. ..+
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~----------------~~~~~~~~~-~~~   61 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPD----------------LLEYFLELI-KPG   61 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhh----------------hHHHHHHhh-ccC
Confidence            47899999999999999999998775   1345677776553221110000                112222222 247


Q ss_pred             cEEEEEeCCCCcccccccccccCCCCCCcEEEe
Q 037935          262 KILVILDNIWKYLDLDTIGIPFGNDHEGYNFLI  294 (1085)
Q Consensus       262 ~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv  294 (1085)
                      +.++++|+|....+|......+.+.....+|++
T Consensus        62 ~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~   94 (128)
T PF13173_consen   62 KKYIFIDEIQYLPDWEDALKFLVDNGPNIKIIL   94 (128)
T ss_pred             CcEEEEehhhhhccHHHHHHHHHHhccCceEEE
Confidence            888999999998888877666655555556665

>PLN03150 hypothetical protein; Provisional

Probab=97.88  E-value=2.9e-05  Score=93.05  Aligned_cols=100  Identities=24%  Similarity=0.332  Sum_probs=81.9

Q ss_pred             cceEEEecCCcccC-CchhhhccccccEEeccCccccc-ccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHH
Q 037935          542 KLRVVDLTRVRLFS-LPSSIGQLTKLRMLDLTDCLQLK-FIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDE  619 (1085)
Q Consensus       542 ~Lr~L~Ls~~~i~~-lp~~i~~L~~L~~L~Ls~~~~l~-~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~  619 (1085)
                      .++.|+|++|.+.. +|..+++|++|++|+|++| .+. .+|.. ++++++|+.|+|++|.+           .+..+..
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N-~l~g~iP~~-~~~l~~L~~LdLs~N~l-----------sg~iP~~  485 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGN-SIRGNIPPS-LGSITSLEVLDLSYNSF-----------NGSIPES  485 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCC-cccCcCChH-HhCCCCCCEEECCCCCC-----------CCCCchH
Confidence            48899999999975 8999999999999999999 776 67766 59999999999999998           4567788


Q ss_pred             hhcCCCCcEEEEEeccCC-CCCCcc--cccccceeeEE
Q 037935          620 LMHLQRLTTLEIDVEDDS-ILPDGL--FTKKLERFDIS  654 (1085)
Q Consensus       620 l~~L~~L~~L~l~~~~~~-~~~~~~--~l~~L~~L~l~  654 (1085)
                      ++++++|+.|++++|.+. .+|..+  ...++..+++.
T Consensus       486 l~~L~~L~~L~Ls~N~l~g~iP~~l~~~~~~~~~l~~~  523 (623)
T PLN03150        486 LGQLTSLRILNLNGNSLSGRVPAALGGRLLHRASFNFT  523 (623)
T ss_pred             HhcCCCCCEEECcCCcccccCChHHhhccccCceEEec
Confidence            999999999999999876 456554  12344455543

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.88  E-value=0.0002  Score=82.30  Aligned_cols=157  Identities=13%  Similarity=0.167  Sum_probs=96.8

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhhcc------------------------CCCEE
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAREKK------------------------LFDRV  215 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~~~------------------------~f~~~  215 (1085)
                      ++++|.+..++.|.+++..+++. .+.++|..|+||||+|+.+.+..-...                        .|.-+
T Consensus        16 ddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~hpDv   95 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRFVDY   95 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCCCcc
Confidence            46899999999999999876664 558899999999999999998765311                        01112


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCc--ccccccccccCCCCCC
Q 037935          216 VFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLK----NENKILVILDNIWKY--LDLDTIGIPFGNDHEG  289 (1085)
Q Consensus       216 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~--~~~~~~~~~~~~~~~g  289 (1085)
                      ++++......+                     +.+..+.+.+.    .++.-++|+|+++..  ..++.+...+-.-...
T Consensus        96 iEIdAas~~gV---------------------DdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~  154 (700)
T PRK12323         96 IEMDAASNRGV---------------------DEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEH  154 (700)
T ss_pred             eEecccccCCH---------------------HHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCC
Confidence            22222211111                     12222222221    366779999999876  3455554444332334


Q ss_pred             cEEEe---------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHH
Q 037935          290 YNFLI---------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTT  339 (1085)
Q Consensus       290 s~ilv---------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  339 (1085)
                      .++|+                     .+++.++..+.+.+.+.... .....+..+.|++.++|.|.-...
T Consensus       155 v~FILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Eg-i~~d~eAL~~IA~~A~Gs~RdALs  224 (700)
T PRK12323        155 VKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEG-IAHEVNALRLLAQAAQGSMRDALS  224 (700)
T ss_pred             ceEEEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            44443                     78888888888877663211 112245567889999998865443

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.87  E-value=0.00021  Score=82.40  Aligned_cols=163  Identities=17%  Similarity=0.192  Sum_probs=91.8

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhcc-------------------CCCEEEEEEe
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKK-------------------LFDRVVFSEV  220 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~-------------------~f~~~~wv~~  220 (1085)
                      +.++|.+..++.+..++..+++ ..+.++|+.|+||||+|+.+++......                   .|...+++..
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieida   95 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEIDA   95 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEeec
Confidence            4578999999999988876555 4577899999999999999998654311                   1222333333


Q ss_pred             CCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe----
Q 037935          221 SQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI----  294 (1085)
Q Consensus       221 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv----  294 (1085)
                      .....+.++ +++++.+.                ..-..+++-++|+|+++...  .++.+...+-......++|+    
T Consensus        96 as~~gvd~i-r~ii~~~~----------------~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd  158 (546)
T PRK14957         96 ASRTGVEET-KEILDNIQ----------------YMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTD  158 (546)
T ss_pred             ccccCHHHH-HHHHHHHH----------------hhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECC
Confidence            222222221 22222111                00113667789999987542  34444333332222232322    


Q ss_pred             -----------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCch-HHHHHHH
Q 037935          295 -----------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLP-IALTTVA  341 (1085)
Q Consensus       295 -----------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-lai~~~~  341 (1085)
                                       .+++.++..+.+...+... ....-+.....|++.++|-+ -|+..+-
T Consensus       159 ~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~e-gi~~e~~Al~~Ia~~s~GdlR~alnlLe  222 (546)
T PRK14957        159 YHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKE-NINSDEQSLEYIAYHAKGSLRDALSLLD  222 (546)
T ss_pred             hhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence                             7788877776766654211 11223455677888888854 3444443

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.87  E-value=0.00022  Score=83.02  Aligned_cols=157  Identities=15%  Similarity=0.187  Sum_probs=95.2

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhccC-------------------CCEEEEEEe
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKKL-------------------FDRVVFSEV  220 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-------------------f~~~~wv~~  220 (1085)
                      ++++|.+..++.|..++..+++ ..+.++|..|+||||+|+.+.+.......                   |.-+++++.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEIDA   95 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMDA   95 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEecc
Confidence            5689999999999999886665 45579999999999999999887643211                   112333333


Q ss_pred             CCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe
Q 037935          221 SQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLK----NENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI  294 (1085)
Q Consensus       221 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv  294 (1085)
                      +....+.+                     +..+.+...    .++.-++|+|+++...  .++.+...+-.-....++|+
T Consensus        96 as~rgVDd---------------------IReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FIL  154 (830)
T PRK07003         96 ASNRGVDE---------------------MAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFIL  154 (830)
T ss_pred             cccccHHH---------------------HHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEE
Confidence            22222211                     222222211    2455688899998763  35544433322222333333


Q ss_pred             ---------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCch-HHHHH
Q 037935          295 ---------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLP-IALTT  339 (1085)
Q Consensus       295 ---------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-lai~~  339 (1085)
                                           .+++.++..+.+...+.... ..-..+..+.|++.++|.. -|+..
T Consensus       155 aTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~Eg-I~id~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        155 ATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEER-IAFEPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             EECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence                                 88899999888888764211 1223566788899998855 44444

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.85  E-value=0.00042  Score=79.16  Aligned_cols=179  Identities=18%  Similarity=0.192  Sum_probs=98.7

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhccC-------------------CCEEEEEEe
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKKL-------------------FDRVVFSEV  220 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-------------------f~~~~wv~~  220 (1085)
                      +.++|.+...+.+...+..+.+ ..+.++|++|+||||+|+.+.+.......                   +..+..++.
T Consensus        14 ~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~a   93 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELDA   93 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEeC
Confidence            5689999888888888776666 45789999999999999999887643210                   111233333


Q ss_pred             CCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc--ccccccccccCCC------------
Q 037935          221 SQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY--LDLDTIGIPFGND------------  286 (1085)
Q Consensus       221 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~--~~~~~~~~~~~~~------------  286 (1085)
                      +....+..+ +++.+.....               .. .+++-++|+|+++..  ...+.+...+...            
T Consensus        94 a~~~gid~i-R~i~~~~~~~---------------p~-~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn  156 (472)
T PRK14962         94 ASNRGIDEI-RKIRDAVGYR---------------PM-EGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTN  156 (472)
T ss_pred             cccCCHHHH-HHHHHHHhhC---------------hh-cCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCC
Confidence            322233222 2232222110               01 145556777776543  1122221111110            


Q ss_pred             ---------CCCcEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhC-CchHHHHHHHHHHh--c--CCHHHH
Q 037935          287 ---------HEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACG-GLPIALTTVARALR--N--KSLHEW  352 (1085)
Q Consensus       287 ---------~~gs~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~-glPlai~~~~~~l~--~--~~~~~w  352 (1085)
                               .+...+-+.+++.++....+...+... ...--++....|++.++ +++.|+..+..+..  +  .+.+..
T Consensus       157 ~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~e-gi~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~~~It~e~V  235 (472)
T PRK14962        157 LEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAE-GIEIDREALSFIAKRASGGLRDALTMLEQVWKFSEGKITLETV  235 (472)
T ss_pred             hHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCHHHH
Confidence                     111222238899999888888776311 11223566788888775 45677766655433  1  255555


Q ss_pred             HHHHH
Q 037935          353 KNALR  357 (1085)
Q Consensus       353 ~~~~~  357 (1085)
                      +.++.
T Consensus       236 ~~~l~  240 (472)
T PRK14962        236 HEALG  240 (472)
T ss_pred             HHHHc
Confidence            55443

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.83  E-value=0.00012  Score=76.85  Aligned_cols=113  Identities=26%  Similarity=0.334  Sum_probs=81.4

Q ss_pred             ccccchHHHHHHHHHHhccCC---ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVN---VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKL  237 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~---~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  237 (1085)
                      ..|.+|+.+++.+...+.+..   ...|.|+|-+|.|||.+.+++.+....     ..+|+++-.-++.+.++..|+.+.
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~-----~~vw~n~~ecft~~~lle~IL~~~   80 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKILNKS   80 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHHHHHh
Confidence            457899999999999887432   245689999999999999999998743     268999999999999999999999


Q ss_pred             CCCCCCc--hH--HHHHHHHHHHHH-------cCCcEEEEEeCCCCcccccc
Q 037935          238 GLELSDE--AE--YRRASRLYERLK-------NENKILVILDNIWKYLDLDT  278 (1085)
Q Consensus       238 ~~~~~~~--~~--~~~~~~~~~~l~-------~~~~~LlvlDdv~~~~~~~~  278 (1085)
                      +....+.  .+  .+........+.       .++.++||||+++...+.+.
T Consensus        81 ~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a  132 (438)
T KOG2543|consen   81 QLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDA  132 (438)
T ss_pred             ccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccch
Confidence            6322211  11  122222222222       25689999999987654443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=97.82  E-value=0.00028  Score=81.30  Aligned_cols=48  Identities=25%  Similarity=0.283  Sum_probs=40.6

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..++|++..++.+..++..+++. .+-++|+.|+||||+|+.+.+....
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C   64 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINC   64 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            56889999999999988765554 6889999999999999999987653

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

Probab=97.81  E-value=9e-05  Score=88.69  Aligned_cols=47  Identities=32%  Similarity=0.469  Sum_probs=37.9

Q ss_pred             ccccchHHHHH---HHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLK---SIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~---~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.|+|++..+.   .+...+..+....+.++|++|+||||+|+.+++...
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~   77 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTR   77 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            45788887764   455666667777889999999999999999998765

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.81  E-value=0.00023  Score=79.76  Aligned_cols=168  Identities=12%  Similarity=0.130  Sum_probs=94.1

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      ++++|.+..++.+..++..+++. .+.++|+.|+||||+|+.+++..........   ..+....+    .+.+......
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~---~pCg~C~s----C~~i~~g~~~   90 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGN---EPCNECTS----CLEITKGISS   90 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCc---cccCCCcH----HHHHHccCCc
Confidence            45899999999998888876664 5789999999999999999987653211110   00110001    1122111110


Q ss_pred             CC-----CCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCc--ccccccccccCCCCCCcEEEe--------------
Q 037935          240 EL-----SDEAEYRRASRLYERLK----NENKILVILDNIWKY--LDLDTIGIPFGNDHEGYNFLI--------------  294 (1085)
Q Consensus       240 ~~-----~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~--~~~~~~~~~~~~~~~gs~ilv--------------  294 (1085)
                      ..     ......+.+..+.+.+.    .++.-++|+|+++..  ..++.+...+-. ..+..++|              
T Consensus        91 dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEE-Pp~~viFILaTte~~kI~~TI~  169 (484)
T PRK14956         91 DVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEE-PPAHIVFILATTEFHKIPETIL  169 (484)
T ss_pred             cceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhc-CCCceEEEeecCChhhccHHHH
Confidence            00     00001112222322222    356779999999865  345555433322 22233322              


Q ss_pred             --------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHH
Q 037935          295 --------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIAL  337 (1085)
Q Consensus       295 --------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  337 (1085)
                              .+++.++..+.+...+... ...--++....|++.++|-+.-+
T Consensus       170 SRCq~~~f~~ls~~~i~~~L~~i~~~E-gi~~e~eAL~~Ia~~S~Gd~RdA  219 (484)
T PRK14956        170 SRCQDFIFKKVPLSVLQDYSEKLCKIE-NVQYDQEGLFWIAKKGDGSVRDM  219 (484)
T ss_pred             hhhheeeecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCChHHHH
Confidence                    7888888877777765311 11223566788888888877443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.80  E-value=0.00014  Score=75.92  Aligned_cols=55  Identities=15%  Similarity=0.296  Sum_probs=40.8

Q ss_pred             hHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          166 RVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       166 r~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      .+..++.+..++.....+.+.|+|.+|+|||++|+.+++.....  ....++++++.
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~--~~~~~~i~~~~   76 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEER--GKSAIYLPLAE   76 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEeHHH
Confidence            45567777777655566789999999999999999999876533  33456666543

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.77  E-value=0.00057  Score=78.37  Aligned_cols=155  Identities=14%  Similarity=0.183  Sum_probs=93.7

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhccCCC-----------------------EEE
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKKLFD-----------------------RVV  216 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~-----------------------~~~  216 (1085)
                      .+++|-+..++.+...+..+++ ..+-++|+.|+||||+|+.+++.........                       -++
T Consensus        21 ~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~Dv~  100 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDII  100 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCCcEE
Confidence            4578999988888887765554 5788999999999999999999765321110                       111


Q ss_pred             EEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCc--ccccccccccCCCCCCc
Q 037935          217 FSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLK----NENKILVILDNIWKY--LDLDTIGIPFGNDHEGY  290 (1085)
Q Consensus       217 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~--~~~~~~~~~~~~~~~gs  290 (1085)
                      .++......+.                     .+..+.+...    .+++-++|+|+++..  ..++.+...+.......
T Consensus       101 eidaas~~~vd---------------------~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~  159 (507)
T PRK06645        101 EIDAASKTSVD---------------------DIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHI  159 (507)
T ss_pred             EeeccCCCCHH---------------------HHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCE
Confidence            12221111111                     1222222221    356778999999875  33555544443322233


Q ss_pred             EEEe---------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHH
Q 037935          291 NFLI---------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIAL  337 (1085)
Q Consensus       291 ~ilv---------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  337 (1085)
                      ++|+                     .+++.++..+.+...+.... .....+....|++.++|.+--+
T Consensus       160 vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~eg-i~ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        160 IFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQEN-LKTDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             EEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            3332                     88889999888887773211 1122456678999998876433

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.77  E-value=0.00051  Score=76.48  Aligned_cols=155  Identities=12%  Similarity=0.065  Sum_probs=89.3

Q ss_pred             ccccchHHHHHHHHHHhccCC----------ceEEEEEcCCCCcHHHHHHHHHHHHhhc-------------------cC
Q 037935          161 EAFESRVSTLKSIQNALTDVN----------VSIIGVYGMGGIGKTTLVKEFARQAREK-------------------KL  211 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~----------~~vi~I~G~~G~GKTtLa~~v~~~~~~~-------------------~~  211 (1085)
                      +.++|.+..++.+..++..+.          ..-+-++|+.|+|||++|+.+....-..                   .|
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~h   84 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTH   84 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            357899999999988887543          3557899999999999999998765332                   12


Q ss_pred             CCEEEEEEeC-CCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCC
Q 037935          212 FDRVVFSEVS-QTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHE  288 (1085)
Q Consensus       212 f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~  288 (1085)
                      .|. .++... ....+.++ +++.+.+....               . .+++-++|+|+++...  ..+.+...+.....
T Consensus        85 pD~-~~i~~~~~~i~i~~i-R~l~~~~~~~p---------------~-~~~~kViiIDead~m~~~aanaLLk~LEep~~  146 (394)
T PRK07940         85 PDV-RVVAPEGLSIGVDEV-RELVTIAARRP---------------S-TGRWRIVVIEDADRLTERAANALLKAVEEPPP  146 (394)
T ss_pred             CCE-EEeccccccCCHHHH-HHHHHHHHhCc---------------c-cCCcEEEEEechhhcCHHHHHHHHHHhhcCCC
Confidence            222 222111 11222221 12222221100               0 2455577788887652  22333322222222


Q ss_pred             CcEEEe---------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHH
Q 037935          289 GYNFLI---------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTT  339 (1085)
Q Consensus       289 gs~ilv---------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  339 (1085)
                      +..+|+                     .+++.++..+.+....+-      ..+.+..+++.++|.|.....
T Consensus       147 ~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~~------~~~~a~~la~~s~G~~~~A~~  212 (394)
T PRK07940        147 RTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDGV------DPETARRAARASQGHIGRARR  212 (394)
T ss_pred             CCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcCC------CHHHHHHHHHHcCCCHHHHHH
Confidence            333333                     888899988888754321      145678899999999875543

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.77  E-value=0.00037  Score=80.54  Aligned_cols=48  Identities=21%  Similarity=0.299  Sum_probs=40.9

Q ss_pred             ccccchHHHHHHHHHHhccCCceE-EEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSI-IGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ++++|-+..++.+..++..+++.- +-++|+.|+||||+|+.+.+..-.
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c   64 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNC   64 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcC
Confidence            458999999999999998766654 689999999999999999987643

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.76  E-value=0.00039  Score=78.60  Aligned_cols=175  Identities=14%  Similarity=0.143  Sum_probs=95.5

Q ss_pred             ccccchHHHHHHHHHHhccCCceE-EEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEE-eCCCcCHHHHHHHHHHHhC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSI-IGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSE-VSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~~i~~~l~  238 (1085)
                      +.++|.+..++.+..++..+.+.. +.++|+.|+||||+|+.+.+.......++...|.. +..++..-...+.+...-.
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~~~   95 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAGTS   95 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcCCC
Confidence            568899999999988888766654 78999999999999999998875432111111110 0011111111111111000


Q ss_pred             CC-----CCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe-------------
Q 037935          239 LE-----LSDEAEYRRASRLYERLK----NENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI-------------  294 (1085)
Q Consensus       239 ~~-----~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv-------------  294 (1085)
                      .+     .......+.+..+.+.+.    .+.+-++|+|+++...  .++.+...+......+.+|+             
T Consensus        96 ~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~tl~  175 (397)
T PRK14955         96 LNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIA  175 (397)
T ss_pred             CCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHHHH
Confidence            00     000011122223333331    2566688999987653  45555444443333444443             


Q ss_pred             --------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHH
Q 037935          295 --------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIA  336 (1085)
Q Consensus       295 --------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  336 (1085)
                              .++++++..+.+...+... ...--.+.+..|++.++|.+--
T Consensus       176 sR~~~v~f~~l~~~ei~~~l~~~~~~~-g~~i~~~al~~l~~~s~g~lr~  224 (397)
T PRK14955        176 SRCQRFNFKRIPLEEIQQQLQGICEAE-GISVDADALQLIGRKAQGSMRD  224 (397)
T ss_pred             HHHHHhhcCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHH
Confidence                    7777777777777665211 1112256678888888886643

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=97.75  E-value=1.3e-06  Score=87.39  Aligned_cols=41  Identities=22%  Similarity=0.278  Sum_probs=20.0

Q ss_pred             ccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchH
Q 037935          710 CFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQ  752 (1085)
Q Consensus       710 ~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~  752 (1085)
                      .+++|+.|.|.+...-..+  ...+.+-.+|+.|+++.|..+.
T Consensus       208 ~C~kLk~lSlEg~~LdD~I--~~~iAkN~~L~~lnlsm~sG~t  248 (419)
T KOG2120|consen  208 QCSKLKNLSLEGLRLDDPI--VNTIAKNSNLVRLNLSMCSGFT  248 (419)
T ss_pred             HHHhhhhccccccccCcHH--HHHHhccccceeeccccccccc
Confidence            4455555555554322222  2234555556666666555443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.74  E-value=0.00031  Score=82.30  Aligned_cols=172  Identities=13%  Similarity=0.117  Sum_probs=92.5

Q ss_pred             ccccchHHHHHHHHHHhccCCceE-EEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhC-
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSI-IGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLG-  238 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~-  238 (1085)
                      ++++|.+..++.+...+..+++.. +.++|..|+||||+|+.+.+..-....+.       ...+..-...+.|...-. 
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~-------~~pCg~C~~C~~i~~g~~~   88 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGIT-------ATPCGECDNCREIEQGRFV   88 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCC-------CCCCCCCHHHHHHHcCCCC
Confidence            568999999999999888766644 57899999999999999988765421110       001111111111110000 


Q ss_pred             ----CCCCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe--------------
Q 037935          239 ----LELSDEAEYRRASRLYERLK----NENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI--------------  294 (1085)
Q Consensus       239 ----~~~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv--------------  294 (1085)
                          .+.......+.+..+.+.+.    .+++-++|+|+++...  ..+.+...+-.-....++|+              
T Consensus        89 D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~S  168 (647)
T PRK07994         89 DLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILS  168 (647)
T ss_pred             CceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHh
Confidence                00000001111222222211    3667788999987652  23333222211111111111              


Q ss_pred             -------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHH
Q 037935          295 -------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTV  340 (1085)
Q Consensus       295 -------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~  340 (1085)
                             .+++.++..+.+....... ......+....|++.++|.+--+..+
T Consensus       169 RC~~~~f~~Ls~~ei~~~L~~il~~e-~i~~e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        169 RCLQFHLKALDVEQIRQQLEHILQAE-QIPFEPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             hheEeeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence                   8999999988888766211 11222456678999999977644433

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.72  E-value=0.00065  Score=76.15  Aligned_cols=50  Identities=26%  Similarity=0.368  Sum_probs=40.0

Q ss_pred             CCCccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          158 KGYEAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       158 ~~~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+.+.|++..++++.+.+.    .         ...+-+.++|++|+|||++|+++++...
T Consensus       119 ~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~  181 (364)
T TIGR01242       119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN  181 (364)
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCC
Confidence            334568899999999988764    1         1245689999999999999999999765

Many proteins may score above the trusted cutoff because an internal

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.71  E-value=0.00088  Score=75.42  Aligned_cols=47  Identities=21%  Similarity=0.352  Sum_probs=40.1

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|.+..++.+.+++..++. ..+-++|+.|+||||+|+.+.....
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~   61 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALN   61 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4678999999999999876655 4677899999999999999988764

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.

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.70  E-value=0.0017  Score=67.63  Aligned_cols=105  Identities=19%  Similarity=0.322  Sum_probs=74.3

Q ss_pred             HHHHHHHHhc---cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCC----EEEEEEeCCCcCHHHHHHHHHHHhCCCC
Q 037935          169 TLKSIQNALT---DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFD----RVVFSEVSQTPDIKKIQGEIAEKLGLEL  241 (1085)
Q Consensus       169 ~~~~l~~~l~---~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~----~~~wv~~~~~~~~~~~~~~i~~~l~~~~  241 (1085)
                      .++++.+.+.   ....+-+.|||.+|+|||++++.+.........=+    .++.|.....++...+...|+.+++.+.
T Consensus        45 ~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~  124 (302)
T PF05621_consen   45 ALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPY  124 (302)
T ss_pred             HHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCccc
Confidence            3444555554   34557799999999999999999998664321111    3677888999999999999999999887


Q ss_pred             CCchHHHH-HHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          242 SDEAEYRR-ASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       242 ~~~~~~~~-~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      ........ ......-++.-+--+||+|++.+.
T Consensus       125 ~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~l  157 (302)
T PF05621_consen  125 RPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNL  157 (302)
T ss_pred             CCCCCHHHHHHHHHHHHHHcCCcEEEeechHHH
Confidence            54433332 233344455556678999999764

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=97.70  E-value=0.0005  Score=80.15  Aligned_cols=47  Identities=26%  Similarity=0.395  Sum_probs=40.4

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.++|.+..++.|..++..+++ ..+.++|..|+||||+|+.+.+...
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~Ln   63 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLN   63 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc
Confidence            5689999999999999886665 4678999999999999999988654

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.69  E-value=0.00059  Score=77.50  Aligned_cols=158  Identities=12%  Similarity=0.124  Sum_probs=90.2

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhhc-------------------cCCCEEEEEEe
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAREK-------------------KLFDRVVFSEV  220 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~~-------------------~~f~~~~wv~~  220 (1085)
                      ++++|.+...+.+..++..+++. .+-++|+.|+||||+|+.+.+..-..                   +.+.-++.++.
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eida   92 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDA   92 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEec
Confidence            46889999888888888766665 78899999999999999998754211                   11112344444


Q ss_pred             CCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe----
Q 037935          221 SQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI----  294 (1085)
Q Consensus       221 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv----  294 (1085)
                      +....+.++ +++++.....               -. .+++-++|+|++....  ..+.+...+..-....++|+    
T Consensus        93 as~~~vddI-R~Iie~~~~~---------------P~-~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte  155 (491)
T PRK14964         93 ASNTSVDDI-KVILENSCYL---------------PI-SSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTE  155 (491)
T ss_pred             ccCCCHHHH-HHHHHHHHhc---------------cc-cCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCC
Confidence            433333332 2222222100               00 2556678888886542  23444333332223333333    


Q ss_pred             -----------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHH
Q 037935          295 -----------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIA  336 (1085)
Q Consensus       295 -----------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla  336 (1085)
                                       .+++.++..+.+...+.... ..--++....|++.++|-+..
T Consensus       156 ~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Eg-i~i~~eAL~lIa~~s~GslR~  213 (491)
T PRK14964        156 VKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKEN-IEHDEESLKLIAENSSGSMRN  213 (491)
T ss_pred             hHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHH
Confidence                             67777777777776653211 112245566778888776643

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.69  E-value=1.1e-06  Score=98.34  Aligned_cols=134  Identities=19%  Similarity=0.206  Sum_probs=103.7

Q ss_pred             cccccceEEEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCch-hhhccccc
Q 037935          489 DALKKCYAISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKL  566 (1085)
Q Consensus       489 ~~~~~~r~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~-~i~~L~~L  566 (1085)
                      ..|.++...++++|.+..+..++ -++.|++|+|++|.   ..++.  ++..+.+|+.|||++|.+..+|. ....+. |
T Consensus       161 ~~Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk---~~~v~--~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~-L  234 (1096)
T KOG1859|consen  161 PVWNKLATASFSYNRLVLMDESLQLLPALESLNLSHNK---FTKVD--NLRRLPKLKHLDLSYNCLRHVPQLSMVGCK-L  234 (1096)
T ss_pred             hhhhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhh---hhhhH--HHHhcccccccccccchhccccccchhhhh-h
Confidence            34556777888888877666555 45889999999987   45544  47889999999999999998884 223344 9


Q ss_pred             cEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCC
Q 037935          567 RMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPD  641 (1085)
Q Consensus       567 ~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  641 (1085)
                      +.|++++| .++.+-.  +.+|.+|+.||+++|-+.          ....+.-++.|..|+.|.+.+|.+..-|.
T Consensus       235 ~~L~lrnN-~l~tL~g--ie~LksL~~LDlsyNll~----------~hseL~pLwsLs~L~~L~LeGNPl~c~p~  296 (1096)
T KOG1859|consen  235 QLLNLRNN-ALTTLRG--IENLKSLYGLDLSYNLLS----------EHSELEPLWSLSSLIVLWLEGNPLCCAPW  296 (1096)
T ss_pred             eeeeeccc-HHHhhhh--HHhhhhhhccchhHhhhh----------cchhhhHHHHHHHHHHHhhcCCccccCHH
Confidence            99999999 8888875  699999999999999874          33456667888889999999988765543

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.68  E-value=0.0011  Score=73.29  Aligned_cols=174  Identities=14%  Similarity=0.022  Sum_probs=95.8

Q ss_pred             CCccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEE------EEEeCCCcCHHHHHH
Q 037935          159 GYEAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVV------FSEVSQTPDIKKIQG  231 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~------wv~~~~~~~~~~~~~  231 (1085)
                      ....++|.+...+.+.+.+..+++. .+-++|+.|+||+|+|..+.+..-.+.......      =..+...+   ...+
T Consensus        17 ~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c---~~c~   93 (365)
T PRK07471         17 ETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDH---PVAR   93 (365)
T ss_pred             chhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCC---hHHH
Confidence            3456899999999999998877765 488999999999999999988764322110000      00000000   1111


Q ss_pred             HHHHHhCCC---------C-----CCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCcc--cccccccccCCCCCCcE
Q 037935          232 EIAEKLGLE---------L-----SDEAEYRRASRLYERLK----NENKILVILDNIWKYL--DLDTIGIPFGNDHEGYN  291 (1085)
Q Consensus       232 ~i~~~l~~~---------~-----~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~  291 (1085)
                      .+...-..+         .     ...-..+.+..+.+.+.    .+++-++|+||++..+  ..+.+...+..-..+..
T Consensus        94 ~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~  173 (365)
T PRK07471         94 RIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSL  173 (365)
T ss_pred             HHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeE
Confidence            111000000         0     00011222333333332    3667788999987652  23333222222112222


Q ss_pred             EEe---------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHH
Q 037935          292 FLI---------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTV  340 (1085)
Q Consensus       292 ilv---------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~  340 (1085)
                      +|+                     .+++.++..+++.......     .......+++.++|.|..+..+
T Consensus       174 ~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~-----~~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        174 FLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL-----PDDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             EEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC-----CHHHHHHHHHHcCCCHHHHHHH
Confidence            222                     9999999999998765321     1222367899999999866543

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.68  E-value=0.0014  Score=71.95  Aligned_cols=176  Identities=13%  Similarity=0.051  Sum_probs=99.5

Q ss_pred             CCccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhhccC--CCEEEEEEeCCCcCHHHHHHHHHH
Q 037935          159 GYEAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAREKKL--FDRVVFSEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~~~~--f~~~~wv~~~~~~~~~~~~~~i~~  235 (1085)
                      ....++|-+...+.+...+..+.+. .+.|+|..|+||||+|..+.+..-....  +...   .....+.-....+.+..
T Consensus        21 ~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~~i~~   97 (351)
T PRK09112         21 ENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWRQIAQ   97 (351)
T ss_pred             chhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHHHHHc
Confidence            4456899999999999998866654 5889999999999999999987754210  1110   00111111122233322


Q ss_pred             H-------hCCCC-------CCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCcc--cccccccccCCCCCCcE----
Q 037935          236 K-------LGLEL-------SDEAEYRRASRLYERLK----NENKILVILDNIWKYL--DLDTIGIPFGNDHEGYN----  291 (1085)
Q Consensus       236 ~-------l~~~~-------~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~----  291 (1085)
                      .       +..+.       ...-..+.+..+.+.+.    .+++-++|+|+++...  ..+.+...+.....+..    
T Consensus        98 ~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLi  177 (351)
T PRK09112         98 GAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILI  177 (351)
T ss_pred             CCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEE
Confidence            1       10000       00111222333444333    3677789999998652  22222222211111111    


Q ss_pred             -----------------EEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHH
Q 037935          292 -----------------FLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTV  340 (1085)
Q Consensus       292 -----------------ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~  340 (1085)
                                       +-+.|++.++..+++...... ..  -..+....+++.++|.|.....+
T Consensus       178 t~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~-~~--~~~~~~~~i~~~s~G~pr~Al~l  240 (351)
T PRK09112        178 SHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSS-QG--SDGEITEALLQRSKGSVRKALLL  240 (351)
T ss_pred             ECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcc-cC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence                             112999999999999874321 11  22456788999999999866543

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

Probab=97.68  E-value=0.00054  Score=78.17  Aligned_cols=130  Identities=20%  Similarity=0.191  Sum_probs=78.9

Q ss_pred             ccccchHHHHHHHHHHhc------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALT------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      .+-+|-++.+++|+++|.      .-+-+++++||++|||||.|++.+++....+  |   +-++++.-.+..++-..--
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rk--f---vR~sLGGvrDEAEIRGHRR  397 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRK--F---VRISLGGVRDEAEIRGHRR  397 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCC--E---EEEecCccccHHHhccccc
Confidence            456799999999999986      2244799999999999999999999988754  5   2344555445444433332


Q ss_pred             HHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcccccccccccCCCCCCcEEEecCCCHHHHHHHHHHhc
Q 037935          235 EKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMN  310 (1085)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv~~l~~~~~~~lf~~~~  310 (1085)
                      ..+|.-      ...+.+-..+. +.+.=+++||.|+...      ..+ .+. -+..+++.|++++--.+-.++.
T Consensus       398 TYIGam------PGrIiQ~mkka-~~~NPv~LLDEIDKm~------ss~-rGD-PaSALLEVLDPEQN~~F~DhYL  458 (782)
T COG0466         398 TYIGAM------PGKIIQGMKKA-GVKNPVFLLDEIDKMG------SSF-RGD-PASALLEVLDPEQNNTFSDHYL  458 (782)
T ss_pred             cccccC------ChHHHHHHHHh-CCcCCeEEeechhhcc------CCC-CCC-hHHHHHhhcCHhhcCchhhccc
Confidence            333221      12222333333 3677899999986542      111 111 2223446666665555444444

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=97.67  E-value=0.00092  Score=67.22  Aligned_cols=37  Identities=22%  Similarity=0.238  Sum_probs=28.8

Q ss_pred             HHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          172 SIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       172 ~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .+.+.+..+++ ..+.++|+.|+||||+|+.+.+..-.
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~   40 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLC   40 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcC
Confidence            34555555556 57889999999999999999887653

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.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.67  E-value=0.00061  Score=79.72  Aligned_cols=47  Identities=23%  Similarity=0.355  Sum_probs=39.6

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++++|-+..++.|..++..+++ ..+-++|..|+||||+|+.+.+..-
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~Ln   63 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLN   63 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5688999989999998887666 4568999999999999999987654

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.66  E-value=0.00095  Score=77.78  Aligned_cols=157  Identities=13%  Similarity=0.149  Sum_probs=89.6

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhhcc-------------------CCCEEEEEEe
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAREKK-------------------LFDRVVFSEV  220 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~~~-------------------~f~~~~wv~~  220 (1085)
                      .+++|.+..++.+..++..+++. .+.++|+.|+||||+|+.+.+..-...                   .|.-++++..
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~~   95 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVDA   95 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEeec
Confidence            45789999999999988876665 457999999999999999988764321                   1212233332


Q ss_pred             CCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe----
Q 037935          221 SQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI----  294 (1085)
Q Consensus       221 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv----  294 (1085)
                      +....+.+ .++++..+....                ..+++-++|+|+++...  ..+.+...+........+|+    
T Consensus        96 ~~~~~vd~-ir~l~~~~~~~p----------------~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d  158 (527)
T PRK14969         96 ASNTQVDA-MRELLDNAQYAP----------------TRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTD  158 (527)
T ss_pred             cccCCHHH-HHHHHHHHhhCc----------------ccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCC
Confidence            22222222 122222221100                02567789999987653  23444333333222333333    


Q ss_pred             -----------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchH
Q 037935          295 -----------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPI  335 (1085)
Q Consensus       295 -----------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  335 (1085)
                                       .+++.++..+.+...+.... .....+....|++.++|.+-
T Consensus       159 ~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~eg-i~~~~~al~~la~~s~Gslr  215 (527)
T PRK14969        159 PQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQEN-IPFDATALQLLARAAAGSMR  215 (527)
T ss_pred             hhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHH
Confidence                             66777777766666552111 11224556778888888664

>PRK06893 DNA replication initiation factor; Validated

Probab=97.66  E-value=0.00077  Score=69.86  Aligned_cols=39  Identities=15%  Similarity=0.246  Sum_probs=30.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS  221 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  221 (1085)
                      ..+.+.|+|++|+|||+|++++++....+  ...+.|+++.
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~--~~~~~y~~~~   76 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLN--QRTAIYIPLS   76 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEeeHH
Confidence            34678999999999999999999987654  3346777764

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

Probab=97.65  E-value=0.00035  Score=71.30  Aligned_cols=167  Identities=19%  Similarity=0.187  Sum_probs=105.0

Q ss_pred             CCccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEE-EEEeCCCcCHHHHHHHHHHHh
Q 037935          159 GYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVV-FSEVSQTPDIKKIQGEIAEKL  237 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~-wv~~~~~~~~~~~~~~i~~~l  237 (1085)
                      ..+.+.|.+..+..+.+.+.....++...+|++|.|||+-|..++...-..+.|.+.+ =.++|......-+-..+ .  
T Consensus        34 t~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Ki-k--  110 (346)
T KOG0989|consen   34 TFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKI-K--  110 (346)
T ss_pred             cHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhh-c--
Confidence            3456889999999999998877889999999999999999999998776655666543 34555433322110000 0  


Q ss_pred             CCCCCCchHHHHHHHHHHHH-----HcCCc-EEEEEeCCCCc--ccccccccccCCCCCCcEEEe---------------
Q 037935          238 GLELSDEAEYRRASRLYERL-----KNENK-ILVILDNIWKY--LDLDTIGIPFGNDHEGYNFLI---------------  294 (1085)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~l-----~~~~~-~LlvlDdv~~~--~~~~~~~~~~~~~~~gs~ilv---------------  294 (1085)
                                 ....+....     ..-++ -++|||+++..  +.|..++........-++.++               
T Consensus       111 -----------~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SR  179 (346)
T KOG0989|consen  111 -----------NFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSR  179 (346)
T ss_pred             -----------CHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhh
Confidence                       011111000     01233 47888999876  578877666554333444333               


Q ss_pred             ------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCc-hHHHHHH
Q 037935          295 ------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGL-PIALTTV  340 (1085)
Q Consensus       295 ------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-Plai~~~  340 (1085)
                            .+|.+++...-++..+.... -.--.+..+.|++.++|- --|+.++
T Consensus       180 C~KfrFk~L~d~~iv~rL~~Ia~~E~-v~~d~~al~~I~~~S~GdLR~Ait~L  231 (346)
T KOG0989|consen  180 CQKFRFKKLKDEDIVDRLEKIASKEG-VDIDDDALKLIAKISDGDLRRAITTL  231 (346)
T ss_pred             HHHhcCCCcchHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHcCCcHHHHHHHH
Confidence                  88888888888888773221 122256678899998883 4444443

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.61  E-value=2.8e-05  Score=80.34  Aligned_cols=93  Identities=18%  Similarity=0.222  Sum_probs=58.1

Q ss_pred             ccccceEEEeeccCccc-----ccccC-CCCCcceeeeccCCCc-cccccCh------hhhcCCCcceEEEecCCcccC-
Q 037935          490 ALKKCYAISLLNSSIHE-----VSLEF-ECPQLEFLHIDPKITF-AELNIPD------NFFKGMKKLRVVDLTRVRLFS-  555 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~-----l~~~~-~~~~Lr~L~l~~~~~~-~~~~l~~------~~~~~l~~Lr~L~Ls~~~i~~-  555 (1085)
                      ....+..+.+++|.+..     +...+ +.++||.-++++-..- ....+|+      ..+.++++|++||||.|-+.. 
T Consensus        28 ~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~  107 (382)
T KOG1909|consen   28 PMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPK  107 (382)
T ss_pred             ccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCcc
Confidence            34478889999987632     22211 4457777777654210 0122332      234567799999999997642 


Q ss_pred             ----CchhhhccccccEEeccCcccccccchh
Q 037935          556 ----LPSSIGQLTKLRMLDLTDCLQLKFIVPN  583 (1085)
Q Consensus       556 ----lp~~i~~L~~L~~L~Ls~~~~l~~lp~~  583 (1085)
                          +-.-|..++.|++|.|.+| .+...-..
T Consensus       108 g~~~l~~ll~s~~~L~eL~L~N~-Glg~~ag~  138 (382)
T KOG1909|consen  108 GIRGLEELLSSCTDLEELYLNNC-GLGPEAGG  138 (382)
T ss_pred             chHHHHHHHHhccCHHHHhhhcC-CCChhHHH
Confidence                2345677899999999999 77654433

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.60  E-value=3.6e-05  Score=77.45  Aligned_cols=84  Identities=20%  Similarity=0.306  Sum_probs=57.2

Q ss_pred             cCCCcceEEEecCCcccC---CchhhhccccccEEeccCccccc----ccchhhhhccccCCEEeccCCCcchhhcccCC
Q 037935          538 KGMKKLRVVDLTRVRLFS---LPSSIGQLTKLRMLDLTDCLQLK----FIVPNILSSFTRLEELYMGSCSIKWEVRKGNS  610 (1085)
Q Consensus       538 ~~l~~Lr~L~Ls~~~i~~---lp~~i~~L~~L~~L~Ls~~~~l~----~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~  610 (1085)
                      ...++++.|||.+|.|+.   +-.-+.+|++|++|+|++| .+.    ++|    ..+.+|++|-|.++.+.|.      
T Consensus        68 ~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N-~L~s~I~~lp----~p~~nl~~lVLNgT~L~w~------  136 (418)
T KOG2982|consen   68 SSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCN-SLSSDIKSLP----LPLKNLRVLVLNGTGLSWT------  136 (418)
T ss_pred             HHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCC-cCCCccccCc----ccccceEEEEEcCCCCChh------
Confidence            456788899999998865   3334578899999999988 443    333    2456888888888887542      


Q ss_pred             ccccccHHHhhcCCCCcEEEEEeccC
Q 037935          611 ERSNASLDELMHLQRLTTLEIDVEDD  636 (1085)
Q Consensus       611 ~~~~~~~~~l~~L~~L~~L~l~~~~~  636 (1085)
                          ..-..+..++.++.|+++.|..
T Consensus       137 ----~~~s~l~~lP~vtelHmS~N~~  158 (418)
T KOG2982|consen  137 ----QSTSSLDDLPKVTELHMSDNSL  158 (418)
T ss_pred             ----hhhhhhhcchhhhhhhhccchh
Confidence                1223456677777777776644

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

Probab=97.60  E-value=8.9e-06  Score=93.07  Aligned_cols=101  Identities=23%  Similarity=0.318  Sum_probs=61.3

Q ss_pred             hcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCcccccc
Q 037935          537 FKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNAS  616 (1085)
Q Consensus       537 ~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~  616 (1085)
                      ...+++|.+|++.+|.|..+...+..+++|++|++++| .|+.+..  +..+..|+.|++.+|.+.             .
T Consensus        91 l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N-~I~~i~~--l~~l~~L~~L~l~~N~i~-------------~  154 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFN-KITKLEG--LSTLTLLKELNLSGNLIS-------------D  154 (414)
T ss_pred             cccccceeeeeccccchhhcccchhhhhcchheecccc-ccccccc--hhhccchhhheeccCcch-------------h
Confidence            45566677777777766666544666677777777776 6666655  466666777777777653             2


Q ss_pred             HHHhhcCCCCcEEEEEeccCCCCCCc--ccccccceeeE
Q 037935          617 LDELMHLQRLTTLEIDVEDDSILPDG--LFTKKLERFDI  653 (1085)
Q Consensus       617 ~~~l~~L~~L~~L~l~~~~~~~~~~~--~~l~~L~~L~l  653 (1085)
                      +..+..+++|+.+++++|.+..+...  -.+.+++.+.+
T Consensus       155 ~~~~~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l  193 (414)
T KOG0531|consen  155 ISGLESLKSLKLLDLSYNRIVDIENDELSELISLEELDL  193 (414)
T ss_pred             ccCCccchhhhcccCCcchhhhhhhhhhhhccchHHHhc
Confidence            23344466666666666666655552  23444444444

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

Probab=97.56  E-value=0.006  Score=61.91  Aligned_cols=50  Identities=20%  Similarity=0.296  Sum_probs=42.5

Q ss_pred             CccccchHHHHHHHHHHhc-----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          160 YEAFESRVSTLKSIQNALT-----DVNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      -.+|+|.++.++++.=++.     .+.+-.+-++|++|.||||||.-++++..+.
T Consensus        25 l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn   79 (332)
T COG2255          25 LDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN   79 (332)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCC
Confidence            4569999998888765554     4567899999999999999999999998865

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.53  E-value=0.00023  Score=76.25  Aligned_cols=219  Identities=23%  Similarity=0.278  Sum_probs=137.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCC-CEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLF-DRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN  259 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~  259 (1085)
                      ..+-+.++|.|||||||++-.+.. ...  .| +.+.++...+-.+...+.-.....++.......  .....+..+.. 
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~~--~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g~--~~~~~~~~~~~-   86 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AAS--EYADGVAFVDLAPITDPALVFPTLAGALGLHVQPGD--SAVDTLVRRIG-   86 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-Hhh--hcccceeeeeccccCchhHhHHHHHhhcccccccch--HHHHHHHHHHh-
Confidence            458899999999999999999988 442  36 457777777777888888888887877654311  11333444443 


Q ss_pred             CCcEEEEEeCCCCccc-ccccccccCCCCCCcEEEe----------------cCCCH-HHHHHHHHHhcCCC----CCCC
Q 037935          260 ENKILVILDNIWKYLD-LDTIGIPFGNDHEGYNFLI----------------GNLSE-EEAWRLFKIMNGDD----VENC  317 (1085)
Q Consensus       260 ~~~~LlvlDdv~~~~~-~~~~~~~~~~~~~gs~ilv----------------~~l~~-~~~~~lf~~~~~~~----~~~~  317 (1085)
                      .+|.++|+||-.+..+ -..+...+..+...-.|+.                .+|+. +++.++|...+...    .-..
T Consensus        87 ~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~~  166 (414)
T COG3903          87 DRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILVAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWLTD  166 (414)
T ss_pred             hhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcccccccccCCccccCCchhHHHHHHHHHhccceeecC
Confidence            8999999999755411 0001011111111111111                44443 37888887776311    1122


Q ss_pred             CchHHHHHHHHHhCCchHHHHHHHHHHhcCCHHHHHHHHHH----hcCCCCCCCCCCcccchhhHHHHHhcCChHHHHHH
Q 037935          318 KFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRE----LQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKI  393 (1085)
Q Consensus       318 ~~~~~~~~i~~~~~glPlai~~~~~~l~~~~~~~w~~~~~~----l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~c  393 (1085)
                      ........|.++..|.|++|...++..+.....+-...++.    +..-. .....-.+-....+.+||.-|.. -.+--
T Consensus       167 ~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~-r~a~~~~qtl~asl~ws~~lLtg-we~~~  244 (414)
T COG3903         167 DNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGA-RLAVLRQQTLRASLDWSYALLTG-WERAL  244 (414)
T ss_pred             CchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhccc-ccchhHHHhccchhhhhhHhhhh-HHHHH
Confidence            33677899999999999999999999886655554433331    11110 00111124467889999999987 46778


Q ss_pred             HHhccccCCCCCHH
Q 037935          394 FLLCSLIGNSFYLI  407 (1085)
Q Consensus       394 f~~~s~fp~~i~~~  407 (1085)
                      |.-++.|.-.|+.+
T Consensus       245 ~~rLa~~~g~f~~~  258 (414)
T COG3903         245 FGRLAVFVGGFDLG  258 (414)
T ss_pred             hcchhhhhhhhccc
Confidence            88888887776665

>PF14516 AAA_35: AAA-like domain

Probab=97.51  E-value=0.0082  Score=66.02  Aligned_cols=179  Identities=15%  Similarity=0.217  Sum_probs=111.6

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-----cCHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-----PDIKKIQGEIA  234 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-----~~~~~~~~~i~  234 (1085)
                      ...+++|...-+++.+.+.+. -..+.|.|+-.+|||+|...+.+..+.+ .+ .++++++..-     .+..++++.++
T Consensus        10 ~~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~~~-~~-~~v~id~~~~~~~~~~~~~~f~~~~~   86 (331)
T PF14516_consen   10 SPFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQQQ-GY-RCVYIDLQQLGSAIFSDLEQFLRWFC   86 (331)
T ss_pred             CCcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHHHC-CC-EEEEEEeecCCCcccCCHHHHHHHHH
Confidence            345689986667777777642 4689999999999999999999888754 34 3557877642     24555555554


Q ss_pred             ----HHhCCCCCCc-------hHHHHHHHHH-HHHH--cCCcEEEEEeCCCCccc------------------------c
Q 037935          235 ----EKLGLELSDE-------AEYRRASRLY-ERLK--NENKILVILDNIWKYLD------------------------L  276 (1085)
Q Consensus       235 ----~~l~~~~~~~-------~~~~~~~~~~-~~l~--~~~~~LlvlDdv~~~~~------------------------~  276 (1085)
                          ++++.+..-.       .......... +.+.  .+++.+|++|+|+....                        |
T Consensus        87 ~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~  166 (331)
T PF14516_consen   87 EEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIW  166 (331)
T ss_pred             HHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCccc
Confidence                4554432100       0011112222 2222  27899999999975421                        1


Q ss_pred             cccccccCC--------C------CCCcEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHH
Q 037935          277 DTIGIPFGN--------D------HEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVAR  342 (1085)
Q Consensus       277 ~~~~~~~~~--------~------~~gs~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~  342 (1085)
                      ..+...+..        .      +-|..|-+++++.+|...|...+....     -.+..++|...+||+|.-+..++.
T Consensus       167 ~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~-----~~~~~~~l~~~tgGhP~Lv~~~~~  241 (331)
T PF14516_consen  167 QKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEF-----SQEQLEQLMDWTGGHPYLVQKACY  241 (331)
T ss_pred             ceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccC-----CHHHHHHHHHHHCCCHHHHHHHHH
Confidence            111000000        0      112223339999999999998875321     133389999999999999999999


Q ss_pred             HHhc
Q 037935          343 ALRN  346 (1085)
Q Consensus       343 ~l~~  346 (1085)
                      .+..
T Consensus       242 ~l~~  245 (331)
T PF14516_consen  242 LLVE  245 (331)
T ss_pred             HHHH
Confidence            8874

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.49  E-value=7e-06  Score=92.11  Aligned_cols=105  Identities=16%  Similarity=0.172  Sum_probs=71.8

Q ss_pred             hhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccc
Q 037935          536 FFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNA  615 (1085)
Q Consensus       536 ~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~  615 (1085)
                      .+.-++.|+.|||++|++++.. .+..|++|++|||++| .++.+|.-....+ +|+.|++++|.+.             
T Consensus       182 SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN-~L~~vp~l~~~gc-~L~~L~lrnN~l~-------------  245 (1096)
T KOG1859|consen  182 SLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYN-CLRHVPQLSMVGC-KLQLLNLRNNALT-------------  245 (1096)
T ss_pred             HHHHHHHhhhhccchhhhhhhH-HHHhcccccccccccc-hhccccccchhhh-hheeeeecccHHH-------------
Confidence            3455677888888888877765 6777888888888888 7777775221233 3888888888763             


Q ss_pred             cHHHhhcCCCCcEEEEEeccCCCCCCcc---cccccceeeEEec
Q 037935          616 SLDELMHLQRLTTLEIDVEDDSILPDGL---FTKKLERFDISIG  656 (1085)
Q Consensus       616 ~~~~l~~L~~L~~L~l~~~~~~~~~~~~---~l~~L~~L~l~~~  656 (1085)
                      .+..+.+|.+|+.|++++|-+....+-.   .+..|..|.+..+
T Consensus       246 tL~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGN  289 (1096)
T KOG1859|consen  246 TLRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGN  289 (1096)
T ss_pred             hhhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCC
Confidence            3455678888888888888766554432   5556666666543

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.48  E-value=0.0016  Score=76.47  Aligned_cols=49  Identities=20%  Similarity=0.394  Sum_probs=41.5

Q ss_pred             CccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      -+.++|.+..++.+..++..+++. .+-++|+.|+||||+|+.+.+..-.
T Consensus        23 f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c   72 (598)
T PRK09111         23 FDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNY   72 (598)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCc
Confidence            356899999999999998866654 6889999999999999999987643

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.46  E-value=7.3e-05  Score=89.08  Aligned_cols=137  Identities=17%  Similarity=0.173  Sum_probs=81.2

Q ss_pred             ccceEEEeeccCc--cccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhcccccc
Q 037935          492 KKCYAISLLNSSI--HEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLR  567 (1085)
Q Consensus       492 ~~~r~Lsl~~~~~--~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~  567 (1085)
                      .++++|++.+...  ...+..  .-+|.|++|.+.+-.. ...+ -...+.++++|+.||+|+++++.+ ..+++|++|+
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~-~~~d-F~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq  198 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQF-DNDD-FSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQ  198 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCcee-cchh-HHHHhhccCccceeecCCCCccCc-HHHhccccHH
Confidence            4678888876432  111111  2578888888876432 1111 123466788888888888888877 5788888888


Q ss_pred             EEeccCcccccccch-hhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          568 MLDLTDCLQLKFIVP-NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       568 ~L~Ls~~~~l~~lp~-~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      .|.+.+= .+..-+. .-+-+|++|++||++.......+.     ......+--..|++|+.|+++++.+.
T Consensus       199 ~L~mrnL-e~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~-----ii~qYlec~~~LpeLrfLDcSgTdi~  263 (699)
T KOG3665|consen  199 VLSMRNL-EFESYQDLIDLFNLKKLRVLDISRDKNNDDTK-----IIEQYLECGMVLPELRFLDCSGTDIN  263 (699)
T ss_pred             HHhccCC-CCCchhhHHHHhcccCCCeeeccccccccchH-----HHHHHHHhcccCccccEEecCCcchh
Confidence            8887765 4433111 114678888888887765421110     01112222345778888888866553

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.44  E-value=0.002  Score=74.98  Aligned_cols=48  Identities=21%  Similarity=0.273  Sum_probs=39.4

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ++++|.+..++.|..++..+++ ..+-++|+.|+||||+|+.+.+..-.
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C   64 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC   64 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence            4578988888888888876553 67778999999999999999987753

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.43  E-value=0.0026  Score=75.67  Aligned_cols=47  Identities=19%  Similarity=0.332  Sum_probs=39.6

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.++|.+..++.+..++..+.+ ..+.++|..|+||||+|+.+.+...
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~   63 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN   63 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4688999999999888876555 4567999999999999999998764

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.43  E-value=0.0022  Score=74.94  Aligned_cols=47  Identities=19%  Similarity=0.208  Sum_probs=40.6

Q ss_pred             ccccchHHHHHHHHHHhccCCceE-EEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSI-IGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++++|.+...+.+..++..+++.. +.++|+.|+||||+|+.+.+...
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~   60 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLN   60 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            468899999999999998777655 67999999999999999998765

>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=97.42  E-value=0.00015  Score=52.03  Aligned_cols=37  Identities=32%  Similarity=0.495  Sum_probs=31.6

Q ss_pred             ccccEEeccCcccccccchhhhhccccCCEEeccCCCcc
Q 037935          564 TKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIK  602 (1085)
Q Consensus       564 ~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~  602 (1085)
                      ++|++|++++| +++.+|+. +++|++|++|++++|.+.
T Consensus         1 ~~L~~L~l~~N-~i~~l~~~-l~~l~~L~~L~l~~N~i~   37 (44)
T PF12799_consen    1 KNLEELDLSNN-QITDLPPE-LSNLPNLETLNLSNNPIS   37 (44)
T ss_dssp             TT-SEEEETSS-S-SSHGGH-GTTCTTSSEEEETSSCCS
T ss_pred             CcceEEEccCC-CCcccCch-HhCCCCCCEEEecCCCCC
Confidence            47999999999 99999987 499999999999999884

...

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.42  E-value=0.002  Score=78.50  Aligned_cols=48  Identities=19%  Similarity=0.190  Sum_probs=40.9

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..++|.+..++.|..++..+++. .+.++|..|+||||+|+.+.+....
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C   63 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNC   63 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCc
Confidence            45889999999999998876665 4789999999999999999988753

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.42  E-value=0.0049  Score=69.41  Aligned_cols=49  Identities=24%  Similarity=0.371  Sum_probs=39.5

Q ss_pred             CCccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          159 GYEAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+.+.|++..++++.+.+.    .         ...+-|.++|++|+|||++|+++++...
T Consensus       129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~  190 (389)
T PRK03992        129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN  190 (389)
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhC
Confidence            34568899999999888663    1         2346789999999999999999999765

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.42  E-value=0.002  Score=75.88  Aligned_cols=48  Identities=27%  Similarity=0.332  Sum_probs=40.7

Q ss_pred             ccccchHHHHHHHHHHhccCCceE-EEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSI-IGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +.++|.+..++.+..++..+.+.. +.++|+.|+||||+|+.+.+..-.
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c   64 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNC   64 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            468899999999988887766644 889999999999999999987754

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.41  E-value=0.0013  Score=81.11  Aligned_cols=48  Identities=19%  Similarity=0.249  Sum_probs=42.2

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+.++||+.++.+++..|......-+.++|.+|+||||+|+.+++...
T Consensus       186 ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~  233 (852)
T TIGR03345       186 IDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIA  233 (852)
T ss_pred             CCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHh
Confidence            357899999999999998866666777999999999999999999764

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.40  E-value=0.0031  Score=71.00  Aligned_cols=47  Identities=21%  Similarity=0.346  Sum_probs=40.4

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.++|.+...+.+.+.+..+.. +.+.++|+.|+||||+|+.+.+...
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~   64 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKIN   64 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5578999999999999886655 4788999999999999999988764

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

Probab=97.39  E-value=0.00039  Score=65.37  Aligned_cols=69  Identities=20%  Similarity=0.225  Sum_probs=44.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCC-cE
Q 037935          185 IGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNEN-KI  263 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~-~~  263 (1085)
                      |.|+|++|+||||+|+.+++.....     .+.++.+.-.+               .........+....+...... +.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~-----~~~i~~~~~~~---------------~~~~~~~~~i~~~~~~~~~~~~~~   60 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFP-----FIEIDGSELIS---------------SYAGDSEQKIRDFFKKAKKSAKPC   60 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSE-----EEEEETTHHHT---------------SSTTHHHHHHHHHHHHHHHTSTSE
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccc-----ccccccccccc---------------ccccccccccccccccccccccce
Confidence            5789999999999999999997522     34444432110               011223334455555554444 89


Q ss_pred             EEEEeCCCCc
Q 037935          264 LVILDNIWKY  273 (1085)
Q Consensus       264 LlvlDdv~~~  273 (1085)
                      +|++||++..
T Consensus        61 vl~iDe~d~l   70 (132)
T PF00004_consen   61 VLFIDEIDKL   70 (132)
T ss_dssp             EEEEETGGGT
T ss_pred             eeeeccchhc
Confidence            9999998754

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 ....

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.38  E-value=0.004  Score=71.67  Aligned_cols=47  Identities=23%  Similarity=0.256  Sum_probs=39.2

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|.+...+.+..++..+.+. .+.++|+.|+||||+|+.++....
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~   63 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLN   63 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            45789999999999998766554 456899999999999999988754

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.36  E-value=0.00092  Score=82.98  Aligned_cols=100  Identities=18%  Similarity=0.394  Sum_probs=65.8

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhcc---CC-CEEEEEEeCCCcCHHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKK---LF-DRVVFSEVSQTPDIKKIQGEIAEK  236 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~---~f-~~~~wv~~~~~~~~~~~~~~i~~~  236 (1085)
                      +.++||+++++++++.|......-+.++|.+|+|||++|+.++.......   .. +..+|. +    +...++    . 
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~----a-  248 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLL----A-  248 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHh----c-
Confidence            46899999999999999865556667999999999999999998764211   01 234442 1    111111    1 


Q ss_pred             hCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          237 LGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       237 l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                       +.... ..-.+.+..+.+.+...++.+|++|++..
T Consensus       249 -g~~~~-ge~e~rl~~i~~~~~~~~~~ILfiDEih~  282 (821)
T CHL00095        249 -GTKYR-GEFEERLKRIFDEIQENNNIILVIDEVHT  282 (821)
T ss_pred             -cCCCc-cHHHHHHHHHHHHHHhcCCeEEEEecHHH
Confidence             11111 12233456666666656789999999864

>PRK09087 hypothetical protein; Validated

Probab=97.36  E-value=0.0034  Score=64.55  Aligned_cols=162  Identities=12%  Similarity=0.041  Sum_probs=85.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC-----CC---CCchHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL-----EL---SDEAEYRRASR  252 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~-----~~---~~~~~~~~~~~  252 (1085)
                      ..+.+.|||.+|+|||+|++.+++....       .+++..      .+..++...+..     +.   ...+ ...+-.
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~~~-------~~i~~~------~~~~~~~~~~~~~~l~iDDi~~~~~~-~~~lf~  108 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKSDA-------LLIHPN------EIGSDAANAAAEGPVLIEDIDAGGFD-ETGLFH  108 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhcCC-------EEecHH------HcchHHHHhhhcCeEEEECCCCCCCC-HHHHHH
Confidence            3467999999999999999998876432       133332      111222111110     00   0011 222334


Q ss_pred             HHHHHHcCCcEEEEEeCCCCcccccccccccC-CCCCCcEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhC
Q 037935          253 LYERLKNENKILVILDNIWKYLDLDTIGIPFG-NDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACG  331 (1085)
Q Consensus       253 ~~~~l~~~~~~LlvlDdv~~~~~~~~~~~~~~-~~~~gs~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~  331 (1085)
                      ++..+...++.+|+-=+. ....|......+. ....|-.+-+++++.++-.+++++++... ...--+++..-|++++.
T Consensus       109 l~n~~~~~g~~ilits~~-~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~~-~~~l~~ev~~~La~~~~  186 (226)
T PRK09087        109 LINSVRQAGTSLLMTSRL-WPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFADR-QLYVDPHVVYYLVSRME  186 (226)
T ss_pred             HHHHHHhCCCeEEEECCC-ChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHhh
Confidence            444444333333332221 1122322111111 11235556669999999999999888421 22333678888999998


Q ss_pred             CchHHHHHHHHHHh------cC--CHHHHHHHHHH
Q 037935          332 GLPIALTTVARALR------NK--SLHEWKNALRE  358 (1085)
Q Consensus       332 glPlai~~~~~~l~------~~--~~~~w~~~~~~  358 (1085)
                      |-.-++..+-..+.      ++  +....+.+++.
T Consensus       187 r~~~~l~~~l~~L~~~~~~~~~~it~~~~~~~l~~  221 (226)
T PRK09087        187 RSLFAAQTIVDRLDRLALERKSRITRALAAEVLNE  221 (226)
T ss_pred             hhHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHh
Confidence            87766654333221      22  55566666553

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.35  E-value=0.00084  Score=71.36  Aligned_cols=46  Identities=17%  Similarity=0.165  Sum_probs=33.8

Q ss_pred             cccchHHHHHHHHHH---hc------------cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          162 AFESRVSTLKSIQNA---LT------------DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~---l~------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++|.+..++++.+.   ..            .+....+.++|++|+||||+|+.+++...
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~   67 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFK   67 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHH
Confidence            478887777666433   21            12446788999999999999999988753

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.

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.35  E-value=2.6e-05  Score=69.13  Aligned_cols=93  Identities=14%  Similarity=0.186  Sum_probs=61.7

Q ss_pred             hcCCCcceEEEecCCcccCCchhhhc-cccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccc
Q 037935          537 FKGMKKLRVVDLTRVRLFSLPSSIGQ-LTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNA  615 (1085)
Q Consensus       537 ~~~l~~Lr~L~Ls~~~i~~lp~~i~~-L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~  615 (1085)
                      ..+..+|...+|++|.+..+|..+.. .+-+..|+|++| .+..+|.+ +..++.|+.|+++.|.+.            .
T Consensus        49 l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~n-eisdvPeE-~Aam~aLr~lNl~~N~l~------------~  114 (177)
T KOG4579|consen   49 LSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANN-EISDVPEE-LAAMPALRSLNLRFNPLN------------A  114 (177)
T ss_pred             HhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchh-hhhhchHH-HhhhHHhhhcccccCccc------------c
Confidence            44556677777777777777766643 346777777777 77777777 477777777777777762            3


Q ss_pred             cHHHhhcCCCCcEEEEEeccCCCCCCcc
Q 037935          616 SLDELMHLQRLTTLEIDVEDDSILPDGL  643 (1085)
Q Consensus       616 ~~~~l~~L~~L~~L~l~~~~~~~~~~~~  643 (1085)
                      .+.-+..|.+|-.|+...|....++.++
T Consensus       115 ~p~vi~~L~~l~~Lds~~na~~eid~dl  142 (177)
T KOG4579|consen  115 EPRVIAPLIKLDMLDSPENARAEIDVDL  142 (177)
T ss_pred             chHHHHHHHhHHHhcCCCCccccCcHHH
Confidence            3444555667777777777666666554

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.32  E-value=0.0037  Score=73.90  Aligned_cols=47  Identities=21%  Similarity=0.323  Sum_probs=39.2

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|.+...+.+..++..+++. .+-++|+.|+||||+|+.+++..-
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~Ln   65 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALN   65 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc
Confidence            45789999999999988866654 557899999999999999988654

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.29  E-value=0.0056  Score=72.61  Aligned_cols=156  Identities=12%  Similarity=0.152  Sum_probs=90.6

Q ss_pred             ccccchHHHHHHHHHHhccCCceE-EEEEcCCCCcHHHHHHHHHHHHhh---------------------ccCCCEEEEE
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSI-IGVYGMGGIGKTTLVKEFARQARE---------------------KKLFDRVVFS  218 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~G~GKTtLa~~v~~~~~~---------------------~~~f~~~~wv  218 (1085)
                      +.++|.+...+.+..++..+.+.. +-++|+.|+||||+|+.+......                     ..+|+. ..+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~-~~l   95 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI-HEL   95 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce-EEe
Confidence            468899999999999988766654 779999999999999998886532                     123442 223


Q ss_pred             EeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe--
Q 037935          219 EVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI--  294 (1085)
Q Consensus       219 ~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv--  294 (1085)
                      .......+.++. ++++++....               . .+++-++|+|++....  .++.+...+..-...+.+|+  
T Consensus        96 d~~~~~~vd~Ir-~li~~~~~~P---------------~-~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~t  158 (614)
T PRK14971         96 DAASNNSVDDIR-NLIEQVRIPP---------------Q-IGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILAT  158 (614)
T ss_pred             cccccCCHHHHH-HHHHHHhhCc---------------c-cCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence            333222222222 2222221110               0 1445577788776542  23334333322222222222  


Q ss_pred             -------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchH
Q 037935          295 -------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPI  335 (1085)
Q Consensus       295 -------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  335 (1085)
                                         .+++.++....+...+.... -..-.+.+..|++.++|-.-
T Consensus       159 t~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~eg-i~i~~~al~~La~~s~gdlr  217 (614)
T PRK14971        159 TEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEG-ITAEPEALNVIAQKADGGMR  217 (614)
T ss_pred             CCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHH
Confidence                               78888888888877653211 12224567888899988654

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

Probab=97.29  E-value=1.8e-05  Score=93.86  Aligned_cols=195  Identities=23%  Similarity=0.220  Sum_probs=92.0

Q ss_pred             cCCccceeeeccCC-ceeeecccCCcCccCCceEEEec-CCcccccch-hHHhhccccceEEeecccccEEEecCCcccc
Q 037935          834 ILPNLEGLALSGKD-ITMILQDDFPQHLFGSLKQLRVG-DDDLACFPL-DLLERFHNLEFLYLSDCSYEVVFSNEGYLET  910 (1085)
Q Consensus       834 ~l~~L~~L~ls~n~-l~~~~~~~~~~~~~~~L~~L~l~-~n~l~~~~~-~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~  910 (1085)
                      .+++|+.|+++.+. +++.....+... +++|+.|.+. |..++.... .....+++|+.|++++|...   ...+....
T Consensus       241 ~~~~L~~l~l~~~~~isd~~l~~l~~~-c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~---~d~~l~~~  316 (482)
T KOG1947|consen  241 ICRKLKSLDLSGCGLVTDIGLSALASR-CPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL---TDSGLEAL  316 (482)
T ss_pred             hcCCcCccchhhhhccCchhHHHHHhh-CCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc---hHHHHHHH
Confidence            35677777777777 555443333322 5677777765 333544332 23346788888888888732   11111111


Q ss_pred             ccccccccceeccCC---cccccccccCCCchhhhHh-hhhceeeeeccccccccCCCCcccccCcc-EEEeccccCccc
Q 037935          911 HARKLALIKRLNLTR---LNHLQQLWKHDSKELDFIF-QHLQILRVLHCQNLLSLLPSSSVSFRNLT-RLETFACKKLMN  985 (1085)
Q Consensus       911 ~l~~l~~L~~L~l~~---c~~L~~l~~~~~~~~~~~l-~~L~~L~i~~c~~l~~~~~~~l~~l~~L~-~L~l~~c~~L~~  985 (1085)
                       ...+++|+.|.+..   |+.++.+......   ... ..+..+.+.+|++++.+...... ..... .+.+.+|++++ 
T Consensus       317 -~~~c~~l~~l~~~~~~~c~~l~~~~l~~~~---~~~~d~~~~~~~~~~~~l~~~~l~~~~-~~~~~~~~~l~gc~~l~-  390 (482)
T KOG1947|consen  317 -LKNCPNLRELKLLSLNGCPSLTDLSLSGLL---TLTSDDLAELILRSCPKLTDLSLSYCG-ISDLGLELSLRGCPNLT-  390 (482)
T ss_pred             -HHhCcchhhhhhhhcCCCccHHHHHHHHhh---ccCchhHhHHHHhcCCCcchhhhhhhh-ccCcchHHHhcCCcccc-
Confidence             33355555544433   3334433221100   011 14455555555555444222111 12222 45556676663 


Q ss_pred             ccchhhhhhcccccEEEEcCCcccccccccccccccccccceeecccccccccccccccee
Q 037935          986 LLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSF 1046 (1085)
Q Consensus       986 l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l 1046 (1085)
                      ...........+|+.|++..|...+......      ....  ...+..+.+.+|+.+..-
T Consensus       391 ~~l~~~~~~~~~l~~L~l~~~~~~t~~~l~~------~~~~--~~~~~~l~~~~~~~~~~~  443 (482)
T KOG1947|consen  391 ESLELRLCRSDSLRVLNLSDCRLVTDKGLRC------LADS--CSNLKDLDLSGCRVITLK  443 (482)
T ss_pred             hHHHHHhccCCccceEecccCccccccchHH------Hhhh--hhccccCCccCcccccch
Confidence            2112222233337777777776554432210      0000  455666666666665443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.28  E-value=0.0068  Score=69.76  Aligned_cols=47  Identities=26%  Similarity=0.316  Sum_probs=39.5

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.++|-+...+.+..++..+++. ++-++|..|+||||+|+.+.+..-
T Consensus        14 deiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~   61 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALV   61 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhc
Confidence            45889999899999988776665 557899999999999999888753

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.27  E-value=0.0057  Score=63.67  Aligned_cols=52  Identities=19%  Similarity=0.309  Sum_probs=36.5

Q ss_pred             HHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          169 TLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       169 ~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      .+..+..+........+.|+|+.|+|||+|++.+++....+  -..+.++++..
T Consensus        32 a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~--~~~v~y~~~~~   83 (235)
T PRK08084         32 LLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQR--GRAVGYVPLDK   83 (235)
T ss_pred             HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEEHHH
Confidence            34444444444455789999999999999999999876643  23566777643

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

Probab=97.27  E-value=0.00096  Score=81.78  Aligned_cols=101  Identities=17%  Similarity=0.255  Sum_probs=64.7

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhcc---CC-CEEEEEEeCCCcCHHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKK---LF-DRVVFSEVSQTPDIKKIQGEIAEK  236 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~---~f-~~~~wv~~~~~~~~~~~~~~i~~~  236 (1085)
                      +.++||+.+++++++.|......-+.++|.+|+|||++|+.+++......   .+ +..+|. +    +...+    ...
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~~l----~a~  252 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMGSL----LAG  252 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHHHH----hhh
Confidence            56899999999999988866666778999999999999999999864321   11 233331 1    11111    110


Q ss_pred             hCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          237 LGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       237 l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                        .... ......+..+.+.+.+.++.+|++|++...
T Consensus       253 --~~~~-g~~e~~l~~i~~~~~~~~~~ILfiDEih~l  286 (731)
T TIGR02639       253 --TKYR-GDFEERLKAVVSEIEKEPNAILFIDEIHTI  286 (731)
T ss_pred             --cccc-chHHHHHHHHHHHHhccCCeEEEEecHHHH
Confidence              0000 112234556666665467899999998743

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.26  E-value=0.0023  Score=73.11  Aligned_cols=146  Identities=12%  Similarity=0.089  Sum_probs=86.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENK  262 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~  262 (1085)
                      .-+.|+|..|+|||.|++++.+.......-..+++++.      .++...+...++...      +....+.+.+  ...
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~------~~f~~~~~~~l~~~~------~~~~~~~~~~--~~~  207 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG------DEFARKAVDILQKTH------KEIEQFKNEI--CQN  207 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHHHhh------hHHHHHHHHh--ccC
Confidence            56889999999999999999997653221123444443      456666666654210      1233444444  234


Q ss_pred             EEEEEeCCCCcc---cc-cccccccCC-CCCCcEEEe----------------------------cCCCHHHHHHHHHHh
Q 037935          263 ILVILDNIWKYL---DL-DTIGIPFGN-DHEGYNFLI----------------------------GNLSEEEAWRLFKIM  309 (1085)
Q Consensus       263 ~LlvlDdv~~~~---~~-~~~~~~~~~-~~~gs~ilv----------------------------~~l~~~~~~~lf~~~  309 (1085)
                      -+||+||+....   .+ +.+...+.. ...|..||+                            ++++.++-.++++++
T Consensus       208 dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~  287 (450)
T PRK14087        208 DVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKE  287 (450)
T ss_pred             CEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHH
Confidence            478889996542   12 122111111 012223333                            888888888988887


Q ss_pred             cCCCCC-CCCchHHHHHHHHHhCCchHHHHHHHH
Q 037935          310 NGDDVE-NCKFKPTAINVAQACGGLPIALTTVAR  342 (1085)
Q Consensus       310 ~~~~~~-~~~~~~~~~~i~~~~~glPlai~~~~~  342 (1085)
                      +..... ..--+++..-|++.++|.|-.+..+..
T Consensus       288 ~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~  321 (450)
T PRK14087        288 IKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVS  321 (450)
T ss_pred             HHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHH
Confidence            732111 123467788899999998876665443

>PRK08118 topology modulation protein; Reviewed

Probab=97.26  E-value=0.00018  Score=70.27  Aligned_cols=35  Identities=26%  Similarity=0.458  Sum_probs=29.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc-cCCCEEEE
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK-KLFDRVVF  217 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~f~~~~w  217 (1085)
                      +.|.|+|++|+||||+|+.+++..... -+||..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            468999999999999999999988754 45777776

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.26  E-value=0.0057  Score=69.96  Aligned_cols=47  Identities=26%  Similarity=0.306  Sum_probs=40.2

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++++|.+..++.+..++..+.+ ..+.++|+.|+||||+|+.+.+..-
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~   64 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALN   64 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            5688999999999999876665 5578899999999999999988764

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

Probab=97.26  E-value=5.5e-05  Score=86.60  Aligned_cols=104  Identities=23%  Similarity=0.305  Sum_probs=67.7

Q ss_pred             cccceEEEeeccCcccccc-cCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEE
Q 037935          491 LKKCYAISLLNSSIHEVSL-EFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRML  569 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~-~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L  569 (1085)
                      ..++..+++.+|.+..+.. .-.+++|++|++++|.   +.++..  +..+..|+.|++++|.|+.++ .+..++.|+.+
T Consensus        94 ~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~---I~~i~~--l~~l~~L~~L~l~~N~i~~~~-~~~~l~~L~~l  167 (414)
T KOG0531|consen   94 LKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNK---ITKLEG--LSTLTLLKELNLSGNLISDIS-GLESLKSLKLL  167 (414)
T ss_pred             ccceeeeeccccchhhcccchhhhhcchheeccccc---cccccc--hhhccchhhheeccCcchhcc-CCccchhhhcc
Confidence            3456777777777777766 4456777777777776   555554  555666777777777776654 34457777777


Q ss_pred             eccCcccccccchhhhhccccCCEEeccCCCc
Q 037935          570 DLTDCLQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       570 ~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      ++++| .+..+.......+.+|+.+++.+|.+
T Consensus       168 ~l~~n-~i~~ie~~~~~~~~~l~~l~l~~n~i  198 (414)
T KOG0531|consen  168 DLSYN-RIVDIENDELSELISLEELDLGGNSI  198 (414)
T ss_pred             cCCcc-hhhhhhhhhhhhccchHHHhccCCch
Confidence            77777 66666552025667777777777765

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.22  E-value=0.008  Score=60.70  Aligned_cols=90  Identities=17%  Similarity=0.251  Sum_probs=60.5

Q ss_pred             CCCccccchHHHHHHHHHH----hccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHH
Q 037935          158 KGYEAFESRVSTLKSIQNA----LTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEI  233 (1085)
Q Consensus       158 ~~~~~~~gr~~~~~~l~~~----l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  233 (1085)
                      ...+.++|-|..++.+++-    +......-+-+||..|+|||++++++.+....++   .+ -|.|.+           
T Consensus        24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G---LR-lIev~k-----------   88 (249)
T PF05673_consen   24 IRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG---LR-LIEVSK-----------   88 (249)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC---ce-EEEECH-----------
Confidence            4456789999998888763    3344566788899999999999999999887653   11 233332           


Q ss_pred             HHHhCCCCCCchHHHHHHHHHHHHH-cCCcEEEEEeCCCCc
Q 037935          234 AEKLGLELSDEAEYRRASRLYERLK-NENKILVILDNIWKY  273 (1085)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~  273 (1085)
                                 .+...+..+.+.+. ...||+|++||+.-+
T Consensus        89 -----------~~L~~l~~l~~~l~~~~~kFIlf~DDLsFe  118 (249)
T PF05673_consen   89 -----------EDLGDLPELLDLLRDRPYKFILFCDDLSFE  118 (249)
T ss_pred             -----------HHhccHHHHHHHHhcCCCCEEEEecCCCCC
Confidence                       11122333444443 478999999998543

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.22  E-value=0.00024  Score=71.64  Aligned_cols=174  Identities=19%  Similarity=0.183  Sum_probs=108.9

Q ss_pred             cccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccc-hhHHhhccccceEEeecccccEEEecCCcc
Q 037935          830 SFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFP-LDLLERFHNLEFLYLSDCSYEVVFSNEGYL  908 (1085)
Q Consensus       830 ~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~  908 (1085)
                      .+.+++|.|+.|+|+.|++...... .+ -...+|+.|-+.+..+.--. ...+..+|.++.|+++.|++..+--+....
T Consensus        91 ~ile~lP~l~~LNls~N~L~s~I~~-lp-~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~  168 (418)
T KOG2982|consen   91 AILEQLPALTTLNLSCNSLSSDIKS-LP-LPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCI  168 (418)
T ss_pred             HHHhcCccceEeeccCCcCCCcccc-Cc-ccccceEEEEEcCCCCChhhhhhhhhcchhhhhhhhccchhhhhccccccc
Confidence            4456789999999999996543322 21 11578999999876664221 234567888999999999754432211100


Q ss_pred             ccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccc
Q 037935          909 ETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLT  988 (1085)
Q Consensus       909 ~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~  988 (1085)
                      +   .--+.++.|+...|....-.....   ....+|++..+.+..||-=+.-...+...++.+.-|+++. +++.+...
T Consensus       169 e---~~s~~v~tlh~~~c~~~~w~~~~~---l~r~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~-~~idswas  241 (418)
T KOG2982|consen  169 E---DWSTEVLTLHQLPCLEQLWLNKNK---LSRIFPNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGA-NNIDSWAS  241 (418)
T ss_pred             c---ccchhhhhhhcCCcHHHHHHHHHh---HHhhcccchheeeecCcccchhhcccCCCCCcchhhhhcc-cccccHHH
Confidence            0   011346666666665433222211   2246899999999998632222233455677777888865 56777755


Q ss_pred             hhhhhhcccccEEEEcCCcccccc
Q 037935          989 SSKAKSLERLVSLRIFGCPAMTEV 1012 (1085)
Q Consensus       989 ~~~~~~l~~L~~L~i~~c~~l~~l 1012 (1085)
                      -..+..+++|..|.+.+.|-...+
T Consensus       242 vD~Ln~f~~l~dlRv~~~Pl~d~l  265 (418)
T KOG2982|consen  242 VDALNGFPQLVDLRVSENPLSDPL  265 (418)
T ss_pred             HHHHcCCchhheeeccCCcccccc
Confidence            566778899999999998855444

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.21  E-value=0.0031  Score=69.53  Aligned_cols=48  Identities=13%  Similarity=0.177  Sum_probs=39.9

Q ss_pred             CccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -+.++|.+...+.+..++..+.. .++.++|++|+||||+|+.+++...
T Consensus        20 ~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~   68 (316)
T PHA02544         20 IDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVG   68 (316)
T ss_pred             HHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            35689999999999999876654 5666699999999999999988753

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.21  E-value=0.0076  Score=71.48  Aligned_cols=48  Identities=19%  Similarity=0.254  Sum_probs=40.6

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..++|.+...+.+..++..+++ ..+-++|..|+||||+|+.+++..-.
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c   64 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNC   64 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcC
Confidence            4678999999999888876544 57789999999999999999998754

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

Probab=97.18  E-value=4.4e-05  Score=90.43  Aligned_cols=243  Identities=29%  Similarity=0.318  Sum_probs=134.1

Q ss_pred             CCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccC-C-ceeee--cccCCcCccCCceEEEec
Q 037935          795 WPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGK-D-ITMIL--QDDFPQHLFGSLKQLRVG  870 (1085)
Q Consensus       795 ~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n-~-l~~~~--~~~~~~~~~~~L~~L~l~  870 (1085)
                      +|.|+.+.+.+|..+....              +..+...+++|+.|+++++ . .....  .... ...+++|+.|+++
T Consensus       187 ~~~L~~l~l~~~~~~~~~~--------------~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~-~~~~~~L~~l~l~  251 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDS--------------LDALALKCPNLEELDLSGCCLLITLSPLLLLLL-LSICRKLKSLDLS  251 (482)
T ss_pred             CchhhHhhhcccccCChhh--------------HHHHHhhCchhheecccCcccccccchhHhhhh-hhhcCCcCccchh
Confidence            5667777777776655321              2233456788999999873 2 22111  1111 2236889999999


Q ss_pred             CCc-ccccchhHHh-hccccceEEeeccc-ccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhh
Q 037935          871 DDD-LACFPLDLLE-RFHNLEFLYLSDCS-YEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHL  947 (1085)
Q Consensus       871 ~n~-l~~~~~~~~~-~l~~L~~L~l~~~~-l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L  947 (1085)
                      ... ++......+. .+++|+.|.+.+|. +++.    + .......+++|++|+++.|..++.-..   ......+++|
T Consensus       252 ~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~----g-l~~i~~~~~~L~~L~l~~c~~~~d~~l---~~~~~~c~~l  323 (482)
T KOG1947|consen  252 GCGLVTDIGLSALASRCPNLETLSLSNCSNLTDE----G-LVSIAERCPSLRELDLSGCHGLTDSGL---EALLKNCPNL  323 (482)
T ss_pred             hhhccCchhHHHHHhhCCCcceEccCCCCccchh----H-HHHHHHhcCcccEEeeecCccchHHHH---HHHHHhCcch
Confidence            444 7766544444 48999999988888 4332    1 112235678899999999888733211   1122345666


Q ss_pred             ceeeeeccc---cccccCCCCcccc--cCccEEEeccccCcccccchhhhhhccccc-EEEEcCCccc-ccccccccccc
Q 037935          948 QILRVLHCQ---NLLSLLPSSSVSF--RNLTRLETFACKKLMNLLTSSKAKSLERLV-SLRIFGCPAM-TEVIISDEDET 1020 (1085)
Q Consensus       948 ~~L~i~~c~---~l~~~~~~~l~~l--~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~-~L~i~~c~~l-~~l~~~~~~~~ 1020 (1085)
                      +.|.+..+.   .++.+.-.+....  ..+..+.+.+|++++++.. .... ..... .+.+.+|+.+ ..+..      
T Consensus       324 ~~l~~~~~~~c~~l~~~~l~~~~~~~~d~~~~~~~~~~~~l~~~~l-~~~~-~~~~~~~~~l~gc~~l~~~l~~------  395 (482)
T KOG1947|consen  324 RELKLLSLNGCPSLTDLSLSGLLTLTSDDLAELILRSCPKLTDLSL-SYCG-ISDLGLELSLRGCPNLTESLEL------  395 (482)
T ss_pred             hhhhhhhcCCCccHHHHHHHHhhccCchhHhHHHHhcCCCcchhhh-hhhh-ccCcchHHHhcCCcccchHHHH------
Confidence            665554443   3433311111111  1455566666666665521 1111 22222 4566677766 22211      


Q ss_pred             cccccceeeccccccccccccccceecCCCccccCCCcCceeeccCCCcccc
Q 037935         1021 ANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLF 1072 (1085)
Q Consensus      1021 ~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~l~~l 1072 (1085)
                          ......+++.|.+..|...+.-........+..+..+++.+|+.+..-
T Consensus       396 ----~~~~~~~l~~L~l~~~~~~t~~~l~~~~~~~~~~~~l~~~~~~~~~~~  443 (482)
T KOG1947|consen  396 ----RLCRSDSLRVLNLSDCRLVTDKGLRCLADSCSNLKDLDLSGCRVITLK  443 (482)
T ss_pred             ----HhccCCccceEecccCccccccchHHHhhhhhccccCCccCcccccch
Confidence                111133388899998887654443321112677888888888876543

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

Probab=97.18  E-value=0.069  Score=54.50  Aligned_cols=162  Identities=20%  Similarity=0.257  Sum_probs=95.5

Q ss_pred             cccchHHHHHHHHHHhc------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHH
Q 037935          162 AFESRVSTLKSIQNALT------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKI  229 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  229 (1085)
                      .+-|-+..++.+.++..            ....+-|.++|++|.||+.||++|+.+....       |.+||..      
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnST-------FFSvSSS------  200 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANST-------FFSVSSS------  200 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCc-------eEEeehH------
Confidence            45677888888777643            1236889999999999999999999876522       3455543      


Q ss_pred             HHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc------ccc---cc-----ccccCCCCCCcEEEe-
Q 037935          230 QGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL------DLD---TI-----GIPFGNDHEGYNFLI-  294 (1085)
Q Consensus       230 ~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~------~~~---~~-----~~~~~~~~~gs~ilv-  294 (1085)
                        ++...+.+.     ....+..+++-.+.+|+-+|.+|.|+..-      +-+   .+     ...-..+.....|+| 
T Consensus       201 --DLvSKWmGE-----SEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVL  273 (439)
T KOG0739|consen  201 --DLVSKWMGE-----SEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVL  273 (439)
T ss_pred             --HHHHHHhcc-----HHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEE
Confidence              222222211     23445667776678999999999987531      111   11     111122333445666 


Q ss_pred             ----------------------cCCCHHHHHH-HHHHhcCCCCCCCCchHHHHHHHHHhCCc---hHHHHHHHHHH
Q 037935          295 ----------------------GNLSEEEAWR-LFKIMNGDDVENCKFKPTAINVAQACGGL---PIALTTVARAL  344 (1085)
Q Consensus       295 ----------------------~~l~~~~~~~-lf~~~~~~~~~~~~~~~~~~~i~~~~~gl---Plai~~~~~~l  344 (1085)
                                            -||++..|.. +|+-+.|+. +..--++..+.++++..|.   -.+|++--.+|
T Consensus       274 gATNiPw~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~t-p~~LT~~d~~eL~~kTeGySGsDisivVrDalm  348 (439)
T KOG0739|consen  274 GATNIPWVLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGDT-PHVLTEQDFKELARKTEGYSGSDISIVVRDALM  348 (439)
T ss_pred             ecCCCchhHHHHHHHHhhcceeccCCcHHHhhhhheeccCCC-ccccchhhHHHHHhhcCCCCcCceEEEehhhhh
Confidence                                  6777777764 555555532 2223344456677776654   34444444444

>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=97.17  E-value=0.0037  Score=64.11  Aligned_cols=50  Identities=30%  Similarity=0.480  Sum_probs=33.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKL  237 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  237 (1085)
                      ...+.|+|..|+|||.|.+++++.......=..+++++.      .++...+...+
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~------~~f~~~~~~~~   83 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA------EEFIREFADAL   83 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH------HHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH------HHHHHHHHHHH
Confidence            456889999999999999999998764322224666554      34444444443

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.

>PHA00729 NTP-binding motif containing protein

Probab=97.17  E-value=0.0021  Score=64.58  Aligned_cols=37  Identities=30%  Similarity=0.356  Sum_probs=29.3

Q ss_pred             HHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          171 KSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       171 ~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +++++.+...+...|.|+|.+|+||||||..+.+...
T Consensus         6 k~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729          6 KKIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3455555555667899999999999999999998753

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.17  E-value=6.7e-05  Score=89.37  Aligned_cols=138  Identities=17%  Similarity=0.146  Sum_probs=84.7

Q ss_pred             CCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCc
Q 037935          769 FPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDI  848 (1085)
Q Consensus       769 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l  848 (1085)
                      -.+|++|++++...+..-++......+|+|++|.+.+-.-...               .+.....++|+|..||||++++
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~---------------dF~~lc~sFpNL~sLDIS~TnI  185 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDND---------------DFSQLCASFPNLRSLDISGTNI  185 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecch---------------hHHHHhhccCccceeecCCCCc
Confidence            3578888888866554434444456688999888876532111               1223345689999999999987


Q ss_pred             eeeecccCCcCccCCceEEEecCCcccccc-hhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCC
Q 037935          849 TMILQDDFPQHLFGSLKQLRVGDDDLACFP-LDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTR  925 (1085)
Q Consensus       849 ~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~  925 (1085)
                      +.+.    +-+.+.+|+.|.+.+=.+.... ...+-+|++|+.||+|.-............-++...||.|+.|+.++
T Consensus       186 ~nl~----GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSg  259 (699)
T KOG3665|consen  186 SNLS----GISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSG  259 (699)
T ss_pred             cCcH----HHhccccHHHHhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCC
Confidence            7662    2233788888888765554422 22334788899999888773332211111123344577777777765

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.16  E-value=0.0039  Score=67.54  Aligned_cols=101  Identities=10%  Similarity=0.123  Sum_probs=68.3

Q ss_pred             HHHHHHhcc-CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCE-EEEEEeCC-CcCHHHHHHHHHHHhCCCCCCchHH
Q 037935          171 KSIQNALTD-VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDR-VVFSEVSQ-TPDIKKIQGEIAEKLGLELSDEAEY  247 (1085)
Q Consensus       171 ~~l~~~l~~-~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~-~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~  247 (1085)
                      .++++.+.. +.-..+.|+|.+|+|||||++.+.+....+ +-+. ++|+-+.+ ..++.++++.+...+.....+....
T Consensus       121 ~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~-~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~  199 (380)
T PRK12608        121 MRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAAN-HPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPD  199 (380)
T ss_pred             HhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhc-CCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHH
Confidence            447777762 334577999999999999999999977643 2344 46777754 4578899999988777654322211


Q ss_pred             H------HHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          248 R------RASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       248 ~------~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                      .      .+....+++. ++++.+||+|++..
T Consensus       200 ~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        200 EHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            1      2223333333 69999999999854

>CHL00181 cbbX CbbX; Provisional

Probab=97.16  E-value=0.0085  Score=64.13  Aligned_cols=26  Identities=27%  Similarity=0.286  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..+.++|.+|+||||+|+.+++....
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~   85 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYK   85 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHH
Confidence            35789999999999999999887643

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.15  E-value=7.5e-05  Score=66.34  Aligned_cols=85  Identities=15%  Similarity=0.175  Sum_probs=58.1

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccC
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL  591 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L  591 (1085)
                      ...+|....+++|.   ..++|+.+-.+++.++.|+|++|.|..+|..+..++.||.|++++| .+...|.-+ ..|.+|
T Consensus        51 ~~~el~~i~ls~N~---fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N-~l~~~p~vi-~~L~~l  125 (177)
T KOG4579|consen   51 KGYELTKISLSDNG---FKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFN-PLNAEPRVI-APLIKL  125 (177)
T ss_pred             CCceEEEEecccch---hhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccC-ccccchHHH-HHHHhH
Confidence            34556666666665   5666666666666777777777777777777777777777777777 666666554 557777


Q ss_pred             CEEeccCCCc
Q 037935          592 EELYMGSCSI  601 (1085)
Q Consensus       592 ~~L~L~~~~~  601 (1085)
                      -.|+..+|-+
T Consensus       126 ~~Lds~~na~  135 (177)
T KOG4579|consen  126 DMLDSPENAR  135 (177)
T ss_pred             HHhcCCCCcc
Confidence            7777666655

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.14  E-value=0.0013  Score=62.76  Aligned_cols=89  Identities=21%  Similarity=0.165  Sum_probs=52.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENK  262 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~  262 (1085)
                      ..+.|+|++|+||||+++.++.......  ..++.+..+........... ...........................+.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVLDQLL-LIIVGGKKASGSGELRLRLALALARKLKP   79 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCHHHHH-hhhhhccCCCCCHHHHHHHHHHHHHhcCC
Confidence            5789999999999999999999876432  23555555443332222211 11111112222233334455555543445


Q ss_pred             EEEEEeCCCCcc
Q 037935          263 ILVILDNIWKYL  274 (1085)
Q Consensus       263 ~LlvlDdv~~~~  274 (1085)
                      .++++|+++...
T Consensus        80 ~viiiDei~~~~   91 (148)
T smart00382       80 DVLILDEITSLL   91 (148)
T ss_pred             CEEEEECCcccC
Confidence            999999998764

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.

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.14  E-value=0.00056  Score=65.46  Aligned_cols=101  Identities=22%  Similarity=0.233  Sum_probs=61.6

Q ss_pred             cceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhh
Q 037935          542 KLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELM  621 (1085)
Q Consensus       542 ~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~  621 (1085)
                      ....+||++|.+..++ .+..+..|.+|.|++| .|+.+.+.+-.-+++|..|.|.+|.+...          ..+..+.
T Consensus        43 ~~d~iDLtdNdl~~l~-~lp~l~rL~tLll~nN-rIt~I~p~L~~~~p~l~~L~LtnNsi~~l----------~dl~pLa  110 (233)
T KOG1644|consen   43 QFDAIDLTDNDLRKLD-NLPHLPRLHTLLLNNN-RITRIDPDLDTFLPNLKTLILTNNSIQEL----------GDLDPLA  110 (233)
T ss_pred             ccceecccccchhhcc-cCCCccccceEEecCC-cceeeccchhhhccccceEEecCcchhhh----------hhcchhc
Confidence            4456666676666554 3556667777777777 67766666544456677777777766422          2234456


Q ss_pred             cCCCCcEEEEEeccCCCCCCcc-----cccccceeeEE
Q 037935          622 HLQRLTTLEIDVEDDSILPDGL-----FTKKLERFDIS  654 (1085)
Q Consensus       622 ~L~~L~~L~l~~~~~~~~~~~~-----~l~~L~~L~l~  654 (1085)
                      .+++|++|.+-+|..+..+..-     .+++|+.|+..
T Consensus       111 ~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~  148 (233)
T KOG1644|consen  111 SCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQ  148 (233)
T ss_pred             cCCccceeeecCCchhcccCceeEEEEecCcceEeehh
Confidence            6677777777777665544331     55666666654

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.12  E-value=0.019  Score=57.77  Aligned_cols=161  Identities=16%  Similarity=0.188  Sum_probs=97.4

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC-CCcCHHHHHHHHHHHhCCCCCCc--hHHHHHH-HHH
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS-QTPDIKKIQGEIAEKLGLELSDE--AEYRRAS-RLY  254 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~-~~~  254 (1085)
                      ..+-+++.++|.-|.|||.++|+........    .++-|.+. +..+...+...|...+.......  ....... .+.
T Consensus        48 ~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d----~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~  123 (269)
T COG3267          48 ADGQGILAVTGEVGSGKTVLRRALLASLNED----QVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELA  123 (269)
T ss_pred             hcCCceEEEEecCCCchhHHHHHHHHhcCCC----ceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHH
Confidence            4456799999999999999999665554322    22223443 45677888888888887633211  1112222 233


Q ss_pred             HHHHcCCc-EEEEEeCCCCc--ccccccccccCCC---------------------------CCCcE----EEecCCCHH
Q 037935          255 ERLKNENK-ILVILDNIWKY--LDLDTIGIPFGND---------------------------HEGYN----FLIGNLSEE  300 (1085)
Q Consensus       255 ~~l~~~~~-~LlvlDdv~~~--~~~~~~~~~~~~~---------------------------~~gs~----ilv~~l~~~  300 (1085)
                      ....+++| ..++.||....  +..+.++....-.                           ..+-|    |.+.|++.+
T Consensus       124 al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~  203 (269)
T COG3267         124 ALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEA  203 (269)
T ss_pred             HHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChH
Confidence            33336777 99999998654  2222221110000                           01122    223999999


Q ss_pred             HHHHHHHHhcCCCC-CCCCc-hHHHHHHHHHhCCchHHHHHHHHH
Q 037935          301 EAWRLFKIMNGDDV-ENCKF-KPTAINVAQACGGLPIALTTVARA  343 (1085)
Q Consensus       301 ~~~~lf~~~~~~~~-~~~~~-~~~~~~i~~~~~glPlai~~~~~~  343 (1085)
                      +...+++.+..... ..+-+ .+....|..+..|.|.+|..++..
T Consensus       204 ~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         204 ETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             HHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            99999888874222 22222 455678999999999999877654

>PRK08727 hypothetical protein; Validated

Probab=97.11  E-value=0.011  Score=61.43  Aligned_cols=58  Identities=16%  Similarity=0.190  Sum_probs=37.4

Q ss_pred             cccchH-HHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC
Q 037935          162 AFESRV-STLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS  221 (1085)
Q Consensus       162 ~~~gr~-~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  221 (1085)
                      +|++.. ..+..+...........+.|+|..|+|||.|++++++....+  ...+.++++.
T Consensus        20 ~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~--~~~~~y~~~~   78 (233)
T PRK08727         20 SYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQA--GRSSAYLPLQ   78 (233)
T ss_pred             hccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEeHH
Confidence            344333 334433333333334579999999999999999999886644  2356677653

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.08  E-value=0.012  Score=69.60  Aligned_cols=47  Identities=21%  Similarity=0.334  Sum_probs=40.0

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++++|.+...+.+..++..+++. .+-++|..|+||||+|+.+.+..-
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~   63 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALN   63 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence            56899999999999998876664 567999999999999999988764

>PRK10536 hypothetical protein; Provisional

Probab=97.07  E-value=0.0047  Score=63.15  Aligned_cols=54  Identities=24%  Similarity=0.232  Sum_probs=40.9

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEE
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVV  216 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~  216 (1085)
                      ..+.+|......++.++.+.  .++.+.|.+|+|||+||.++..+.-..+.|+.++
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIi  108 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKDVDRII  108 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEE
Confidence            44677888888888888653  5999999999999999999888533223455444

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.06  E-value=0.0047  Score=66.18  Aligned_cols=38  Identities=21%  Similarity=0.232  Sum_probs=26.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS  221 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  221 (1085)
                      -+.++|.+|+|||++|+.++......+.....-|+.++
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~   97 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVT   97 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEec
Confidence            58899999999999999888876543322222345554

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.

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.04  E-value=0.012  Score=68.98  Aligned_cols=47  Identities=19%  Similarity=0.365  Sum_probs=40.2

Q ss_pred             ccccchHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|-+..++.+..++..+++. .+-++|+.|+||||+|+.+++..-
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~   63 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLN   63 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence            46889999999999998866654 577999999999999999998764

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.99  E-value=0.0023  Score=65.14  Aligned_cols=36  Identities=31%  Similarity=0.420  Sum_probs=29.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      -.++|+|..|.||||++..+.....  ..|+.+++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~--~~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLR--HKFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhc--ccCCEEEEEec
Confidence            4678999999999999999988766  45888877654

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR03689 pup_AAA proteasome ATPase

Probab=96.99  E-value=0.0029  Score=72.33  Aligned_cols=49  Identities=24%  Similarity=0.336  Sum_probs=38.7

Q ss_pred             CccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          160 YEAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      -+.+.|.+..++++.+.+.    .         ...+-+.++|++|+|||++|+++++....
T Consensus       181 ~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~  242 (512)
T TIGR03689       181 YADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQ  242 (512)
T ss_pred             HHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhcc
Confidence            3457789999988887754    0         23456889999999999999999998753

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.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=96.99  E-value=0.017  Score=68.05  Aligned_cols=47  Identities=26%  Similarity=0.326  Sum_probs=39.4

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.++|.+...+.+..++..++. ..+-++|+.|+||||+|+.+.+..-
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~   63 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVN   63 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5689999999999999876555 4467799999999999999988654

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=96.98  E-value=0.05  Score=58.99  Aligned_cols=176  Identities=14%  Similarity=0.163  Sum_probs=95.9

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhcc-------------CCCEEEEEEeCCCcCH
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKK-------------LFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~-------------~f~~~~wv~~~~~~~~  226 (1085)
                      ..++|.+...+.+...+..+++ ...-++|+.|+||+++|..+.+..-...             ...-..|+.-....+-
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g   83 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQG   83 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccccc
Confidence            3578999999999999887665 7888999999999999998887653221             1122334321100000


Q ss_pred             HHHHHHHHHHhCC--CCCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe----
Q 037935          227 KKIQGEIAEKLGL--ELSDEAEYRRASRLYERLK----NENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI----  294 (1085)
Q Consensus       227 ~~~~~~i~~~l~~--~~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv----  294 (1085)
                      ..+-..-+...+.  .....-..+.+..+.+.+.    .+++-++|+|+++...  ..+.+...+-.-.+..-|++    
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~~  163 (314)
T PRK07399         84 KLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPSP  163 (314)
T ss_pred             cccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECCh
Confidence            0000111111110  0001111222333433332    3567788888876552  23333333322121211222    


Q ss_pred             ----------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHH
Q 037935          295 ----------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTV  340 (1085)
Q Consensus       295 ----------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~  340 (1085)
                                      .++++++..+.+........    .......++..++|.|..+...
T Consensus       164 ~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~----~~~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        164 ESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI----LNINFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             HhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc----chhHHHHHHHHcCCCHHHHHHH
Confidence                            89999999999987652111    1112367899999999766543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.91  E-value=0.0032  Score=78.13  Aligned_cols=132  Identities=14%  Similarity=0.206  Sum_probs=77.2

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccC----CC-EEEEEEeCCCcCHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKL----FD-RVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~----f~-~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      -+.++||+.+++++++.|......-+.++|.+|+|||++|+.+.........    .. .++++.++.      +.    
T Consensus       177 l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~------l~----  246 (857)
T PRK10865        177 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------LV----  246 (857)
T ss_pred             CCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh------hh----
Confidence            3568999999999999998666667779999999999999999987642110    01 223333321      10    


Q ss_pred             HHhCCCCCCchHHHHHHHHHHHHH-cCCcEEEEEeCCCCccc---------ccccccccCCCCCCcEEEecCCCHHHHHH
Q 037935          235 EKLGLELSDEAEYRRASRLYERLK-NENKILVILDNIWKYLD---------LDTIGIPFGNDHEGYNFLIGNLSEEEAWR  304 (1085)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~~~---------~~~~~~~~~~~~~gs~ilv~~l~~~~~~~  304 (1085)
                      .  +.... ..-.+.+..+.+.+. .+++.+|++|++.....         ...+.  .|.-..|...+|..-+.++...
T Consensus       247 a--g~~~~-g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~l--kp~l~~g~l~~IgaTt~~e~r~  321 (857)
T PRK10865        247 A--GAKYR-GEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNML--KPALARGELHCVGATTLDEYRQ  321 (857)
T ss_pred             h--ccchh-hhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHh--cchhhcCCCeEEEcCCCHHHHH
Confidence            0  00000 111223444554443 35789999999875421         11111  1222456556665556666555


Q ss_pred             HH
Q 037935          305 LF  306 (1085)
Q Consensus       305 lf  306 (1085)
                      +|
T Consensus       322 ~~  323 (857)
T PRK10865        322 YI  323 (857)
T ss_pred             Hh
Confidence            54

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=96.89  E-value=0.001  Score=63.77  Aligned_cols=106  Identities=20%  Similarity=0.270  Sum_probs=57.6

Q ss_pred             CcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhc-cccccEEeccCcccccccch-hhhhccccCC
Q 037935          515 QLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQ-LTKLRMLDLTDCLQLKFIVP-NILSSFTRLE  592 (1085)
Q Consensus       515 ~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~-L~~L~~L~Ls~~~~l~~lp~-~~~~~L~~L~  592 (1085)
                      ....+++.+|.   +..++.  |..++.|..|.|++|+|+.+...++. +++|..|.|.+| .+..+.+ .-+..++.|+
T Consensus        43 ~~d~iDLtdNd---l~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnN-si~~l~dl~pLa~~p~L~  116 (233)
T KOG1644|consen   43 QFDAIDLTDND---LRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNN-SIQELGDLDPLASCPKLE  116 (233)
T ss_pred             ccceecccccc---hhhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecCc-chhhhhhcchhccCCccc
Confidence            44455555554   344443  56666666666666666666444433 455666666666 5544321 0035566667


Q ss_pred             EEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEec
Q 037935          593 ELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVE  634 (1085)
Q Consensus       593 ~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  634 (1085)
                      +|.+-+|.+..        .......-+.++++|+.|+...-
T Consensus       117 ~Ltll~Npv~~--------k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  117 YLTLLGNPVEH--------KKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             eeeecCCchhc--------ccCceeEEEEecCcceEeehhhh
Confidence            77666665521        11112233567777777776543

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.85  E-value=0.026  Score=64.65  Aligned_cols=111  Identities=23%  Similarity=0.218  Sum_probs=77.5

Q ss_pred             CccccchHHHHHHHHHHhc----c-CCceEEEEEcCCCCcHHHHHHHHHHHHh---hcc---CCCEEEEEEeCCCcCHHH
Q 037935          160 YEAFESRVSTLKSIQNALT----D-VNVSIIGVYGMGGIGKTTLVKEFARQAR---EKK---LFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~----~-~~~~vi~I~G~~G~GKTtLa~~v~~~~~---~~~---~f~~~~wv~~~~~~~~~~  228 (1085)
                      ++.+-+|+.+..+|-+++.    + +..+.+.|.|-+|+|||..+..|.+..+   .++   .|+ .+.|+.-.=..+.+
T Consensus       395 p~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~~  473 (767)
T KOG1514|consen  395 PESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPRE  473 (767)
T ss_pred             cccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHH
Confidence            4557799999999988875    3 3445899999999999999999999665   122   343 23455555667999


Q ss_pred             HHHHHHHHhCCCCCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCc
Q 037935          229 IQGEIAEKLGLELSDEAEYRRASRLYERLK----NENKILVILDNIWKY  273 (1085)
Q Consensus       229 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~  273 (1085)
                      ++..|..++.+....  ....++.+..++.    +.+.+++++|+++..
T Consensus       474 ~Y~~I~~~lsg~~~~--~~~al~~L~~~f~~~k~~~~~~VvLiDElD~L  520 (767)
T KOG1514|consen  474 IYEKIWEALSGERVT--WDAALEALNFRFTVPKPKRSTTVVLIDELDIL  520 (767)
T ss_pred             HHHHHHHhcccCccc--HHHHHHHHHHhhccCCCCCCCEEEEeccHHHH
Confidence            999999999765322  1222333333333    467889999997654

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.83  E-value=0.034  Score=57.87  Aligned_cols=168  Identities=13%  Similarity=0.092  Sum_probs=79.8

Q ss_pred             chHHH-HHHHHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC-C-
Q 037935          165 SRVST-LKSIQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL-E-  240 (1085)
Q Consensus       165 gr~~~-~~~l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~-~-  240 (1085)
                      |+... +..+.++.. ....+.+.|+|..|+|||+||+.+++....++ . .+.+++.......      + ..... . 
T Consensus        23 ~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~-~-~~~~i~~~~~~~~------~-~~~~~~~~   93 (227)
T PRK08903         23 GENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGG-R-NARYLDAASPLLA------F-DFDPEAEL   93 (227)
T ss_pred             CCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC-C-cEEEEehHHhHHH------H-hhcccCCE
Confidence            44333 344444433 23456789999999999999999999764322 2 3445555332111      0 00100 0 


Q ss_pred             ----C-C--CchHHHHHHHHHHHHHcCCcE-EEEEeCCCCcccccccccccC-CCCCCcEEEecCCCHHHHHHHHHHhcC
Q 037935          241 ----L-S--DEAEYRRASRLYERLKNENKI-LVILDNIWKYLDLDTIGIPFG-NDHEGYNFLIGNLSEEEAWRLFKIMNG  311 (1085)
Q Consensus       241 ----~-~--~~~~~~~~~~~~~~l~~~~~~-LlvlDdv~~~~~~~~~~~~~~-~~~~gs~ilv~~l~~~~~~~lf~~~~~  311 (1085)
                          . .  .......+-.+.+.....++. +++--+. ....+. +...+. ....+..|-+.|+++++-..++...+.
T Consensus        94 liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~-~~~~~~-l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~  171 (227)
T PRK08903         94 YAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPA-APLALP-LREDLRTRLGWGLVYELKPLSDADKIAALKAAAA  171 (227)
T ss_pred             EEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCC-CHHhCC-CCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHHH
Confidence                0 0  001111222233333223333 3332221 111121 111111 112245566688888776666665432


Q ss_pred             CCCCCCCchHHHHHHHHHhCCchHHHHHHHHHH
Q 037935          312 DDVENCKFKPTAINVAQACGGLPIALTTVARAL  344 (1085)
Q Consensus       312 ~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l  344 (1085)
                      . ....--++....+++.+.|.+..+..+...+
T Consensus       172 ~-~~v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        172 E-RGLQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             H-cCCCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            1 1112235667778888888887776555543

>PRK07261 topology modulation protein; Provisional

Probab=96.82  E-value=0.0035  Score=61.54  Aligned_cols=34  Identities=26%  Similarity=0.470  Sum_probs=26.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhc-cCCCEEEE
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREK-KLFDRVVF  217 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~-~~f~~~~w  217 (1085)
                      .|.|+|++|+||||||+.+....... -+.|...|
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~   36 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHF   36 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEe
Confidence            58999999999999999998775432 23455666

>TIGR00763 lon ATP-dependent protease La

Probab=96.80  E-value=0.012  Score=72.85  Aligned_cols=48  Identities=25%  Similarity=0.299  Sum_probs=39.2

Q ss_pred             ccccchHHHHHHHHHHhc------cCCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALT------DVNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..++|.+..+++|.+++.      ..+.+++.++|++|+|||++|+.+.+....
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~  373 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNR  373 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            347899999999988764      123458999999999999999999998753

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.

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

Probab=96.78  E-value=0.0039  Score=75.34  Aligned_cols=100  Identities=19%  Similarity=0.284  Sum_probs=62.8

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhcc-C---CCEEEEEEeCCCcCHHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKK-L---FDRVVFSEVSQTPDIKKIQGEIAEK  236 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-~---f~~~~wv~~~~~~~~~~~~~~i~~~  236 (1085)
                      +.++||+.+++++++.|......-+.++|.+|+|||++|+.++....... .   .++.+|..     +...    ++. 
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~----lla-  255 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGS----LLA-  255 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHH----Hhc-
Confidence            46899999999999988764445567899999999999999998653221 1   13444421     1111    110 


Q ss_pred             hCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          237 LGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       237 l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                       +..... .....+..+.+.+.+.++.+|++|++..
T Consensus       256 -G~~~~G-e~e~rl~~l~~~l~~~~~~ILfIDEIh~  289 (758)
T PRK11034        256 -GTKYRG-DFEKRFKALLKQLEQDTNSILFIDEIHT  289 (758)
T ss_pred             -ccchhh-hHHHHHHHHHHHHHhcCCCEEEeccHHH
Confidence             111111 1122344555556556778999999874

>CHL00176 ftsH cell division protein; Validated

Probab=96.78  E-value=0.018  Score=68.40  Aligned_cols=92  Identities=21%  Similarity=0.263  Sum_probs=54.1

Q ss_pred             ccccchHHHHHHHHHH---hccC---------CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH
Q 037935          161 EAFESRVSTLKSIQNA---LTDV---------NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~---l~~~---------~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  228 (1085)
                      +++.|.++.++++.+.   +...         ..+-+.++|++|+|||++|++++......       |+.++..    +
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-------~i~is~s----~  251 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-------FFSISGS----E  251 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-------eeeccHH----H
Confidence            4567877666555443   3321         23568899999999999999999876432       2333221    1


Q ss_pred             HHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          229 IQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       229 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                      +... .  .+.      ....+..+++......+++|++||++.
T Consensus       252 f~~~-~--~g~------~~~~vr~lF~~A~~~~P~ILfIDEID~  286 (638)
T CHL00176        252 FVEM-F--VGV------GAARVRDLFKKAKENSPCIVFIDEIDA  286 (638)
T ss_pred             HHHH-h--hhh------hHHHHHHHHHHHhcCCCcEEEEecchh
Confidence            1110 0  010      112234455555567889999999864

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

Probab=96.76  E-value=0.01  Score=62.43  Aligned_cols=96  Identities=24%  Similarity=0.310  Sum_probs=64.2

Q ss_pred             CCCccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc
Q 037935          158 KGYEAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP  224 (1085)
Q Consensus       158 ~~~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  224 (1085)
                      .....+-|-++.+++|.+..+    .         +..+-|-+||++|.|||-||++|++.....  |     +.|..+ 
T Consensus       148 vtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~At--F-----IrvvgS-  219 (406)
T COG1222         148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDAT--F-----IRVVGS-  219 (406)
T ss_pred             CChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCce--E-----EEeccH-
Confidence            334456688999999888765    1         355788899999999999999999988754  4     444331 


Q ss_pred             CHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          225 DIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       225 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                             ++.+..-+.     ....+..+++-.+...+++|.+|.++..
T Consensus       220 -------ElVqKYiGE-----GaRlVRelF~lArekaPsIIFiDEIDAI  256 (406)
T COG1222         220 -------ELVQKYIGE-----GARLVRELFELAREKAPSIIFIDEIDAI  256 (406)
T ss_pred             -------HHHHHHhcc-----chHHHHHHHHHHhhcCCeEEEEechhhh
Confidence                   222222111     1223445555555688999999998643

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.73  E-value=0.0042  Score=77.42  Aligned_cols=100  Identities=14%  Similarity=0.270  Sum_probs=63.1

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccC----CCEEEE-EEeCCCcCHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKL----FDRVVF-SEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~----f~~~~w-v~~~~~~~~~~~~~~i~~  235 (1085)
                      +.++||+.++++++..|......-+.++|.+|+|||++|+.+.........    ....+| +.+      ..+    ..
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~------~~l----~a  242 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDM------GAL----IA  242 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeH------HHH----hh
Confidence            568999999999999998666667779999999999999999887643211    122222 222      111    10


Q ss_pred             HhCCCCCCchHHHHHHHHHHHHH-cCCcEEEEEeCCCCc
Q 037935          236 KLGLELSDEAEYRRASRLYERLK-NENKILVILDNIWKY  273 (1085)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~  273 (1085)
                        +.... ......+..+.+.+. .+++.+|++|++...
T Consensus       243 --~~~~~-g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l  278 (852)
T TIGR03346       243 --GAKYR-GEFEERLKAVLNEVTKSEGQIILFIDELHTL  278 (852)
T ss_pred             --cchhh-hhHHHHHHHHHHHHHhcCCCeEEEeccHHHh
Confidence              00111 112233455555553 256899999998754

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.69  E-value=0.016  Score=62.46  Aligned_cols=124  Identities=16%  Similarity=0.167  Sum_probs=77.2

Q ss_pred             chHHHHHHHHHHhcc----CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCC
Q 037935          165 SRVSTLKSIQNALTD----VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLE  240 (1085)
Q Consensus       165 gr~~~~~~l~~~l~~----~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  240 (1085)
                      +|....+...+++..    ...+-+.++|..|+|||.||.++++....+ .+. +.+++++      .++.++...++..
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~-g~~-v~~~~~~------~l~~~lk~~~~~~  206 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKK-GVS-STLLHFP------EFIRELKNSISDG  206 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHc-CCC-EEEEEHH------HHHHHHHHHHhcC
Confidence            555555555666542    245679999999999999999999998743 233 5556553      4556665554321


Q ss_pred             CCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc--ccccc--ccccc-CC--CCCCcEEEecCCCHHHHHHHH
Q 037935          241 LSDEAEYRRASRLYERLKNENKILVILDNIWKY--LDLDT--IGIPF-GN--DHEGYNFLIGNLSEEEAWRLF  306 (1085)
Q Consensus       241 ~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~--~~~~~--~~~~~-~~--~~~gs~ilv~~l~~~~~~~lf  306 (1085)
                              ......+.+  .+-=||||||+..+  ..|..  +...+ ..  ....+.|+...++.++--+.|
T Consensus       207 --------~~~~~l~~l--~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl~~~el~~~~  269 (306)
T PRK08939        207 --------SVKEKIDAV--KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNFDFDELEHHL  269 (306)
T ss_pred             --------cHHHHHHHh--cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHH
Confidence                    123344444  46678999999654  45643  32222 21  245677777888877766655

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

Probab=96.67  E-value=0.01  Score=66.72  Aligned_cols=102  Identities=22%  Similarity=0.202  Sum_probs=60.1

Q ss_pred             chHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCc
Q 037935          165 SRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDE  244 (1085)
Q Consensus       165 gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~  244 (1085)
                      .|.....++.+.+..... ++.|+|+-++||||+++.+.......     .+++..-+......-+.+.           
T Consensus        21 ~~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~-----~iy~~~~d~~~~~~~l~d~-----------   83 (398)
T COG1373          21 ERRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEE-----IIYINFDDLRLDRIELLDL-----------   83 (398)
T ss_pred             hHHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCcc-----eEEEEecchhcchhhHHHH-----------
Confidence            445556666666653333 99999999999999997666654322     4444443211111111111           


Q ss_pred             hHHHHHHHHHHHHHcCCcEEEEEeCCCCcccccccccccCCCCCC
Q 037935          245 AEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEG  289 (1085)
Q Consensus       245 ~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~~~~~~~~~~~~~~g  289 (1085)
                            ......+...++..++||.|.....|+.....+.+.++.
T Consensus        84 ------~~~~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~  122 (398)
T COG1373          84 ------LRAYIELKEREKSYIFLDEIQNVPDWERALKYLYDRGNL  122 (398)
T ss_pred             ------HHHHHHhhccCCceEEEecccCchhHHHHHHHHHccccc
Confidence                  111111212377899999999999998776666554443

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=96.63  E-value=0.023  Score=65.03  Aligned_cols=75  Identities=17%  Similarity=0.325  Sum_probs=46.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCC-EEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFD-RVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      ..-+.|+|.+|+|||.|++++++....+ +.+ .++|++.      .++..++...+....        ...+.+... .
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~-~~~~~v~yi~~------~~f~~~~~~~~~~~~--------~~~f~~~~~-~  193 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQN-EPDLRVMYITS------EKFLNDLVDSMKEGK--------LNEFREKYR-K  193 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHh-CCCCeEEEEEH------HHHHHHHHHHHhccc--------HHHHHHHHH-h
Confidence            3468999999999999999999987643 222 4667654      345555555553210        122233332 3


Q ss_pred             CcEEEEEeCCCC
Q 037935          261 NKILVILDNIWK  272 (1085)
Q Consensus       261 ~~~LlvlDdv~~  272 (1085)
                      +.-+|++||++.
T Consensus       194 ~~dvLlIDDi~~  205 (440)
T PRK14088        194 KVDVLLIDDVQF  205 (440)
T ss_pred             cCCEEEEechhh
Confidence            445778888864

>PRK12377 putative replication protein; Provisional

Probab=96.62  E-value=0.012  Score=60.94  Aligned_cols=76  Identities=18%  Similarity=0.223  Sum_probs=49.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      +...+.++|.+|+|||.||.++.+....+  ...++++++.      ++...+-......   .    ....+.+.+  .
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~~~--g~~v~~i~~~------~l~~~l~~~~~~~---~----~~~~~l~~l--~  162 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLLAK--GRSVIVVTVP------DVMSRLHESYDNG---Q----SGEKFLQEL--C  162 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEEEHH------HHHHHHHHHHhcc---c----hHHHHHHHh--c
Confidence            34688999999999999999999988754  2345666553      4445554443211   0    112344444  5


Q ss_pred             CcEEEEEeCCCCc
Q 037935          261 NKILVILDNIWKY  273 (1085)
Q Consensus       261 ~~~LlvlDdv~~~  273 (1085)
                      +-=|||+||+...
T Consensus       163 ~~dLLiIDDlg~~  175 (248)
T PRK12377        163 KVDLLVLDEIGIQ  175 (248)
T ss_pred             CCCEEEEcCCCCC
Confidence            6779999999543

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.61  E-value=0.018  Score=65.70  Aligned_cols=75  Identities=21%  Similarity=0.358  Sum_probs=44.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNEN  261 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~  261 (1085)
                      ...+.|+|..|+|||.|++++++....+..=..+++++.      .++...+...+...        ....+.+.+.  +
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~------~~~~~~~~~~~~~~--------~~~~~~~~~~--~  199 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS------EKFTNDFVNALRNN--------KMEEFKEKYR--S  199 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH------HHHHHHHHHHHHcC--------CHHHHHHHHH--h
Confidence            356889999999999999999998764411123566653      23344444444321        0222333332  2


Q ss_pred             cEEEEEeCCCC
Q 037935          262 KILVILDNIWK  272 (1085)
Q Consensus       262 ~~LlvlDdv~~  272 (1085)
                      .-+||+||++.
T Consensus       200 ~dlLiiDDi~~  210 (405)
T TIGR00362       200 VDLLLIDDIQF  210 (405)
T ss_pred             CCEEEEehhhh
Confidence            23677788864

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).

>PRK05642 DNA replication initiation factor; Validated

Probab=96.61  E-value=0.06  Score=55.95  Aligned_cols=37  Identities=19%  Similarity=0.481  Sum_probs=29.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS  221 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  221 (1085)
                      ..+.|+|..|+|||.|++++++....++  ..++|++..
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~--~~v~y~~~~   82 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQRG--EPAVYLPLA   82 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEeeHH
Confidence            6789999999999999999998765432  346777764

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

Probab=96.61  E-value=0.019  Score=70.13  Aligned_cols=47  Identities=21%  Similarity=0.270  Sum_probs=39.9

Q ss_pred             ccccchHHHHHHHHHHhc------cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALT------DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+|.++.+++|++++.      .....++.++|++|+||||+|+.+.....
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~  374 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATG  374 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            458899999999998876      13456899999999999999999998765

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

Probab=96.56  E-value=0.0066  Score=59.33  Aligned_cols=99  Identities=18%  Similarity=0.192  Sum_probs=64.3

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLE  240 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  240 (1085)
                      .++||-+..++++.-...+++.+-+.|.||+|+||||-+..+++..-....=+.+.-.++|.+..+.-+-..|- .+.  
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK-~FA--  103 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIK-MFA--  103 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHH-HHH--
Confidence            45789998888887777789999999999999999999998888765433334455455555444333322221 110  


Q ss_pred             CCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          241 LSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       241 ~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                                 +-.-.+-.++.-++|||+.++.
T Consensus       104 -----------Q~kv~lp~grhKIiILDEADSM  125 (333)
T KOG0991|consen  104 -----------QKKVTLPPGRHKIIILDEADSM  125 (333)
T ss_pred             -----------HhhccCCCCceeEEEeeccchh
Confidence                       0000111366678899998875

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

Probab=96.56  E-value=0.011  Score=66.66  Aligned_cols=47  Identities=23%  Similarity=0.306  Sum_probs=37.4

Q ss_pred             ccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++.|.+..++++.+++.    .         ...+-+.++|++|+|||++|+++++...
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~  242 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETS  242 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhC
Confidence            456789998888877663    1         2345688999999999999999999765

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.52  E-value=0.015  Score=59.57  Aligned_cols=47  Identities=23%  Similarity=0.343  Sum_probs=37.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      -.++.|+|.+|+|||++|.++.......  -..++|++... ++...+.+
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNAARQ--GKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC-CCHHHHHH
Confidence            4799999999999999999988776533  46789999975 66655544

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.52  E-value=0.021  Score=66.97  Aligned_cols=93  Identities=19%  Similarity=0.263  Sum_probs=54.0

Q ss_pred             CccccchHHHHHHHHHHhc---c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          160 YEAFESRVSTLKSIQNALT---D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      -+++.|-+..++++.+.+.   .         ...+-+.++|++|+|||++|+.++......  |     +.++.    .
T Consensus        54 ~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~--~-----~~i~~----~  122 (495)
T TIGR01241        54 FKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--F-----FSISG----S  122 (495)
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCC--e-----eeccH----H
Confidence            3567788777666554332   1         123458899999999999999999876432  2     33321    1


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                      .+....   .+.      ....+..+++......+.+|++||++.
T Consensus       123 ~~~~~~---~g~------~~~~l~~~f~~a~~~~p~Il~iDEid~  158 (495)
T TIGR01241       123 DFVEMF---VGV------GASRVRDLFEQAKKNAPCIIFIDEIDA  158 (495)
T ss_pred             HHHHHH---hcc------cHHHHHHHHHHHHhcCCCEEEEechhh
Confidence            111110   010      112234444444456778999999865

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.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=96.49  E-value=0.018  Score=57.68  Aligned_cols=86  Identities=22%  Similarity=0.301  Sum_probs=56.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC-CCcCHHHHHHHHHHHhCCCCC----CchHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS-QTPDIKKIQGEIAEKLGLELS----DEAEYRRASRLYERL  257 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~~~l  257 (1085)
                      +||.+||+.|+||||.+..++.....+  =..+..++.. ......+-++..++.++.+..    ..+..+.+.+..++.
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~   79 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKF   79 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHH
Confidence            689999999999999988888777654  3346777763 334566777888999987632    223344444455555


Q ss_pred             HcCCcEEEEEeCC
Q 037935          258 KNENKILVILDNI  270 (1085)
Q Consensus       258 ~~~~~~LlvlDdv  270 (1085)
                      ...+.=++++|-.
T Consensus        80 ~~~~~D~vlIDT~   92 (196)
T PF00448_consen   80 RKKGYDLVLIDTA   92 (196)
T ss_dssp             HHTTSSEEEEEE-
T ss_pred             hhcCCCEEEEecC
Confidence            4344457777754

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 ....

>PRK08116 hypothetical protein; Validated

Probab=96.46  E-value=0.016  Score=61.37  Aligned_cols=75  Identities=23%  Similarity=0.263  Sum_probs=47.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENK  262 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~  262 (1085)
                      ..+.++|..|+|||.||.++++....+  -..++++++      .+++..+...+...... .    ...+.+.+. +-.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~--~~~v~~~~~------~~ll~~i~~~~~~~~~~-~----~~~~~~~l~-~~d  180 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEK--GVPVIFVNF------PQLLNRIKSTYKSSGKE-D----ENEIIRSLV-NAD  180 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEH------HHHHHHHHHHHhccccc-c----HHHHHHHhc-CCC
Confidence            458899999999999999999988654  234566653      44555665554332111 1    223444443 333


Q ss_pred             EEEEEeCCCC
Q 037935          263 ILVILDNIWK  272 (1085)
Q Consensus       263 ~LlvlDdv~~  272 (1085)
                       ||||||+..
T Consensus       181 -lLviDDlg~  189 (268)
T PRK08116        181 -LLILDDLGA  189 (268)
T ss_pred             -EEEEecccC
Confidence             899999953

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=96.45  E-value=0.046  Score=59.65  Aligned_cols=135  Identities=15%  Similarity=0.150  Sum_probs=73.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhcc--------------------CCCEEEEEEeC---CCcCHHHHHHHHHHHhCC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKK--------------------LFDRVVFSEVS---QTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~--------------------~f~~~~wv~~~---~~~~~~~~~~~i~~~l~~  239 (1085)
                      .-+-++|+.|+||||+|+.+....-...                    |-| ..|+.-.   +...++++- ++.+.+..
T Consensus        23 ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD-~~~i~~~~~~~~i~id~iR-~l~~~~~~  100 (328)
T PRK05707         23 HAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPD-NFVLEPEEADKTIKVDQVR-ELVSFVVQ  100 (328)
T ss_pred             eeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccCCCCCCCHHHHH-HHHHHHhh
Confidence            4577999999999999999988765321                    112 2222211   112222221 12222211


Q ss_pred             CCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe---------------------cC
Q 037935          240 ELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI---------------------GN  296 (1085)
Q Consensus       240 ~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv---------------------~~  296 (1085)
                      ..                ..+++-++|+|+++...  ..+.+...+-.-..++.+|+                     .+
T Consensus       101 ~~----------------~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~  164 (328)
T PRK05707        101 TA----------------QLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPL  164 (328)
T ss_pred             cc----------------ccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCC
Confidence            10                02444455678887652  33333333322222233222                     88


Q ss_pred             CCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHH
Q 037935          297 LSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTV  340 (1085)
Q Consensus       297 l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~  340 (1085)
                      ++.+++.+.+......     ...+.+..++..++|.|..+..+
T Consensus       165 ~~~~~~~~~L~~~~~~-----~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        165 PSNEESLQWLQQALPE-----SDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             cCHHHHHHHHHHhccc-----CChHHHHHHHHHcCCCHHHHHHH
Confidence            8999999888766411     11344567889999999765443

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.45  E-value=0.16  Score=56.83  Aligned_cols=88  Identities=23%  Similarity=0.226  Sum_probs=49.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCC----chHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSD----EAEYRRASRLYE  255 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~~  255 (1085)
                      ...+|.++|..|+||||.+..++...+.+ .+ .++.|+.-. .....+-++...+..+.+...    .+.........+
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~-G~-kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~  176 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRK-GF-KPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVE  176 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC-CC-CEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHH
Confidence            46899999999999999999988776643 23 455555421 222333334455555544221    122222233344


Q ss_pred             HHHcCCcEEEEEeCC
Q 037935          256 RLKNENKILVILDNI  270 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv  270 (1085)
                      +++....=++|+|-.
T Consensus       177 ~~~~~~~DvViIDTa  191 (429)
T TIGR01425       177 KFKKENFDIIIVDTS  191 (429)
T ss_pred             HHHhCCCCEEEEECC
Confidence            444334445777765

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.

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

Probab=96.44  E-value=0.012  Score=65.88  Aligned_cols=93  Identities=20%  Similarity=0.248  Sum_probs=64.8

Q ss_pred             ccccchHHHHHHHHHHhc---c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH
Q 037935          161 EAFESRVSTLKSIQNALT---D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  228 (1085)
                      .++-|.|+.+.++.+.+.   .         ...+-|-+.|++|+|||.||++++.+..+.  |     +.++.+     
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP--f-----~~isAp-----  257 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP--F-----LSISAP-----  257 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc--e-----Eeecch-----
Confidence            346688888887777654   1         234678899999999999999999998865  3     333331     


Q ss_pred             HHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          229 IQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       229 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                         +|+....+.     ..+.+.++++...+.-++++++|+++..
T Consensus       258 ---eivSGvSGE-----SEkkiRelF~~A~~~aPcivFiDeIDAI  294 (802)
T KOG0733|consen  258 ---EIVSGVSGE-----SEKKIRELFDQAKSNAPCIVFIDEIDAI  294 (802)
T ss_pred             ---hhhcccCcc-----cHHHHHHHHHHHhccCCeEEEeeccccc
Confidence               333322221     2334667777777899999999999764

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

Probab=96.43  E-value=0.0092  Score=66.80  Aligned_cols=93  Identities=19%  Similarity=0.237  Sum_probs=58.3

Q ss_pred             CccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH
Q 037935          160 YEAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  226 (1085)
                      -.++.|.+..++++.+.+.    .         ...+-+.++|++|+|||++|+++++.....  |     +.+..    
T Consensus       144 ~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~--f-----i~i~~----  212 (398)
T PTZ00454        144 YSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAT--F-----IRVVG----  212 (398)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC--E-----EEEeh----
Confidence            3457888888888877653    1         234678899999999999999999976532  3     22211    


Q ss_pred             HHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          227 KKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       227 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                      ..    +......    . ....+..++.......+.+|++|+++.
T Consensus       213 s~----l~~k~~g----e-~~~~lr~lf~~A~~~~P~ILfIDEID~  249 (398)
T PTZ00454        213 SE----FVQKYLG----E-GPRMVRDVFRLARENAPSIIFIDEVDS  249 (398)
T ss_pred             HH----HHHHhcc----h-hHHHHHHHHHHHHhcCCeEEEEECHhh
Confidence            11    1111111    0 112234455555567889999999864

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.43  E-value=0.0046  Score=66.68  Aligned_cols=47  Identities=23%  Similarity=0.277  Sum_probs=41.0

Q ss_pred             cccchHHHHHHHHHHhcc------CCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          162 AFESRVSTLKSIQNALTD------VNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~~------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .++|.++.++++++++..      ..-+++.++|++|+||||||+.+.+....
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            689999999999998862      24588999999999999999999998765

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

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.41  E-value=0.019  Score=60.14  Aligned_cols=57  Identities=26%  Similarity=0.344  Sum_probs=40.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccC----CCEEEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKL----FDRVVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      .-.++.|+|.+|+|||++|.+++........    -..++|++....++...+ .++++..+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl-~~~~~~~~   78 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERL-VQIAERFG   78 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHH-HHHHHHhc
Confidence            3479999999999999999999765332211    257899998887776544 33444443

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 .

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

Probab=96.40  E-value=0.0049  Score=72.88  Aligned_cols=138  Identities=13%  Similarity=0.161  Sum_probs=82.9

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccC-----CCEEEEEEeCCCcCHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKL-----FDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-----f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      -+.++|||++++++++.|....-.=-.++|.+|||||++|.-++...-...-     ...++=.             ++.
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sL-------------D~g  235 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSL-------------DLG  235 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEe-------------cHH
Confidence            3568999999999999998432223357899999999999988887643210     0011111             111


Q ss_pred             HHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCccc--------ccccccccCCCCCCcEEEecCCCHHHHHHHH
Q 037935          235 EKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLD--------LDTIGIPFGNDHEGYNFLIGNLSEEEAWRLF  306 (1085)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~--------~~~~~~~~~~~~~gs~ilv~~l~~~~~~~lf  306 (1085)
                      .-..+..-...-.+++..+.+.+.+.++.+|++|.+.+..-        .+.-...-|.-..|.--.|..-+.+|..++|
T Consensus       236 ~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~IGATT~~EYRk~i  315 (786)
T COG0542         236 SLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDEYRKYI  315 (786)
T ss_pred             HHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeEEEEeccHHHHHHHh
Confidence            11111111223345677777888766799999999876411        1111111122335555555677788888888


Q ss_pred             HHhc
Q 037935          307 KIMN  310 (1085)
Q Consensus       307 ~~~~  310 (1085)
                      .+-+
T Consensus       316 EKD~  319 (786)
T COG0542         316 EKDA  319 (786)
T ss_pred             hhch
Confidence            7644

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.39  E-value=0.088  Score=56.87  Aligned_cols=40  Identities=18%  Similarity=0.228  Sum_probs=30.9

Q ss_pred             HHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          168 STLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       168 ~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+.+...+..+++. .+-++|+.|+||+++|..+.+..-
T Consensus        11 ~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~Ll   51 (319)
T PRK08769         11 RAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVL   51 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHh
Confidence            3456667776666665 588999999999999999887654

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

Probab=96.38  E-value=0.042  Score=64.71  Aligned_cols=156  Identities=15%  Similarity=0.086  Sum_probs=89.5

Q ss_pred             cccchHHHHHH---HHHHhcc---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHH
Q 037935          162 AFESRVSTLKS---IQNALTD---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKI  229 (1085)
Q Consensus       162 ~~~gr~~~~~~---l~~~l~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  229 (1085)
                      ++.|-|+.+++   ++++|.+         .-.+=+-++|++|+|||-||++++-+..+.       |++++..      
T Consensus       312 DVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVP-------F~svSGS------  378 (774)
T KOG0731|consen  312 DVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVP-------FFSVSGS------  378 (774)
T ss_pred             cccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCc-------eeeechH------
Confidence            46677665554   5555652         124677899999999999999999987765       3555442      


Q ss_pred             HHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCccc-----------------ccccccccCCCCCCcEE
Q 037935          230 QGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLD-----------------LDTIGIPFGNDHEGYNF  292 (1085)
Q Consensus       230 ~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~-----------------~~~~~~~~~~~~~gs~i  292 (1085)
                        +..+-+...     ...++..+....+...++++.+|+++....                 ++++..-......+..|
T Consensus       379 --EFvE~~~g~-----~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~v  451 (774)
T KOG0731|consen  379 --EFVEMFVGV-----GASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGV  451 (774)
T ss_pred             --HHHHHhccc-----chHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcE
Confidence              112212111     022345555555567777887777654311                 11111111111122323


Q ss_pred             Ee--------------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHH
Q 037935          293 LI--------------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALT  338 (1085)
Q Consensus       293 lv--------------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  338 (1085)
                      ||                          +.-+.....++|..|+.......+...+++ |+....|.+=|..
T Consensus       452 i~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~-~a~~t~gf~gadl  522 (774)
T KOG0731|consen  452 IVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSK-LASLTPGFSGADL  522 (774)
T ss_pred             EEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHH-HHhcCCCCcHHHH
Confidence            33                          455566777888888854333344455666 8888888876543

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=96.35  E-value=0.0033  Score=57.94  Aligned_cols=24  Identities=42%  Similarity=0.556  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ||.|+|++|+||||+|+.+.+...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~~   24 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERLG   24 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Confidence            689999999999999999999764

...

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.32  E-value=0.0014  Score=65.87  Aligned_cols=61  Identities=26%  Similarity=0.463  Sum_probs=26.8

Q ss_pred             hcCCCcceEEEecCC--cccC-CchhhhccccccEEeccCccccc---ccchhhhhccccCCEEeccCCC
Q 037935          537 FKGMKKLRVVDLTRV--RLFS-LPSSIGQLTKLRMLDLTDCLQLK---FIVPNILSSFTRLEELYMGSCS  600 (1085)
Q Consensus       537 ~~~l~~Lr~L~Ls~~--~i~~-lp~~i~~L~~L~~L~Ls~~~~l~---~lp~~~~~~L~~L~~L~L~~~~  600 (1085)
                      |..+++|+.|.++.|  ++.. ++-...++++|++|+++.| +++   ++++  +.++.+|..|++.+|.
T Consensus        61 ~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~N-ki~~lstl~p--l~~l~nL~~Ldl~n~~  127 (260)
T KOG2739|consen   61 FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGN-KIKDLSTLRP--LKELENLKSLDLFNCS  127 (260)
T ss_pred             CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCC-ccccccccch--hhhhcchhhhhcccCC
Confidence            334455555555555  2221 3323334455555555555 433   2222  2444444455554444

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.29  E-value=0.018  Score=63.23  Aligned_cols=88  Identities=18%  Similarity=0.194  Sum_probs=53.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      -++++++|+.|+||||++..+......+.....+..++... .....+-++...+.++.+................+  .
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l--~  214 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAEL--R  214 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHh--c
Confidence            47999999999999999999998765332223566665422 23445566666777776553322222233344444  3


Q ss_pred             CcEEEEEeCCC
Q 037935          261 NKILVILDNIW  271 (1085)
Q Consensus       261 ~~~LlvlDdv~  271 (1085)
                      ++-++++|..-
T Consensus       215 ~~DlVLIDTaG  225 (374)
T PRK14722        215 NKHMVLIDTIG  225 (374)
T ss_pred             CCCEEEEcCCC
Confidence            34556688864

>PRK08181 transposase; Validated

Probab=96.27  E-value=0.11  Score=54.88  Aligned_cols=78  Identities=19%  Similarity=0.188  Sum_probs=48.0

Q ss_pred             HHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHH
Q 037935          175 NALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLY  254 (1085)
Q Consensus       175 ~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~  254 (1085)
                      +|+.  ...-+.++|.+|+|||.||.++.+....+  ...+.|+++      .++...+......    .    ......
T Consensus       101 ~~~~--~~~nlll~Gp~GtGKTHLa~Aia~~a~~~--g~~v~f~~~------~~L~~~l~~a~~~----~----~~~~~l  162 (269)
T PRK08181        101 SWLA--KGANLLLFGPPGGGKSHLAAAIGLALIEN--GWRVLFTRT------TDLVQKLQVARRE----L----QLESAI  162 (269)
T ss_pred             HHHh--cCceEEEEecCCCcHHHHHHHHHHHHHHc--CCceeeeeH------HHHHHHHHHHHhC----C----cHHHHH
Confidence            4554  33568999999999999999999876543  224555543      4455555433211    1    122334


Q ss_pred             HHHHcCCcEEEEEeCCCC
Q 037935          255 ERLKNENKILVILDNIWK  272 (1085)
Q Consensus       255 ~~l~~~~~~LlvlDdv~~  272 (1085)
                      +.+  .+.=|||+||+..
T Consensus       163 ~~l--~~~dLLIIDDlg~  178 (269)
T PRK08181        163 AKL--DKFDLLILDDLAY  178 (269)
T ss_pred             HHH--hcCCEEEEecccc
Confidence            444  3455999999854

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.26  E-value=0.039  Score=57.16  Aligned_cols=89  Identities=19%  Similarity=0.273  Sum_probs=53.1

Q ss_pred             HHHHHHHHhcc--CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchH
Q 037935          169 TLKSIQNALTD--VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAE  246 (1085)
Q Consensus       169 ~~~~l~~~l~~--~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~  246 (1085)
                      .+..+.++..+  .+...+.++|.+|+|||+||.++++....++  ..++++++      .++...+-..+..  .... 
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g--~~v~~it~------~~l~~~l~~~~~~--~~~~-  152 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRG--KSVLIITV------ADIMSAMKDTFSN--SETS-  152 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEEH------HHHHHHHHHHHhh--cccc-
Confidence            34444444432  2345788999999999999999999876542  34566643      4455555444421  1111 


Q ss_pred             HHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          247 YRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       247 ~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                         ...+.+.+.  +.=+||+||+...
T Consensus       153 ---~~~~l~~l~--~~dlLvIDDig~~  174 (244)
T PRK07952        153 ---EEQLLNDLS--NVDLLVIDEIGVQ  174 (244)
T ss_pred             ---HHHHHHHhc--cCCEEEEeCCCCC
Confidence               223444452  4448888998654

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

Probab=96.25  E-value=0.014  Score=58.14  Aligned_cols=92  Identities=25%  Similarity=0.350  Sum_probs=63.8

Q ss_pred             ccccchHHHHHH---HHHHhcc------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          161 EAFESRVSTLKS---IQNALTD------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       161 ~~~~gr~~~~~~---l~~~l~~------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      ++++|.+..+.+   |+++|.+      -..+-|..+|++|.|||-+|+++.+..++-  |     +.+..       .+
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp--~-----l~vka-------t~  186 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVP--L-----LLVKA-------TE  186 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCc--e-----EEech-------HH
Confidence            457888776544   5677763      356889999999999999999999988754  2     22211       12


Q ss_pred             HHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          232 EIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       232 ~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                      -|-+..|      +....+.++.+...+.-+|++.+|.++.
T Consensus       187 liGehVG------dgar~Ihely~rA~~~aPcivFiDE~DA  221 (368)
T COG1223         187 LIGEHVG------DGARRIHELYERARKAAPCIVFIDELDA  221 (368)
T ss_pred             HHHHHhh------hHHHHHHHHHHHHHhcCCeEEEehhhhh
Confidence            2222222      2244577788888788999999998754

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

Probab=96.19  E-value=0.091  Score=62.54  Aligned_cols=103  Identities=17%  Similarity=0.264  Sum_probs=63.7

Q ss_pred             ccccchHHHHHHHHHHhc---------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALT---------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~---------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      ..++|.+..++.+.+.+.         +..+++...+|+.|||||-||++++...-...  +..+-++.|      +...
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e--~aliR~DMS------Ey~E  562 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDE--QALIRIDMS------EYME  562 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCC--ccceeechH------HHHH
Confidence            457899999999988875         23567888999999999999999998763211  233333333      3222


Q ss_pred             --HHHHHhCCCCCCchHHHHHHHHHHHHHcCCcE-EEEEeCCCCc
Q 037935          232 --EIAEKLGLELSDEAEYRRASRLYERLKNENKI-LVILDNIWKY  273 (1085)
Q Consensus       232 --~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~-LlvlDdv~~~  273 (1085)
                        .+-+-+|.++.-... +.-..+.+..+ .++| +|+||+|...
T Consensus       563 kHsVSrLIGaPPGYVGy-eeGG~LTEaVR-r~PySViLlDEIEKA  605 (786)
T COG0542         563 KHSVSRLIGAPPGYVGY-EEGGQLTEAVR-RKPYSVILLDEIEKA  605 (786)
T ss_pred             HHHHHHHhCCCCCCcee-ccccchhHhhh-cCCCeEEEechhhhc
Confidence              222333443321111 11234555565 6767 8888999764

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.19  E-value=0.022  Score=59.38  Aligned_cols=90  Identities=23%  Similarity=0.381  Sum_probs=57.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCC-CEEEEEEeCCCc-CHHHHHHHHHHHhCCC-------CCCchHH----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLF-DRVVFSEVSQTP-DIKKIQGEIAEKLGLE-------LSDEAEY----  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~~----  247 (1085)
                      .-..++|+|.+|+|||||++.+++..+.+  | +.++++-+.+.. .+.++.+++...-...       ..+....    
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~~--~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  145 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAKA--HGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARAR  145 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHhc--CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            44688999999999999999999988754  4 456667776544 4666766665432111       1111111    


Q ss_pred             --HHHHHHHHHHH-c-CCcEEEEEeCCCC
Q 037935          248 --RRASRLYERLK-N-ENKILVILDNIWK  272 (1085)
Q Consensus       248 --~~~~~~~~~l~-~-~~~~LlvlDdv~~  272 (1085)
                        .....+.++++ + ++.+|+++||+..
T Consensus       146 ~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr  174 (274)
T cd01133         146 VALTGLTMAEYFRDEEGQDVLLFIDNIFR  174 (274)
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeChhH
Confidence              11223444444 3 8999999999743

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.

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.17  E-value=0.00056  Score=68.45  Aligned_cols=79  Identities=27%  Similarity=0.361  Sum_probs=36.5

Q ss_pred             cceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhh
Q 037935          542 KLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELM  621 (1085)
Q Consensus       542 ~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~  621 (1085)
                      +.+.|++-|+.++.+. -+.+++.|++|.||-| +|+++.+  +..+++|++|+|+.|.|.          .-..+..|.
T Consensus        20 ~vkKLNcwg~~L~DIs-ic~kMp~lEVLsLSvN-kIssL~p--l~rCtrLkElYLRkN~I~----------sldEL~YLk   85 (388)
T KOG2123|consen   20 NVKKLNCWGCGLDDIS-ICEKMPLLEVLSLSVN-KISSLAP--LQRCTRLKELYLRKNCIE----------SLDELEYLK   85 (388)
T ss_pred             HhhhhcccCCCccHHH-HHHhcccceeEEeecc-ccccchh--HHHHHHHHHHHHHhcccc----------cHHHHHHHh
Confidence            3444444444444432 2234445555555555 4554443  445555555555555442          122334445


Q ss_pred             cCCCCcEEEEEec
Q 037935          622 HLQRLTTLEIDVE  634 (1085)
Q Consensus       622 ~L~~L~~L~l~~~  634 (1085)
                      ++++|+.|-|..|
T Consensus        86 nlpsLr~LWL~EN   98 (388)
T KOG2123|consen   86 NLPSLRTLWLDEN   98 (388)
T ss_pred             cCchhhhHhhccC
Confidence            5555555555443

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.13  E-value=0.27  Score=55.68  Aligned_cols=87  Identities=24%  Similarity=0.329  Sum_probs=53.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCC----chHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSD----EAEYRRASRLYE  255 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~~  255 (1085)
                      ...+|.++|..|+||||.|..++.....++ + .++-|++.. .....+.++.++++++.+...    .+....+....+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g-~-kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~  171 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKG-L-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLE  171 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcC-C-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHH
Confidence            467999999999999999999998776442 3 344454432 122345566777777665322    122233334444


Q ss_pred             HHHcCCcEEEEEeCCC
Q 037935          256 RLKNENKILVILDNIW  271 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv~  271 (1085)
                      ... .. =+||+|..-
T Consensus       172 ~~~-~~-DvVIIDTAG  185 (437)
T PRK00771        172 KFK-KA-DVIIVDTAG  185 (437)
T ss_pred             Hhh-cC-CEEEEECCC
Confidence            443 33 568888763

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

Probab=96.13  E-value=0.027  Score=59.07  Aligned_cols=76  Identities=20%  Similarity=0.243  Sum_probs=49.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      +..-+.++|.+|+|||.||.++.++.. +..+ .+.++++      .++..++.......    .   ....+.+.+  .
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~-sv~f~~~------~el~~~Lk~~~~~~----~---~~~~l~~~l--~  166 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL-KAGI-SVLFITA------PDLLSKLKAAFDEG----R---LEEKLLREL--K  166 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH-HcCC-eEEEEEH------HHHHHHHHHHHhcC----c---hHHHHHHHh--h
Confidence            667899999999999999999999988 4333 3555554      45666666555431    1   112233323  3


Q ss_pred             CcEEEEEeCCCCc
Q 037935          261 NKILVILDNIWKY  273 (1085)
Q Consensus       261 ~~~LlvlDdv~~~  273 (1085)
                      +-=||||||+-..
T Consensus       167 ~~dlLIiDDlG~~  179 (254)
T COG1484         167 KVDLLIIDDIGYE  179 (254)
T ss_pred             cCCEEEEecccCc
Confidence            4458999998653

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.11  E-value=0.029  Score=60.09  Aligned_cols=87  Identities=20%  Similarity=0.279  Sum_probs=49.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN  259 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~  259 (1085)
                      ..++++|+|++|+||||++..+......+..-..+..|+.... ......+....+.++.+.........+....+.+. 
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~~-  271 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRLR-  271 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHcc-
Confidence            4579999999999999999998887654311124555665321 12233334444555554432222233444444442 


Q ss_pred             CCcEEEEEeC
Q 037935          260 ENKILVILDN  269 (1085)
Q Consensus       260 ~~~~LlvlDd  269 (1085)
                      + .=+|++|.
T Consensus       272 ~-~d~vliDt  280 (282)
T TIGR03499       272 D-KDLILIDT  280 (282)
T ss_pred             C-CCEEEEeC
Confidence            3 34677775

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

Probab=96.10  E-value=0.018  Score=63.46  Aligned_cols=92  Identities=24%  Similarity=0.273  Sum_probs=61.7

Q ss_pred             cccchH---HHHHHHHHHhccC--------C-ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHH
Q 037935          162 AFESRV---STLKSIQNALTDV--------N-VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKI  229 (1085)
Q Consensus       162 ~~~gr~---~~~~~l~~~l~~~--------~-~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  229 (1085)
                      ++-|-|   .++++|+++|.+.        + .+-|-++|++|.|||-||++|+-+..+.  |    |.....+|+    
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP--F----F~~sGSEFd----  374 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP--F----FYASGSEFD----  374 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC--e----Eeccccchh----
Confidence            345655   4677888888742        2 3678899999999999999999887764  2    222222222    


Q ss_pred             HHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          230 QGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       230 ~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                        +++--.        ...++..++...++.-+|+|.+|.++..
T Consensus       375 --Em~VGv--------GArRVRdLF~aAk~~APcIIFIDEiDav  408 (752)
T KOG0734|consen  375 --EMFVGV--------GARRVRDLFAAAKARAPCIIFIDEIDAV  408 (752)
T ss_pred             --hhhhcc--------cHHHHHHHHHHHHhcCCeEEEEechhhh
Confidence              111111        1344666777777789999999998754

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.07  E-value=0.0038  Score=62.79  Aligned_cols=81  Identities=19%  Similarity=0.287  Sum_probs=35.1

Q ss_pred             cceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc--hhhhccccccEEe
Q 037935          493 KCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP--SSIGQLTKLRMLD  570 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp--~~i~~L~~L~~L~  570 (1085)
                      .+.++++.+..++.+.....+++|+.|.++.|..-....++.- ..++++|++|++++|+|..+.  ..+..+.+|..|+
T Consensus        44 ~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl-~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~Ld  122 (260)
T KOG2739|consen   44 ELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVL-AEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLD  122 (260)
T ss_pred             chhhhhhhccceeecccCCCcchhhhhcccCCcccccccceeh-hhhCCceeEEeecCCccccccccchhhhhcchhhhh
Confidence            3444445554444444444455555555555521001111111 223355555555555544311  1234445555555


Q ss_pred             ccCc
Q 037935          571 LTDC  574 (1085)
Q Consensus       571 Ls~~  574 (1085)
                      +.+|
T Consensus       123 l~n~  126 (260)
T KOG2739|consen  123 LFNC  126 (260)
T ss_pred             cccC
Confidence            5555

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

Probab=96.06  E-value=0.25  Score=49.18  Aligned_cols=92  Identities=21%  Similarity=0.253  Sum_probs=57.4

Q ss_pred             cccchHHHHHHHHHHhc-------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH
Q 037935          162 AFESRVSTLKSIQNALT-------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  228 (1085)
                      ++-|.|..++++.+..+             -+..+-|.++|++|+|||.||++|+++....  |     +.|...    +
T Consensus       156 diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~--f-----irvvgs----e  224 (408)
T KOG0727|consen  156 DIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAA--F-----IRVVGS----E  224 (408)
T ss_pred             ccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchh--e-----eeeccH----H
Confidence            45577777777776654             1345778899999999999999999987643  4     333221    1


Q ss_pred             HHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          229 IQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       229 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      +   .-+.+|...      ..+..+++-.+.+.+-+|.+|.|+..
T Consensus       225 f---vqkylgegp------rmvrdvfrlakenapsiifideidai  260 (408)
T KOG0727|consen  225 F---VQKYLGEGP------RMVRDVFRLAKENAPSIIFIDEIDAI  260 (408)
T ss_pred             H---HHHHhccCc------HHHHHHHHHHhccCCcEEEeehhhhH
Confidence            1   122333321      11233444444678889999988643

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.05  E-value=0.3  Score=52.74  Aligned_cols=39  Identities=18%  Similarity=0.265  Sum_probs=29.5

Q ss_pred             HHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          169 TLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       169 ~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+++...+..+++ ..+-+.|+.|+||+++|+.+....-
T Consensus        11 ~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~ll   50 (319)
T PRK06090         11 VWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALL   50 (319)
T ss_pred             HHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHc
Confidence            34556666655554 4688999999999999999887653

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.02  E-value=0.078  Score=60.53  Aligned_cols=74  Identities=16%  Similarity=0.271  Sum_probs=45.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNEN  261 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~  261 (1085)
                      ..-+.|+|+.|+|||+|++++.+.....  -..+++++.      ..+...+...+...        ....+.+..  ..
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~--~~~v~yi~~------~~f~~~~~~~l~~~--------~~~~f~~~~--~~  202 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRES--GGKILYVRS------ELFTEHLVSAIRSG--------EMQRFRQFY--RN  202 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHc--CCCEEEeeH------HHHHHHHHHHHhcc--------hHHHHHHHc--cc
Confidence            3568899999999999999999987643  223455543      34444555554321        112222222  33


Q ss_pred             cEEEEEeCCCCc
Q 037935          262 KILVILDNIWKY  273 (1085)
Q Consensus       262 ~~LlvlDdv~~~  273 (1085)
                      .-+|++||+...
T Consensus       203 ~dvLiIDDiq~l  214 (445)
T PRK12422        203 VDALFIEDIEVF  214 (445)
T ss_pred             CCEEEEcchhhh
Confidence            447888998654

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=96.01  E-value=0.044  Score=57.63  Aligned_cols=88  Identities=28%  Similarity=0.399  Sum_probs=56.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhcc----CCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC-------------ch
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKK----LFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD-------------EA  245 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------------~~  245 (1085)
                      .++=|+|.+|+|||.|+-+++-......    .=..++|++-...|+.+.+. +|++..+.+..+             ..
T Consensus        39 ~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~~~  117 (256)
T PF08423_consen   39 SITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDLEE  117 (256)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSHHH
T ss_pred             cEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCHHH
Confidence            6899999999999999988876544321    12469999999999988875 566665432210             01


Q ss_pred             HHHHHHHHHHHHHcCCcEEEEEeCCC
Q 037935          246 EYRRASRLYERLKNENKILVILDNIW  271 (1085)
Q Consensus       246 ~~~~~~~~~~~l~~~~~~LlvlDdv~  271 (1085)
                      -...+..+...+.+.+--|||+|.+-
T Consensus       118 l~~~L~~l~~~l~~~~ikLIVIDSIa  143 (256)
T PF08423_consen  118 LLELLEQLPKLLSESKIKLIVIDSIA  143 (256)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred             HHHHHHHHHhhccccceEEEEecchH
Confidence            11222333333434666788889874

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 ....

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=96.00  E-value=0.07  Score=62.11  Aligned_cols=38  Identities=29%  Similarity=0.398  Sum_probs=27.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      ..+.|+|..|+|||.|++++++.......--.+++++.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita  352 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS  352 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence            45899999999999999999998754211123556554

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.00  E-value=0.043  Score=62.32  Aligned_cols=89  Identities=20%  Similarity=0.273  Sum_probs=49.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN  259 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~  259 (1085)
                      ..++|+|+|.+|+||||++..+......+.....+..++... .......++...+.++...........+....+.+  
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l--  426 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERL--  426 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHh--
Confidence            358999999999999999998887654332223455555422 11222333333444444333222223344444554  


Q ss_pred             CCcEEEEEeCCC
Q 037935          260 ENKILVILDNIW  271 (1085)
Q Consensus       260 ~~~~LlvlDdv~  271 (1085)
                      .+.=+||+|..-
T Consensus       427 ~~~DLVLIDTaG  438 (559)
T PRK12727        427 RDYKLVLIDTAG  438 (559)
T ss_pred             ccCCEEEecCCC
Confidence            234577788753

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.96  E-value=0.027  Score=55.90  Aligned_cols=36  Identities=31%  Similarity=0.533  Sum_probs=28.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEE
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFS  218 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv  218 (1085)
                      ...+|.++|+.|+||||+|+.++......  +..++++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~--~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLK--YSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEE
Confidence            44699999999999999999999988643  5555554

>PRK06696 uridine kinase; Validated

Probab=95.94  E-value=0.012  Score=60.75  Aligned_cols=44  Identities=23%  Similarity=0.348  Sum_probs=36.6

Q ss_pred             chHHHHHHHHHHhc---cCCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          165 SRVSTLKSIQNALT---DVNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       165 gr~~~~~~l~~~l~---~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .|+..+++|.+.+.   .+...+|+|.|.+|+||||+|+.+......
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            46777788887774   356789999999999999999999998754

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=95.94  E-value=0.14  Score=56.24  Aligned_cols=46  Identities=20%  Similarity=0.216  Sum_probs=35.6

Q ss_pred             cccc-hHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          162 AFES-RVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       162 ~~~g-r~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++| -+...+.+...+..+++. ..-++|+.|+||||+|+.+.+..-
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~   53 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLF   53 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHC
Confidence            3556 666777777777766654 558999999999999999988754

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=95.93  E-value=0.043  Score=68.01  Aligned_cols=47  Identities=19%  Similarity=0.256  Sum_probs=38.4

Q ss_pred             ccccchHHHHHHHHHHhc---------cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALT---------DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~---------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|.+..++.+.+.+.         +....++.++|+.|+|||.+|+.+....-
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~  621 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLY  621 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            458899999999888774         12346889999999999999999988763

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.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.93  E-value=0.062  Score=58.59  Aligned_cols=58  Identities=22%  Similarity=0.274  Sum_probs=43.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhh---cc-CCCEEEEEEeCCCcCHHHHHHHHHHHhCCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQARE---KK-LFDRVVFSEVSQTPDIKKIQGEIAEKLGLE  240 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~---~~-~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  240 (1085)
                      -+++-|+|.+|+|||+|+.+++-....   .+ .-..++||+....|.+.++.+ +++.++.+
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d  187 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMD  187 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            478889999999999999888654332   11 124689999999999888755 56666654

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.93  E-value=0.016  Score=66.41  Aligned_cols=75  Identities=23%  Similarity=0.280  Sum_probs=56.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      .-++.-++|++|.||||||.-+++...    | .++=|++|+..+...+-..|...+.......             ..+
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq~~s~l~-------------ads  386 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQNHSVLD-------------ADS  386 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHhhccccc-------------cCC
Confidence            458999999999999999999998765    3 3777899998888888777776554321110             037


Q ss_pred             CcEEEEEeCCCCc
Q 037935          261 NKILVILDNIWKY  273 (1085)
Q Consensus       261 ~~~LlvlDdv~~~  273 (1085)
                      ++.-||+|.++..
T Consensus       387 rP~CLViDEIDGa  399 (877)
T KOG1969|consen  387 RPVCLVIDEIDGA  399 (877)
T ss_pred             CcceEEEecccCC
Confidence            8888999998754

>TIGR02012 tigrfam_recA protein RecA

Probab=95.92  E-value=0.03  Score=60.14  Aligned_cols=86  Identities=20%  Similarity=0.266  Sum_probs=54.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC------CchHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS------DEAEYRRASRLY  254 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~  254 (1085)
                      .-+++-|+|++|+||||||.++.......  =..++||+....++..     .+++++.+..      .....+.+..+.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~--g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~  126 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAE  126 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            34799999999999999999887766533  2457899887766653     3555554321      112222233332


Q ss_pred             HHHHcCCcEEEEEeCCCCc
Q 037935          255 ERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       255 ~~l~~~~~~LlvlDdv~~~  273 (1085)
                      ..++++..-++|+|.|...
T Consensus       127 ~li~~~~~~lIVIDSv~al  145 (321)
T TIGR02012       127 TLVRSGAVDIIVVDSVAAL  145 (321)
T ss_pred             HHhhccCCcEEEEcchhhh
Confidence            3333566779999998643

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.92  E-value=0.088  Score=65.05  Aligned_cols=92  Identities=18%  Similarity=0.265  Sum_probs=55.3

Q ss_pred             ccccchHHHHHHHHHHhc-------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALT-------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      ..+.|.+..++.+.+.+.             -...+-+.++|++|+|||++|+++++.....  |     +.+...    
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~--f-----i~v~~~----  521 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGAN--F-----IAVRGP----  521 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC--E-----EEEehH----
Confidence            446788877777766543             0233568899999999999999999987532  3     223211    


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                          +++...    ... ....+..+++......+.+|++|+++.
T Consensus       522 ----~l~~~~----vGe-se~~i~~~f~~A~~~~p~iifiDEid~  557 (733)
T TIGR01243       522 ----EILSKW----VGE-SEKAIREIFRKARQAAPAIIFFDEIDA  557 (733)
T ss_pred             ----HHhhcc----cCc-HHHHHHHHHHHHHhcCCEEEEEEChhh
Confidence                111111    111 122344555555556778888888754

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.91  E-value=0.046  Score=56.81  Aligned_cols=30  Identities=27%  Similarity=0.432  Sum_probs=26.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      +...+++|.|..|.|||||++.+.......
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            567899999999999999999999877654

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.90  E-value=0.4  Score=59.92  Aligned_cols=47  Identities=21%  Similarity=0.282  Sum_probs=37.2

Q ss_pred             ccccchHHHHHHHHHHhcc---------CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTD---------VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|.+..++.+...+..         ....++.++|+.|+|||++|+.+++...
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~  623 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMF  623 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhh
Confidence            3578999988888877651         1235788999999999999999998653

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.90  E-value=0.048  Score=58.96  Aligned_cols=58  Identities=28%  Similarity=0.359  Sum_probs=43.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc----cCCCEEEEEEeCCCcCHHHHHHHHHHHhCCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK----KLFDRVVFSEVSQTPDIKKIQGEIAEKLGLE  240 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  240 (1085)
                      -+++-|+|.+|+|||+++.+++-.....    +.=..++||+....|+++++. ++++.++.+
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d  157 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVD  157 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCC
Confidence            4788999999999999998876543321    112468999999999988875 456766654

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=95.83  E-value=0.01  Score=69.87  Aligned_cols=50  Identities=16%  Similarity=0.275  Sum_probs=40.5

Q ss_pred             CCCccccchHHHHHHHHHHhcc-----CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          158 KGYEAFESRVSTLKSIQNALTD-----VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       158 ~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...++++|-++.++++..++..     ...+++.|+|++|+||||+++.++....
T Consensus        81 ~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        81 ETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3446688999989999888863     2335799999999999999999998654

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

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

Probab=95.82  E-value=0.016  Score=57.17  Aligned_cols=75  Identities=32%  Similarity=0.409  Sum_probs=45.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      +..-+.++|..|+|||.||.++.+....++ + .+.|+++      .+++..+-.    ......    .....+.+.  
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g-~-~v~f~~~------~~L~~~l~~----~~~~~~----~~~~~~~l~--  107 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRKG-Y-SVLFITA------SDLLDELKQ----SRSDGS----YEELLKRLK--  107 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHTT----EEEEEH------HHHHHHHHC----CHCCTT----HCHHHHHHH--
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccCC-c-ceeEeec------Cceeccccc----cccccc----hhhhcCccc--
Confidence            346799999999999999999998776532 3 3566654      344444432    211111    223445553  


Q ss_pred             CcEEEEEeCCCCc
Q 037935          261 NKILVILDNIWKY  273 (1085)
Q Consensus       261 ~~~LlvlDdv~~~  273 (1085)
                      +-=|||+||+-..
T Consensus       108 ~~dlLilDDlG~~  120 (178)
T PF01695_consen  108 RVDLLILDDLGYE  120 (178)
T ss_dssp             TSSCEEEETCTSS
T ss_pred             cccEeccccccee
Confidence            4457789998654

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.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.81  E-value=0.045  Score=56.92  Aligned_cols=49  Identities=24%  Similarity=0.307  Sum_probs=36.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhcc----CCCEEEEEEeCCCcCHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKK----LFDRVVFSEVSQTPDIKKIQ  230 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~  230 (1085)
                      -.++.|+|.+|+|||++|.++.......+    .=..++|++....++...+.
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH
Confidence            47999999999999999999877654221    01468899988777765543

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.81  E-value=0.08  Score=57.75  Aligned_cols=89  Identities=21%  Similarity=0.269  Sum_probs=49.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN  259 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~  259 (1085)
                      +.++|+++|.+|+||||++..++.....++ + .+..++.... ....+-++..++.++.+.....+...+....+.+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~G-k-kVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~  317 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKK-K-TVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKE  317 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHcC-C-cEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHh
Confidence            457999999999999999999988765332 2 3445554321 122333344445555553322222333344444432


Q ss_pred             -CCcEEEEEeCCC
Q 037935          260 -ENKILVILDNIW  271 (1085)
Q Consensus       260 -~~~~LlvlDdv~  271 (1085)
                       .+.=++++|-.-
T Consensus       318 ~~~~DvVLIDTaG  330 (436)
T PRK11889        318 EARVDYILIDTAG  330 (436)
T ss_pred             ccCCCEEEEeCcc
Confidence             123466777653

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

Probab=95.78  E-value=0.062  Score=62.26  Aligned_cols=92  Identities=21%  Similarity=0.290  Sum_probs=64.7

Q ss_pred             ccccchHHHHHHHHHHhc---------cC---CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH
Q 037935          161 EAFESRVSTLKSIQNALT---------DV---NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~---------~~---~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  228 (1085)
                      +++-|-++.+.+|.+-+.         ..   +.+-|-+||++|.|||-+|++|+.+..-       .|++|-.+     
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL-------~FlSVKGP-----  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSL-------NFLSVKGP-----  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhcee-------eEEeecCH-----
Confidence            346688888888888654         22   2356788999999999999999998763       34666442     


Q ss_pred             HHHHHHH-HhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          229 IQGEIAE-KLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       229 ~~~~i~~-~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                         +++. .+|.      ..+.+.+++++.++.++|.|.||++++.
T Consensus       740 ---ELLNMYVGq------SE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  740 ---ELLNMYVGQ------SEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             ---HHHHHHhcc------hHHHHHHHHHHhhccCCeEEEecccccc
Confidence               2222 2221      1334667778888899999999998654

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

Probab=95.75  E-value=0.039  Score=59.19  Aligned_cols=30  Identities=20%  Similarity=0.271  Sum_probs=26.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      .....+.|||++|+|||.+|++++++....
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~~  175 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGIE  175 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence            345799999999999999999999998754

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.74  E-value=0.059  Score=55.95  Aligned_cols=45  Identities=22%  Similarity=0.387  Sum_probs=35.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKI  229 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  229 (1085)
                      -.++.|+|.+|+|||++|.+++......  -..++|++.. .++...+
T Consensus        23 g~i~~i~G~~GsGKT~l~~~la~~~~~~--~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         23 GTITQIYGPPGSGKTNICLQLAVEAAKN--GKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEECC-CCCHHHH
Confidence            4799999999999999999998876533  3678999987 5555444

>PRK06921 hypothetical protein; Provisional

Probab=95.74  E-value=0.046  Score=57.80  Aligned_cols=72  Identities=19%  Similarity=0.308  Sum_probs=45.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      ....+.++|..|+|||.||.++++....+.. ..+++++..      +++..+...+          .......+.+  .
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g-~~v~y~~~~------~l~~~l~~~~----------~~~~~~~~~~--~  176 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKG-VPVLYFPFV------EGFGDLKDDF----------DLLEAKLNRM--K  176 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcC-ceEEEEEHH------HHHHHHHHHH----------HHHHHHHHHh--c
Confidence            4567899999999999999999998764312 345666642      3333332222          1122233444  3


Q ss_pred             CcEEEEEeCCC
Q 037935          261 NKILVILDNIW  271 (1085)
Q Consensus       261 ~~~LlvlDdv~  271 (1085)
                      +-=|||+||+.
T Consensus       177 ~~dlLiIDDl~  187 (266)
T PRK06921        177 KVEVLFIDDLF  187 (266)
T ss_pred             CCCEEEEeccc
Confidence            45699999993

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.73  E-value=0.037  Score=59.47  Aligned_cols=84  Identities=24%  Similarity=0.291  Sum_probs=53.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC------CchHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS------DEAEYRRASRLYE  255 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~~  255 (1085)
                      -+++-|+|++|+||||||.+++......  -..++||+....+++.     .+++++.+.+      ..+..+....+..
T Consensus        55 G~iteI~Gp~GsGKTtLal~~~~~~~~~--g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~~  127 (325)
T cd00983          55 GRIIEIYGPESSGKTTLALHAIAEAQKL--GGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIADS  127 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHHH
Confidence            4789999999999999999987766533  3468899988777653     3444544321      1122222222222


Q ss_pred             HHHcCCcEEEEEeCCCC
Q 037935          256 RLKNENKILVILDNIWK  272 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv~~  272 (1085)
                      .+.++.--++|+|-|..
T Consensus       128 li~s~~~~lIVIDSvaa  144 (325)
T cd00983         128 LVRSGAVDLIVVDSVAA  144 (325)
T ss_pred             HHhccCCCEEEEcchHh
Confidence            23356677999998754

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=95.72  E-value=0.014  Score=66.44  Aligned_cols=47  Identities=17%  Similarity=0.251  Sum_probs=41.0

Q ss_pred             cccchHHHHHHHHHHhc------cCCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          162 AFESRVSTLKSIQNALT------DVNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +++|.++.+++|++.|.      +..-+++.++|++|+||||||+.+.+-.+.
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~  129 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMER  129 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHh
Confidence            47899999999999883      455689999999999999999999997753

>PRK09354 recA recombinase A; Provisional

Probab=95.72  E-value=0.044  Score=59.44  Aligned_cols=85  Identities=20%  Similarity=0.272  Sum_probs=55.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC------CchHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS------DEAEYRRASRLYE  255 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~~  255 (1085)
                      -+++-|+|++|+||||||.++.......  =..++||+....++..     .+++++.+.+      .....+.+..+..
T Consensus        60 G~IteI~G~~GsGKTtLal~~~~~~~~~--G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~~~  132 (349)
T PRK09354         60 GRIVEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIADT  132 (349)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHH
Confidence            4799999999999999999988766533  3568999998877763     4555554321      1122222233333


Q ss_pred             HHHcCCcEEEEEeCCCCc
Q 037935          256 RLKNENKILVILDNIWKY  273 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv~~~  273 (1085)
                      .++++..-+||+|-|...
T Consensus       133 li~s~~~~lIVIDSvaaL  150 (349)
T PRK09354        133 LVRSGAVDLIVVDSVAAL  150 (349)
T ss_pred             HhhcCCCCEEEEeChhhh
Confidence            334566779999998543

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.71  E-value=0.069  Score=52.16  Aligned_cols=40  Identities=33%  Similarity=0.485  Sum_probs=31.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcC
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPD  225 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  225 (1085)
                      ++.|+|.+|+||||+++.+......+  -..++|++......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATK--GGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhc--CCEEEEEECCcchH
Confidence            46899999999999999998877542  35678888765543

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.

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

Probab=95.70  E-value=0.043  Score=61.71  Aligned_cols=72  Identities=26%  Similarity=0.325  Sum_probs=50.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNEN  261 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~  261 (1085)
                      ..-|-+||++|+|||-||++|+++.+..  |     ++|..+        +++...-+    + ....+..++++.+...
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~N--F-----isVKGP--------ELlNkYVG----E-SErAVR~vFqRAR~sa  604 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGAN--F-----ISVKGP--------ELLNKYVG----E-SERAVRQVFQRARASA  604 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCc--e-----EeecCH--------HHHHHHhh----h-HHHHHHHHHHHhhcCC
Confidence            4567899999999999999999998754  4     555442        22222211    1 1233556777777899


Q ss_pred             cEEEEEeCCCCc
Q 037935          262 KILVILDNIWKY  273 (1085)
Q Consensus       262 ~~LlvlDdv~~~  273 (1085)
                      +|+|.||.++..
T Consensus       605 PCVIFFDEiDaL  616 (802)
T KOG0733|consen  605 PCVIFFDEIDAL  616 (802)
T ss_pred             CeEEEecchhhc
Confidence            999999998643

>PTZ00494 tuzin-like protein; Provisional

Probab=95.68  E-value=0.6  Score=51.13  Aligned_cols=144  Identities=13%  Similarity=0.145  Sum_probs=86.3

Q ss_pred             CCCccccchHHHHHHHHHHhc---cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          158 KGYEAFESRVSTLKSIQNALT---DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       158 ~~~~~~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      .....++.|+.+-..+...|.   ..+.+++.+.|..|+||++|.+.........     .++|+|...   ++-++.+.
T Consensus       368 a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE~~p-----aV~VDVRg~---EDtLrsVV  439 (664)
T PTZ00494        368 AAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVEGVA-----LVHVDVGGT---EDTLRSVV  439 (664)
T ss_pred             cccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHcCCC-----eEEEEecCC---cchHHHHH
Confidence            345668899887666655554   4578999999999999999999888776543     567888654   34567788


Q ss_pred             HHhCCCCCCc--hHHHHHHHHHHHHH---cCCcEEEEEeCCCCccccccc---ccccCCCCCCcEEEe------------
Q 037935          235 EKLGLELSDE--AEYRRASRLYERLK---NENKILVILDNIWKYLDLDTI---GIPFGNDHEGYNFLI------------  294 (1085)
Q Consensus       235 ~~l~~~~~~~--~~~~~~~~~~~~l~---~~~~~LlvlDdv~~~~~~~~~---~~~~~~~~~gs~ilv------------  294 (1085)
                      +.++.+.-+.  +-.+-+.+....-+   .++.=+||+- +.+...+..+   ...+.....-+.|++            
T Consensus       440 KALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlk-LREGssL~RVYnE~vaLacDrRlCHvv~EVplESLT~~n~  518 (664)
T PTZ00494        440 RALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMR-LREGSDLGRVYGEVVSLVSDCQACHIVLAVPMKALTPLNV  518 (664)
T ss_pred             HHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEE-eccCCcHHHHHHHHHHHHccchhheeeeechHhhhchhhc
Confidence            8888765332  22222332222222   3555555553 1111111111   012233334445554            


Q ss_pred             ----------cCCCHHHHHHHHHHhc
Q 037935          295 ----------GNLSEEEAWRLFKIMN  310 (1085)
Q Consensus       295 ----------~~l~~~~~~~lf~~~~  310 (1085)
                                .+++..+|.+..++..
T Consensus       519 ~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        519 SSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             cCccceeEecCCcCHHHHHHHHhccc
Confidence                      8888898888877765

>PRK10867 signal recognition particle protein; Provisional

Probab=95.67  E-value=0.86  Score=51.54  Aligned_cols=89  Identities=21%  Similarity=0.254  Sum_probs=50.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH--HHHHHHHHHHhCCCCC----CchHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI--KKIQGEIAEKLGLELS----DEAEYRRASRLY  254 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~----~~~~~~~~~~~~  254 (1085)
                      ...+|.++|.+|+||||.+..++.....+..+ .++.|++- .+..  .+-++..++..+.+..    ..+.........
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~-kV~lV~~D-~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~  176 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKK-KVLLVAAD-VYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAAL  176 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhcCC-cEEEEEcc-ccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHH
Confidence            46899999999999999998888766543112 34445442 2322  3344555666665421    112233333344


Q ss_pred             HHHHcCCcEEEEEeCCC
Q 037935          255 ERLKNENKILVILDNIW  271 (1085)
Q Consensus       255 ~~l~~~~~~LlvlDdv~  271 (1085)
                      +.......=++|+|-.-
T Consensus       177 ~~a~~~~~DvVIIDTaG  193 (433)
T PRK10867        177 EEAKENGYDVVIVDTAG  193 (433)
T ss_pred             HHHHhcCCCEEEEeCCC
Confidence            44432333377788654

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

Probab=95.66  E-value=0.23  Score=55.08  Aligned_cols=95  Identities=26%  Similarity=0.411  Sum_probs=58.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      .+..+.+.|++|+|||+||..++....    |..+=-++-      ++.       +|  ..+......+...++...+.
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S~----FPFvKiiSp------e~m-------iG--~sEsaKc~~i~k~F~DAYkS  597 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSSD----FPFVKIISP------EDM-------IG--LSESAKCAHIKKIFEDAYKS  597 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhcC----CCeEEEeCh------HHc-------cC--ccHHHHHHHHHHHHHHhhcC
Confidence            456677889999999999999988754    654332211      110       01  11112222233444444357


Q ss_pred             CcEEEEEeCCCCcccccccccccCC-------------CCCCcEEEe
Q 037935          261 NKILVILDNIWKYLDLDTIGIPFGN-------------DHEGYNFLI  294 (1085)
Q Consensus       261 ~~~LlvlDdv~~~~~~~~~~~~~~~-------------~~~gs~ilv  294 (1085)
                      .--.||+||+....+|-.++..|.+             ...|.|.+|
T Consensus       598 ~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli  644 (744)
T KOG0741|consen  598 PLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLI  644 (744)
T ss_pred             cceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEE
Confidence            7789999999988888777654433             235777777

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.62  E-value=0.29  Score=48.86  Aligned_cols=99  Identities=15%  Similarity=0.214  Sum_probs=64.2

Q ss_pred             CCccccchHHHHHHHHHH----hccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          159 GYEAFESRVSTLKSIQNA----LTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~----l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      +-..++|-|...+.+++-    +.....--|-+||.-|+||+.|++++.+....+  .-.  -|.|.+            
T Consensus        58 ~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~--glr--LVEV~k------------  121 (287)
T COG2607          58 DLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADE--GLR--LVEVDK------------  121 (287)
T ss_pred             CHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhc--CCe--EEEEcH------------
Confidence            334578888887777653    334455678899999999999999999988755  222  233332            


Q ss_pred             HHhCCCCCCchHHHHHHHHHHHHH-cCCcEEEEEeCCCCc---cccccccccc
Q 037935          235 EKLGLELSDEAEYRRASRLYERLK-NENKILVILDNIWKY---LDLDTIGIPF  283 (1085)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~---~~~~~~~~~~  283 (1085)
                                .+...+-.+.+.++ ...||+|..||..-+   +....++..+
T Consensus       122 ----------~dl~~Lp~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~L  164 (287)
T COG2607         122 ----------EDLATLPDLVELLRARPEKFILFCDDLSFEEGDDAYKALKSAL  164 (287)
T ss_pred             ----------HHHhhHHHHHHHHhcCCceEEEEecCCCCCCCchHHHHHHHHh
Confidence                      12222344445554 478999999998644   2344454444

>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=95.59  E-value=0.0045  Score=36.76  Aligned_cols=17  Identities=35%  Similarity=0.436  Sum_probs=8.9

Q ss_pred             ccEEeccCcccccccchh
Q 037935          566 LRMLDLTDCLQLKFIVPN  583 (1085)
Q Consensus       566 L~~L~Ls~~~~l~~lp~~  583 (1085)
                      |++||+++| .++.+|++
T Consensus         2 L~~Ldls~n-~l~~ip~~   18 (22)
T PF00560_consen    2 LEYLDLSGN-NLTSIPSS   18 (22)
T ss_dssp             ESEEEETSS-EESEEGTT
T ss_pred             ccEEECCCC-cCEeCChh
Confidence            455555555 55555544

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 ....

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=95.59  E-value=0.39  Score=52.09  Aligned_cols=156  Identities=11%  Similarity=0.081  Sum_probs=78.8

Q ss_pred             HHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC------C-
Q 037935          169 TLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL------E-  240 (1085)
Q Consensus       169 ~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~------~-  240 (1085)
                      ..+.+...+..+++ ..+-+.|+.|+||+++|+.+....-.......       ..+..-...+.+...-..      + 
T Consensus        10 ~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~-------~~Cg~C~sC~~~~~g~HPD~~~i~p~   82 (325)
T PRK06871         10 TYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGD-------QPCGQCHSCHLFQAGNHPDFHILEPI   82 (325)
T ss_pred             HHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCC-------CCCCCCHHHHHHhcCCCCCEEEEccc
Confidence            34556666665554 46668999999999999999887643211100       000000111111000000      0 


Q ss_pred             CCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEE---------------------
Q 037935          241 LSDEAEYRRASRLYERLK----NENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFL---------------------  293 (1085)
Q Consensus       241 ~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~il---------------------  293 (1085)
                      ....-..+.+..+.+.+.    .+++-++|+|+++...  ..+.+...+-.-..+..++                     
T Consensus        83 ~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~  162 (325)
T PRK06871         83 DNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWL  162 (325)
T ss_pred             cCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEe
Confidence            000011222333333332    3666678888887652  2333322222211222222                     


Q ss_pred             ecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHH
Q 037935          294 IGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIAL  337 (1085)
Q Consensus       294 v~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  337 (1085)
                      +.++++++..+.+.......      ...+...+..++|.|+.+
T Consensus       163 ~~~~~~~~~~~~L~~~~~~~------~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        163 IHPPEEQQALDWLQAQSSAE------ISEILTALRINYGRPLLA  200 (325)
T ss_pred             CCCCCHHHHHHHHHHHhccC------hHHHHHHHHHcCCCHHHH
Confidence            28899999988887764211      223567788899999644

>PRK06526 transposase; Provisional

Probab=95.54  E-value=0.035  Score=58.13  Aligned_cols=73  Identities=21%  Similarity=0.202  Sum_probs=43.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNEN  261 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~  261 (1085)
                      ..-+.++|++|+|||+||..+......++ +. +.|+      +..++...+......    .    ........+  .+
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g-~~-v~f~------t~~~l~~~l~~~~~~----~----~~~~~l~~l--~~  159 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAG-HR-VLFA------TAAQWVARLAAAHHA----G----RLQAELVKL--GR  159 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCC-Cc-hhhh------hHHHHHHHHHHHHhc----C----cHHHHHHHh--cc
Confidence            45689999999999999999988765432 32 3443      334455554432211    0    112223333  34


Q ss_pred             cEEEEEeCCCC
Q 037935          262 KILVILDNIWK  272 (1085)
Q Consensus       262 ~~LlvlDdv~~  272 (1085)
                      .-+||+||+..
T Consensus       160 ~dlLIIDD~g~  170 (254)
T PRK06526        160 YPLLIVDEVGY  170 (254)
T ss_pred             CCEEEEccccc
Confidence            56899999864

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.54  E-value=0.11  Score=57.87  Aligned_cols=90  Identities=17%  Similarity=0.185  Sum_probs=53.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhcc--CCCEEEEEEeCCC-cCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKK--LFDRVVFSEVSQT-PDIKKIQGEIAEKLGLELSDEAEYRRASRLYERL  257 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~--~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l  257 (1085)
                      ..++|.++|..|+||||.+..++.......  +=..+..+++..- .....-++..++.++.+.........+......+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            357999999999999999998887665321  1124555555431 1223336666666776544333333333333444


Q ss_pred             HcCCcEEEEEeCCCC
Q 037935          258 KNENKILVILDNIWK  272 (1085)
Q Consensus       258 ~~~~~~LlvlDdv~~  272 (1085)
                        .+.-++++|....
T Consensus       253 --~~~DlVLIDTaGr  265 (388)
T PRK12723        253 --KDFDLVLVDTIGK  265 (388)
T ss_pred             --CCCCEEEEcCCCC
Confidence              4456888888743

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.52  E-value=0.08  Score=57.54  Aligned_cols=89  Identities=20%  Similarity=0.222  Sum_probs=54.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN  259 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~  259 (1085)
                      +.++++++|+.|+||||++..+......++  ..+.+|+... ......-++..++.++.+.....+...+....+.+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~  282 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTY  282 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHh
Confidence            458999999999999999999887664432  3566777642 2233445666677676654322222334444444531


Q ss_pred             -CCcEEEEEeCCC
Q 037935          260 -ENKILVILDNIW  271 (1085)
Q Consensus       260 -~~~~LlvlDdv~  271 (1085)
                       +..=+|++|-.-
T Consensus       283 ~~~~D~VLIDTAG  295 (407)
T PRK12726        283 VNCVDHILIDTVG  295 (407)
T ss_pred             cCCCCEEEEECCC
Confidence             344577778764

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.46  E-value=0.14  Score=49.20  Aligned_cols=114  Identities=21%  Similarity=0.147  Sum_probs=61.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc----------------CHHHHHHHHHHHhCCCCC---
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP----------------DIKKIQGEIAEKLGLELS---  242 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~----------------~~~~~~~~i~~~l~~~~~---  242 (1085)
                      ...+.|.|++|+|||||++.++.+.  +  |    +++||.+.                +.+++.+-|-..--..+.   
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~--~--l----~~SVS~TTR~pR~gEv~G~dY~Fvs~~EF~~~i~~~~fLE~a~~~   75 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD--K--L----RFSVSATTRKPRPGEVDGVDYFFVTEEEFEELIERDEFLEWAEYH   75 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc--C--e----EEEEEeccCCCCCCCcCCceeEeCCHHHHHHHHhcCCcEEEEEEc
Confidence            4678999999999999999999976  1  2    33443321                345555544332211110   


Q ss_pred             CchHHHHHHHHHHHHHcCCcEEEEEeCCCCcccccccccccCCCCCCcEEEecCCCHHHHHHHHHHhc
Q 037935          243 DEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMN  310 (1085)
Q Consensus       243 ~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv~~l~~~~~~~lf~~~~  310 (1085)
                      ...-......+.+.+..++.+++.+|=  ..  -.+++..+|   +.-.|.+.|-+.++..+-+..+.
T Consensus        76 gnyYGT~~~~ve~~~~~G~~vildId~--qG--a~qvk~~~p---~~v~IFi~pPs~eeL~~RL~~Rg  136 (191)
T COG0194          76 GNYYGTSREPVEQALAEGKDVILDIDV--QG--ALQVKKKMP---NAVSIFILPPSLEELERRLKGRG  136 (191)
T ss_pred             CCcccCcHHHHHHHHhcCCeEEEEEeh--HH--HHHHHHhCC---CeEEEEEcCCCHHHHHHHHHccC
Confidence            000001123344445568888888872  11  112333333   34445557777777766665554

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.45  E-value=0.022  Score=52.83  Aligned_cols=32  Identities=41%  Similarity=0.511  Sum_probs=26.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCE
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDR  214 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~  214 (1085)
                      .--|.|.|++|+||||+++.+.+..+.++ |..
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~g-~kv   36 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREKG-YKV   36 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhcC-cee
Confidence            34689999999999999999999887653 543

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.45  E-value=0.3  Score=49.76  Aligned_cols=212  Identities=15%  Similarity=0.163  Sum_probs=108.2

Q ss_pred             cccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhh----ccCCCEEEEEEeCCC--------------
Q 037935          162 AFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQARE----KKLFDRVVFSEVSQT--------------  223 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~--------------  223 (1085)
                      .+.++++....+......+..+..-++|++|.||-|.+..+.++.-.    +-.-+...|.+-+..              
T Consensus        14 ~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlE   93 (351)
T KOG2035|consen   14 ELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLE   93 (351)
T ss_pred             hcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceEE
Confidence            35667776776766655677899999999999999999888877532    112334555433332              


Q ss_pred             -------cCHHHHHHHHHHHhCCCCCCc---------------hH-HHHHH-HHH---HHHHcCCcEEEEEeCCCCcccc
Q 037935          224 -------PDIKKIQGEIAEKLGLELSDE---------------AE-YRRAS-RLY---ERLKNENKILVILDNIWKYLDL  276 (1085)
Q Consensus       224 -------~~~~~~~~~i~~~l~~~~~~~---------------~~-~~~~~-~~~---~~l~~~~~~LlvlDdv~~~~~~  276 (1085)
                             ..-+.+.++++++.+....-+               ++ ...++ .++   ++..++-|.+++-+.....   
T Consensus        94 itPSDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlIl~cns~Sri---  170 (351)
T KOG2035|consen   94 ITPSDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLILVCNSTSRI---  170 (351)
T ss_pred             eChhhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCceEEEEecCcccc---
Confidence                   123445555555554321100               00 00011 111   1111233333333332111   


Q ss_pred             cccccccCCCCCCcEEEecCCCHHHHHHHHHHhcC-CCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHh--cC------
Q 037935          277 DTIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNG-DDVENCKFKPTAINVAQACGGLPIALTTVARALR--NK------  347 (1085)
Q Consensus       277 ~~~~~~~~~~~~gs~ilv~~l~~~~~~~lf~~~~~-~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~--~~------  347 (1085)
                         ..+...  .---|-|...+++|.-..++..+. ++..-|  ++++.+|+++++|.---...+--.++  +.      
T Consensus       171 ---IepIrS--RCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllmlE~~~~~n~~~~a~~  243 (351)
T KOG2035|consen  171 ---IEPIRS--RCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLMLEAVRVNNEPFTANS  243 (351)
T ss_pred             ---hhHHhh--heeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHHHHHHhccccccccC
Confidence               011100  000111267788888888888773 222222  78999999999886433333333332  11      


Q ss_pred             ---CHHHHHHHHHHhcCCCCCCCCCCcccchhhHHHHHhcC
Q 037935          348 ---SLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYL  385 (1085)
Q Consensus       348 ---~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L  385 (1085)
                         ..-+|+-++.++......+  +.+..+..+-..=|+-|
T Consensus       244 ~~i~~~dWe~~i~e~a~~i~~e--Qs~~~L~~vR~~LYeLL  282 (351)
T KOG2035|consen  244 QVIPKPDWEIYIQEIARVILKE--QSPAKLLEVRGRLYELL  282 (351)
T ss_pred             CCCCCccHHHHHHHHHHHHHhc--cCHHHHHHHHHHHHHHH
Confidence               3458988887654433221  12334455545555544

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

Probab=95.44  E-value=0.59  Score=50.05  Aligned_cols=29  Identities=28%  Similarity=0.251  Sum_probs=25.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      .-+-|..+|++|.|||-||++|+.+....
T Consensus       244 PWkgvLm~GPPGTGKTlLAKAvATEc~tT  272 (491)
T KOG0738|consen  244 PWKGVLMVGPPGTGKTLLAKAVATECGTT  272 (491)
T ss_pred             ccceeeeeCCCCCcHHHHHHHHHHhhcCe
Confidence            45788999999999999999999988743

>cd01394 radB RadB

Probab=95.41  E-value=0.09  Score=54.28  Aligned_cols=42  Identities=21%  Similarity=0.366  Sum_probs=32.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPD  225 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  225 (1085)
                      -.++.|.|.+|+||||+|.+++.....+  =..++|++....+.
T Consensus        19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e~~~~   60 (218)
T cd01394          19 GTVTQVYGPPGTGKTNIAIQLAVETAGQ--GKKVAYIDTEGLSS   60 (218)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCCCCH
Confidence            4789999999999999999998876432  24578887755553

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK06620 hypothetical protein; Validated

Probab=95.40  E-value=0.11  Score=52.90  Aligned_cols=24  Identities=25%  Similarity=0.242  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      +.+.|+|++|+|||+|++.+.+..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            568999999999999999987754

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.37  E-value=0.12  Score=53.56  Aligned_cols=53  Identities=19%  Similarity=0.199  Sum_probs=34.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      -.++.|.|..|+||||+|.++......++  ..+++++.  .-+..++.+.+ .+++.
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g--~~~~yi~~--e~~~~~~~~~~-~~~g~   76 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFLQNG--YSVSYVST--QLTTTEFIKQM-MSLGY   76 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEeC--CCCHHHHHHHH-HHhCC
Confidence            46999999999999999876665543222  34566663  33556666665 34443

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

Probab=95.35  E-value=0.16  Score=58.19  Aligned_cols=92  Identities=22%  Similarity=0.261  Sum_probs=57.2

Q ss_pred             ccccchHHHHHHHHHHhc-------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALT-------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      +++-|-++.++++.+...             -...+-|-.+|++|+|||++|+++.+.....  |     +.++.+    
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~n--F-----lsvkgp----  502 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMN--F-----LSVKGP----  502 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCC--e-----eeccCH----
Confidence            344557776666655443             1356788999999999999999999988754  5     334321    


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                          ++....-+.     ....+..++++-++--++++.||.++.
T Consensus       503 ----EL~sk~vGe-----SEr~ir~iF~kAR~~aP~IiFfDEiDs  538 (693)
T KOG0730|consen  503 ----ELFSKYVGE-----SERAIREVFRKARQVAPCIIFFDEIDA  538 (693)
T ss_pred             ----HHHHHhcCc-----hHHHHHHHHHHHhhcCCeEEehhhHHh
Confidence                222222111     122344555555566778888887754

>PRK09183 transposase/IS protein; Provisional

Probab=95.33  E-value=0.088  Score=55.54  Aligned_cols=27  Identities=30%  Similarity=0.362  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ...+.|+|++|+|||+||..+......
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~  128 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVR  128 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            356779999999999999999876543

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.32  E-value=0.12  Score=56.65  Aligned_cols=57  Identities=28%  Similarity=0.397  Sum_probs=42.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhcc----CCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKK----LFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      -.++-|+|.+|+|||+++.+++.......    .=..++||+....++...+. ++++.++.
T Consensus        95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl  155 (310)
T TIGR02236        95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGL  155 (310)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCC
Confidence            47889999999999999999987654211    01379999999988887754 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.

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=95.32  E-value=0.013  Score=58.90  Aligned_cols=134  Identities=16%  Similarity=0.099  Sum_probs=71.9

Q ss_pred             CCCcceeeeccCCCcccccc----ChhhhcCCCcceEEEecCCcc----cCCch-------hhhccccccEEeccCcccc
Q 037935          513 CPQLEFLHIDPKITFAELNI----PDNFFKGMKKLRVVDLTRVRL----FSLPS-------SIGQLTKLRMLDLTDCLQL  577 (1085)
Q Consensus       513 ~~~Lr~L~l~~~~~~~~~~l----~~~~~~~l~~Lr~L~Ls~~~i----~~lp~-------~i~~L~~L~~L~Ls~~~~l  577 (1085)
                      +..+..+++++|.   +..-    ....+.+-++|++.+++.--.    .++|+       .+-+|++|+..+||+| .+
T Consensus        29 ~d~~~evdLSGNt---igtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDN-Af  104 (388)
T COG5238          29 MDELVEVDLSGNT---IGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDN-AF  104 (388)
T ss_pred             hcceeEEeccCCc---ccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeecccc-cc
Confidence            3455556666664   2111    112234456777777765321    12332       4567888888888888 44


Q ss_pred             c-ccch---hhhhccccCCEEeccCCCcchhhcccCCcccc------ccHHHhhcCCCCcEEEEEeccCCCCCCcc----
Q 037935          578 K-FIVP---NILSSFTRLEELYMGSCSIKWEVRKGNSERSN------ASLDELMHLQRLTTLEIDVEDDSILPDGL----  643 (1085)
Q Consensus       578 ~-~lp~---~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~------~~~~~l~~L~~L~~L~l~~~~~~~~~~~~----  643 (1085)
                      . ..|+   +.+++-+.|.||.+++|.+-....+.    .+      ...+...+-+.|++..+..|++...+...    
T Consensus       105 g~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~r----igkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~  180 (388)
T COG5238         105 GSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGR----IGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAAL  180 (388)
T ss_pred             CcccchHHHHHHhcCCCceeEEeecCCCCccchhH----HHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHH
Confidence            3 3333   33577788888888888763221111    01      01122344567787777777776555432    


Q ss_pred             --cccccceeeEE
Q 037935          644 --FTKKLERFDIS  654 (1085)
Q Consensus       644 --~l~~L~~L~l~  654 (1085)
                        +-.+|+.+.+.
T Consensus       181 l~sh~~lk~vki~  193 (388)
T COG5238         181 LESHENLKEVKIQ  193 (388)
T ss_pred             HHhhcCceeEEee
Confidence              22355555554

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=95.32  E-value=0.52  Score=51.65  Aligned_cols=39  Identities=10%  Similarity=0.191  Sum_probs=29.8

Q ss_pred             HHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          169 TLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       169 ~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-+++...+..+++ .-+-+.|+.|+||+++|..+....-
T Consensus        10 ~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~Ll   49 (334)
T PRK07993         10 DYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLM   49 (334)
T ss_pred             HHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHc
Confidence            45567777665554 4667899999999999999887663

>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=95.31  E-value=0.11  Score=50.41  Aligned_cols=43  Identities=23%  Similarity=0.318  Sum_probs=32.6

Q ss_pred             chHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          165 SRVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       165 gr~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      |-++..+.+.+.+..+++. .+-++|..|+||+++|..+.+..-
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll   44 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALL   44 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHc
Confidence            4566777777777766665 578999999999999999988654

...

>PRK06547 hypothetical protein; Provisional

Probab=95.30  E-value=0.027  Score=55.09  Aligned_cols=35  Identities=29%  Similarity=0.331  Sum_probs=28.6

Q ss_pred             HHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          173 IQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       173 l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +...+......+|+|.|.+|+||||+|+.+.+...
T Consensus         6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~   40 (172)
T PRK06547          6 IAARLCGGGMITVLIDGRSGSGKTTLAGALAARTG   40 (172)
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            44445556788999999999999999999998754

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.25  E-value=0.097  Score=57.19  Aligned_cols=58  Identities=24%  Similarity=0.304  Sum_probs=43.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc----cCCCEEEEEEeCCCcCHHHHHHHHHHHhCCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK----KLFDRVVFSEVSQTPDIKKIQGEIAEKLGLE  240 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  240 (1085)
                      ..++-|+|.+|+|||+++..++-.....    ..-..++||+....|.++.+ .+|++.++.+
T Consensus       123 g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~  184 (342)
T PLN03186        123 GSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLN  184 (342)
T ss_pred             ceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCC
Confidence            5788899999999999998877543311    11236999999999998876 4566666543

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.25  E-value=0.11  Score=56.56  Aligned_cols=58  Identities=24%  Similarity=0.288  Sum_probs=41.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh---cc-CCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE---KK-LFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~---~~-~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      ...++.|+|.+|+|||+++..++.....   .+ .-..++|++....+....+ .++++.++.
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~  156 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGL  156 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCC
Confidence            3589999999999999999988764321   11 1236799999888888764 445666554

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).

>PTZ00035 Rad51 protein; Provisional

Probab=95.19  E-value=0.15  Score=55.90  Aligned_cols=57  Identities=26%  Similarity=0.325  Sum_probs=41.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhh---c-cCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQARE---K-KLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~---~-~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      -.++.|+|.+|+||||++..++-....   . ..=..++||+....++.+.+ .++++.++.
T Consensus       118 G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~  178 (337)
T PTZ00035        118 GSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGL  178 (337)
T ss_pred             CeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCC
Confidence            479999999999999999988765431   1 11235789998888887774 445666554

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.17  E-value=0.11  Score=55.24  Aligned_cols=28  Identities=21%  Similarity=0.209  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +...+|+|.|..|+||||+|+.+..-..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4568999999999999999988766554

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.15  E-value=0.029  Score=52.01  Aligned_cols=45  Identities=33%  Similarity=0.509  Sum_probs=36.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCC
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLEL  241 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~  241 (1085)
                      +|.|-|.+|+||||+|+.+.+...-+  |     |      +.-.++++|++..|.+.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~--~-----v------saG~iFR~~A~e~gmsl   46 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK--L-----V------SAGTIFREMARERGMSL   46 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc--e-----e------eccHHHHHHHHHcCCCH
Confidence            68999999999999999999988743  1     1      23468899998888764

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=95.14  E-value=0.22  Score=57.67  Aligned_cols=39  Identities=28%  Similarity=0.384  Sum_probs=29.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      ..-+.|+|.+|+|||+|++++.+....+..--.+++++.
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~  186 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS  186 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence            356899999999999999999998764421223556654

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=95.13  E-value=0.11  Score=54.03  Aligned_cols=92  Identities=25%  Similarity=0.300  Sum_probs=59.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh--hccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCCC-------CCchHH---
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR--EKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLEL-------SDEAEY---  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~-------~~~~~~---  247 (1085)
                      .-..++|.|.+|+|||+|+..+.+...  .+++-+.++++-+.+.. +..++.+++...=....       .+++..   
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~  147 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERI  147 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHH
Confidence            346789999999999999999888754  12235778888887654 56777777765422211       111111   


Q ss_pred             ---HHHHHHHHHHH-c-CCcEEEEEeCCCC
Q 037935          248 ---RRASRLYERLK-N-ENKILVILDNIWK  272 (1085)
Q Consensus       248 ---~~~~~~~~~l~-~-~~~~LlvlDdv~~  272 (1085)
                         .....+.++++ + ++++|+++||+..
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr  177 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDMTN  177 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcChhH
Confidence               11233445554 3 7999999999754

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.

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

Probab=95.13  E-value=0.073  Score=65.53  Aligned_cols=103  Identities=17%  Similarity=0.232  Sum_probs=60.0

Q ss_pred             ccccchHHHHHHHHHHhcc---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTD---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      ..++|.+..++.+.+.+..         ....++.++|+.|+|||++|+.+++...     ...+.++.+.-.+..    
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~-----~~~~~~d~se~~~~~----  524 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG-----VHLERFDMSEYMEKH----  524 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc-----CCeEEEeCchhhhcc----
Confidence            3477888888888777651         1245788999999999999999998763     224555554422111    


Q ss_pred             HHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          232 EIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       232 ~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      .+...++.+..... .+....+.+.++....-+++||+++..
T Consensus       525 ~~~~lig~~~gyvg-~~~~~~l~~~~~~~p~~VvllDEieka  565 (731)
T TIGR02639       525 TVSRLIGAPPGYVG-FEQGGLLTEAVRKHPHCVLLLDEIEKA  565 (731)
T ss_pred             cHHHHhcCCCCCcc-cchhhHHHHHHHhCCCeEEEEechhhc
Confidence            11222222211100 011223344444455569999999764

>PRK14974 cell division protein FtsY; Provisional

Probab=95.11  E-value=0.18  Score=54.88  Aligned_cols=88  Identities=25%  Similarity=0.278  Sum_probs=50.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc--CHHHHHHHHHHHhCCCCCC----chHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP--DIKKIQGEIAEKLGLELSD----EAEYRRASRLY  254 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~  254 (1085)
                      +..+|.++|+.|+||||.+..++.....+ .+ .++.+.. ..+  ....-++..++.++.+...    .+....+....
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~-g~-~V~li~~-Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai  215 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN-GF-SVVIAAG-DTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAI  215 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc-CC-eEEEecC-CcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHH
Confidence            46899999999999999998888776543 23 3444442 222  2333456667777754321    11112222222


Q ss_pred             HHHH-cCCcEEEEEeCCCC
Q 037935          255 ERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       255 ~~l~-~~~~~LlvlDdv~~  272 (1085)
                      +... .+.. ++++|..-.
T Consensus       216 ~~~~~~~~D-vVLIDTaGr  233 (336)
T PRK14974        216 EHAKARGID-VVLIDTAGR  233 (336)
T ss_pred             HHHHhCCCC-EEEEECCCc
Confidence            3322 2333 888898744

>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=95.11  E-value=0.044  Score=51.87  Aligned_cols=76  Identities=22%  Similarity=0.254  Sum_probs=46.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEE
Q 037935          185 IGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKIL  264 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~L  264 (1085)
                      |.++|.+|+|||+||+.+++....     ...-+.++...+..++....--.-+...-...      .+.+..  .+..+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~~-----~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~------~l~~a~--~~~~i   68 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLGR-----PVIRINCSSDTTEEDLIGSYDPSNGQFEFKDG------PLVRAM--RKGGI   68 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHTC-----EEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-------CCCTTH--HEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhc-----ceEEEEeccccccccceeeeeecccccccccc------cccccc--cceeE
Confidence            679999999999999999998842     24446778888877766543222110000000      000011  27899


Q ss_pred             EEEeCCCCc
Q 037935          265 VILDNIWKY  273 (1085)
Q Consensus       265 lvlDdv~~~  273 (1085)
                      +|+|++...
T Consensus        69 l~lDEin~a   77 (139)
T PF07728_consen   69 LVLDEINRA   77 (139)
T ss_dssp             EEESSCGG-
T ss_pred             EEECCcccC
Confidence            999999843

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.10  E-value=0.065  Score=66.23  Aligned_cols=92  Identities=20%  Similarity=0.262  Sum_probs=57.3

Q ss_pred             ccccchHHHHHHHHHHhcc-------------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALTD-------------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      +++.|.+..++++.+++.-             ...+.+.++|++|+|||++|+.+++.....  |     +.++..    
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~--~-----i~i~~~----  246 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAY--F-----ISINGP----  246 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCe--E-----EEEecH----
Confidence            4578999999888776531             223578899999999999999999876422  2     222211    


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                      .+    ....    .. .....+..+++......+.+|++||++.
T Consensus       247 ~i----~~~~----~g-~~~~~l~~lf~~a~~~~p~il~iDEid~  282 (733)
T TIGR01243       247 EI----MSKY----YG-ESEERLREIFKEAEENAPSIIFIDEIDA  282 (733)
T ss_pred             HH----hccc----cc-HHHHHHHHHHHHHHhcCCcEEEeehhhh
Confidence            11    1100    01 1122344455555456778999999864

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.

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.09  E-value=0.0034  Score=63.05  Aligned_cols=105  Identities=20%  Similarity=0.175  Sum_probs=73.2

Q ss_pred             CCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccch-hhhhccccC
Q 037935          513 CPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVP-NILSSFTRL  591 (1085)
Q Consensus       513 ~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~-~~~~~L~~L  591 (1085)
                      +.+.+.|++-+|.   ...|  .++.+|+.|++|.||=|.|+.+. .+..|++|+.|.|+.| .|..+.. ..+.++++|
T Consensus        18 l~~vkKLNcwg~~---L~DI--sic~kMp~lEVLsLSvNkIssL~-pl~rCtrLkElYLRkN-~I~sldEL~YLknlpsL   90 (388)
T KOG2123|consen   18 LENVKKLNCWGCG---LDDI--SICEKMPLLEVLSLSVNKISSLA-PLQRCTRLKELYLRKN-CIESLDELEYLKNLPSL   90 (388)
T ss_pred             HHHhhhhcccCCC---ccHH--HHHHhcccceeEEeeccccccch-hHHHHHHHHHHHHHhc-ccccHHHHHHHhcCchh
Confidence            3455666666665   3333  35788999999999999999885 4889999999999999 7776654 225788889


Q ss_pred             CEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEE
Q 037935          592 EELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLE  630 (1085)
Q Consensus       592 ~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~  630 (1085)
                      +.|-|..|......+      ......-+.-|++|+.|+
T Consensus        91 r~LWL~ENPCc~~ag------~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   91 RTLWLDENPCCGEAG------QNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             hhHhhccCCcccccc------hhHHHHHHHHcccchhcc
Confidence            998888876521110      111233466777887766

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=95.08  E-value=0.056  Score=55.36  Aligned_cols=63  Identities=16%  Similarity=0.146  Sum_probs=53.6

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHhHh
Q 037935           37 NYNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFVEDEE   99 (1085)
Q Consensus        37 ~~~~~~~~~~~~~~~l~~~l~~~~~~l~~a~~~~~~~~~~~~~wl~~~~~~~~~~ed~ld~~~   99 (1085)
                      .+.+.+..++.+++.+|.+++.++.|++...............+..++.+.||++|+++|..-
T Consensus       311 rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyevEYVVDaCi  373 (402)
T PF12061_consen  311 RYSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEVEYVVDACI  373 (402)
T ss_pred             cccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhheeeeeehhh
Confidence            667788899999999999999999999987444344455599999999999999999998753

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.08  E-value=0.13  Score=58.47  Aligned_cols=86  Identities=15%  Similarity=0.229  Sum_probs=48.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh-hccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR-EKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN  259 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~-~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~  259 (1085)
                      .++++++|++|+||||++..+..... .++ -..+..|+..... ...+-++...+.++.+.........+....+.+  
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~-g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~--  297 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYG-KKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQL--  297 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcC-CCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHh--
Confidence            36999999999999999988877654 222 2356667653311 112233344455555443222222233333444  


Q ss_pred             CCcEEEEEeCC
Q 037935          260 ENKILVILDNI  270 (1085)
Q Consensus       260 ~~~~LlvlDdv  270 (1085)
                      ...=+||+|..
T Consensus       298 ~~~DlVlIDt~  308 (424)
T PRK05703        298 RDCDVILIDTA  308 (424)
T ss_pred             CCCCEEEEeCC
Confidence            23457778865

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.06  E-value=0.19  Score=54.79  Aligned_cols=87  Identities=23%  Similarity=0.263  Sum_probs=52.0

Q ss_pred             CceEEEEEcCCCCcHH-HHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKT-TLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLK  258 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKT-tLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~  258 (1085)
                      +-++|++||+.||||| |||+..+.-....+ =..+..|+.-. .....+-++.-++-++.+.....+...+......+.
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~-~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~  280 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKK-KKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALR  280 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhhcc-CcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhh
Confidence            4799999999999998 56665555441111 23466666532 234445556667777777655544455555555553


Q ss_pred             cCCcEEEEEeCC
Q 037935          259 NENKILVILDNI  270 (1085)
Q Consensus       259 ~~~~~LlvlDdv  270 (1085)
                       ++ =+|++|-+
T Consensus       281 -~~-d~ILVDTa  290 (407)
T COG1419         281 -DC-DVILVDTA  290 (407)
T ss_pred             -cC-CEEEEeCC
Confidence             34 34445644

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

Probab=95.03  E-value=0.093  Score=52.48  Aligned_cols=92  Identities=17%  Similarity=0.224  Sum_probs=57.1

Q ss_pred             ccccchHHHHHHHHHHhc-------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALT-------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      .++-|-.+.++++.+..+             -+..+-|..+|++|.|||-+|++|++....-  |     +.|-.     
T Consensus       177 ~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdac--f-----irvig-----  244 (435)
T KOG0729|consen  177 SDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDAC--F-----IRVIG-----  244 (435)
T ss_pred             ccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCce--E-----Eeehh-----
Confidence            345567777787776543             1345778899999999999999999976532  3     33311     


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                         .++.+..-+     .....+..+++-.+..|-|+|.+|.++.
T Consensus       245 ---selvqkyvg-----egarmvrelf~martkkaciiffdeida  281 (435)
T KOG0729|consen  245 ---SELVQKYVG-----EGARMVRELFEMARTKKACIIFFDEIDA  281 (435)
T ss_pred             ---HHHHHHHhh-----hhHHHHHHHHHHhcccceEEEEeecccc
Confidence               112111110     0122244555555567889999998854

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=95.02  E-value=0.17  Score=51.15  Aligned_cols=62  Identities=27%  Similarity=0.312  Sum_probs=39.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEE-------EEeCCCcCHHHH--HHHHHHHhCCCCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVF-------SEVSQTPDIKKI--QGEIAEKLGLELS  242 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~w-------v~~~~~~~~~~~--~~~i~~~l~~~~~  242 (1085)
                      +...|.++||+|.||||..+.++.....++.-..++=       |+..-..++++.  .++..++.+....
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPN   88 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPN   88 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCC
Confidence            4567888999999999999999998876533222221       122233345443  4567777766544

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.01  E-value=0.1  Score=57.76  Aligned_cols=84  Identities=17%  Similarity=0.197  Sum_probs=45.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      ..++.++|.+|+||||++..+.........+ .+..++.-. .......++..++.++.+......   ...+.+.+...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~-~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~---~~~l~~~l~~~  298 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGK-SVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKD---IKKFKETLARD  298 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCC-eEEEecccchhhhHHHHHHHHHHhcCCCeeehHH---HHHHHHHHHhC
Confidence            4689999999999999999998755322222 233333321 112233344445555554332221   23344444333


Q ss_pred             CcEEEEEeC
Q 037935          261 NKILVILDN  269 (1085)
Q Consensus       261 ~~~LlvlDd  269 (1085)
                      ..=+||+|-
T Consensus       299 ~~D~VLIDT  307 (432)
T PRK12724        299 GSELILIDT  307 (432)
T ss_pred             CCCEEEEeC
Confidence            334588884

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=95.00  E-value=0.11  Score=57.65  Aligned_cols=46  Identities=20%  Similarity=0.215  Sum_probs=36.8

Q ss_pred             ccchHHHHHHHHHHhc-cCCceE-EEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          163 FESRVSTLKSIQNALT-DVNVSI-IGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       163 ~~gr~~~~~~l~~~l~-~~~~~v-i~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ++|-+....++..+.. .++... +-++|+.|+||||+|.++.+....
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~   50 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLC   50 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhC
Confidence            4666777777777776 445666 999999999999999999998763

>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=94.98  E-value=0.037  Score=55.17  Aligned_cols=53  Identities=25%  Similarity=0.313  Sum_probs=36.8

Q ss_pred             chHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEE
Q 037935          165 SRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSE  219 (1085)
Q Consensus       165 gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~  219 (1085)
                      .+..+.+..+++|.  ...++.+.|++|.|||.||.+..-+.-..+.|+.++++.
T Consensus         4 p~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~R   56 (205)
T PF02562_consen    4 PKNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITR   56 (205)
T ss_dssp             --SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE
T ss_pred             CCCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            34455666777776  457999999999999999998887665557899887764

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=94.97  E-value=0.17  Score=55.42  Aligned_cols=57  Identities=30%  Similarity=0.394  Sum_probs=42.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccC----CCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKL----FDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      -.++-|+|.+|+|||+++.+++........    =..++||+....++...+.+ +++.++.
T Consensus       102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~  162 (317)
T PRK04301        102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGL  162 (317)
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCC
Confidence            578899999999999999998876532211    14799999999888877654 4455543

>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=94.96  E-value=0.083  Score=53.47  Aligned_cols=95  Identities=25%  Similarity=0.393  Sum_probs=57.9

Q ss_pred             HHHHhcc-CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHHHhCC-------CCCC
Q 037935          173 IQNALTD-VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAEKLGL-------ELSD  243 (1085)
Q Consensus       173 l~~~l~~-~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~-------~~~~  243 (1085)
                      .++.+.. ..-..++|+|.+|+|||+|++.+.+...    -+.++++-+.+. ..+.++.+++...-..       ...+
T Consensus         5 ~ID~l~Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~~----~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~   80 (215)
T PF00006_consen    5 AIDLLFPIGRGQRIGIFGGAGVGKTVLLQEIANNQD----ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSD   80 (215)
T ss_dssp             HHHHHSCEETTSEEEEEESTTSSHHHHHHHHHHHCT----TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETT
T ss_pred             eeccccccccCCEEEEEcCcccccchhhHHHHhccc----ccceeeeeccccchhHHHHHHHHhhcccccccccccccch
Confidence            3444441 2336789999999999999999999875    345677888755 4566677666443111       1111


Q ss_pred             chHHH------HHHHHHHHHH-cCCcEEEEEeCCC
Q 037935          244 EAEYR------RASRLYERLK-NENKILVILDNIW  271 (1085)
Q Consensus       244 ~~~~~------~~~~~~~~l~-~~~~~LlvlDdv~  271 (1085)
                      +....      ......++++ +++++|+++||+.
T Consensus        81 ~~~~~r~~~~~~a~t~AEyfrd~G~dVlli~Dslt  115 (215)
T PF00006_consen   81 EPPAARYRAPYTALTIAEYFRDQGKDVLLIIDSLT  115 (215)
T ss_dssp             S-HHHHHHHHHHHHHHHHHHHHTTSEEEEEEETHH
T ss_pred             hhHHHHhhhhccchhhhHHHhhcCCceeehhhhhH
Confidence            11111      1122223333 5999999999973

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 ....

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

Probab=94.95  E-value=0.084  Score=60.55  Aligned_cols=74  Identities=24%  Similarity=0.259  Sum_probs=48.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC--CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ--TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN  259 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~--~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~  259 (1085)
                      ..-|.|.|..|+|||+||+++++... +.+.-.+..|+++.  ....+.+++.+-.                 .+.....
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~-----------------vfse~~~  492 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNN-----------------VFSEALW  492 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHH-----------------HHHHHHh
Confidence            35788999999999999999999887 33444456666653  2233444333322                 2222224


Q ss_pred             CCcEEEEEeCCCCc
Q 037935          260 ENKILVILDNIWKY  273 (1085)
Q Consensus       260 ~~~~LlvlDdv~~~  273 (1085)
                      ..+-+|||||++..
T Consensus       493 ~~PSiIvLDdld~l  506 (952)
T KOG0735|consen  493 YAPSIIVLDDLDCL  506 (952)
T ss_pred             hCCcEEEEcchhhh
Confidence            78999999998643

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

Probab=94.90  E-value=0.068  Score=64.92  Aligned_cols=102  Identities=14%  Similarity=0.197  Sum_probs=59.3

Q ss_pred             cccchHHHHHHHHHHhcc---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHH
Q 037935          162 AFESRVSTLKSIQNALTD---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGE  232 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  232 (1085)
                      .++|.+..++.+.+.+..         .....+.++|+.|+|||++|+.+......     ..+.++++.-....    .
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~-----~~i~id~se~~~~~----~  529 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI-----ELLRFDMSEYMERH----T  529 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCC-----CcEEeechhhcccc----c
Confidence            478888888888887651         22467889999999999999999887642     23344443321111    1


Q ss_pred             HHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          233 IAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       233 i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      +.+-+|.+..-.. .+....+.+.+......+++||+++..
T Consensus       530 ~~~LiG~~~gyvg-~~~~g~L~~~v~~~p~sVlllDEieka  569 (758)
T PRK11034        530 VSRLIGAPPGYVG-FDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_pred             HHHHcCCCCCccc-ccccchHHHHHHhCCCcEEEeccHhhh
Confidence            2222332211110 011112333444445679999999875

>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=94.90  E-value=0.022  Score=53.08  Aligned_cols=22  Identities=50%  Similarity=0.813  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      |.|.|..|+||||+|+.+.+..
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999884

...

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=94.90  E-value=0.12  Score=53.16  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +|+|.|..|+||||+|+.+.....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            589999999999999999998775

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=94.88  E-value=0.039  Score=62.09  Aligned_cols=51  Identities=14%  Similarity=0.201  Sum_probs=40.8

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFD  213 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~  213 (1085)
                      ..++||+..++.+...+..+  .-|.|.|.+|+|||++|+.+.......+.|.
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~   70 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQNARAFE   70 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHhcccCcce
Confidence            34799999999998887643  5678999999999999999998765433343

>PRK07667 uridine kinase; Provisional

Probab=94.87  E-value=0.043  Score=55.18  Aligned_cols=38  Identities=26%  Similarity=0.468  Sum_probs=29.7

Q ss_pred             HHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          171 KSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       171 ~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +.|.+.+.  .++..+|+|-|.+|+||||+|+.+......
T Consensus         4 ~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~   43 (193)
T PRK07667          4 NELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQ   43 (193)
T ss_pred             HHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            34555554  345589999999999999999999998764

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=94.86  E-value=0.09  Score=58.31  Aligned_cols=85  Identities=24%  Similarity=0.314  Sum_probs=51.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCc--hHHHHHHHHHHHHHc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDE--AEYRRASRLYERLKN  259 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l~~  259 (1085)
                      -.++.|.|.+|+|||||+.+++.....+  -..++|++....  ..++ +.-++.++......  .....+..+.+.+..
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~~--g~~VlYvs~EEs--~~qi-~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~  156 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAKR--GGKVLYVSGEES--PEQI-KLRADRLGISTENLYLLAETNLEDILASIEE  156 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCcC--HHHH-HHHHHHcCCCcccEEEEccCcHHHHHHHHHh
Confidence            4799999999999999999998876543  246778876543  3333 22345555432211  001113344444444


Q ss_pred             CCcEEEEEeCCC
Q 037935          260 ENKILVILDNIW  271 (1085)
Q Consensus       260 ~~~~LlvlDdv~  271 (1085)
                      .+.-++|+|.+.
T Consensus       157 ~~~~lVVIDSIq  168 (372)
T cd01121         157 LKPDLVIIDSIQ  168 (372)
T ss_pred             cCCcEEEEcchH
Confidence            566778888864

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=94.85  E-value=0.064  Score=52.67  Aligned_cols=25  Identities=36%  Similarity=0.462  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .|.|.|.+|+||||+|+.+.+....
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i   26 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGL   26 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999998653

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.85  E-value=0.17  Score=56.77  Aligned_cols=88  Identities=18%  Similarity=0.249  Sum_probs=49.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN  259 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~  259 (1085)
                      .-.+++++|..|+||||++..+..........+.+.++.... .....+-+....+.++.+................+  
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l--  267 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHEL--  267 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHh--
Confidence            347999999999999999998877543222233445444422 22333445556666666544322222233334444  


Q ss_pred             CCcEEEEEeCC
Q 037935          260 ENKILVILDNI  270 (1085)
Q Consensus       260 ~~~~LlvlDdv  270 (1085)
                      ...-++++|-.
T Consensus       268 ~~~d~VLIDTa  278 (420)
T PRK14721        268 RGKHMVLIDTV  278 (420)
T ss_pred             cCCCEEEecCC
Confidence            23345666754

>PRK06835 DNA replication protein DnaC; Validated

Probab=94.85  E-value=0.11  Score=56.54  Aligned_cols=37  Identities=24%  Similarity=0.381  Sum_probs=29.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      ..-+.++|..|+|||.||.++++....++  ..++++++
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g--~~V~y~t~  219 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRG--KSVIYRTA  219 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCC--CeEEEEEH
Confidence            37799999999999999999999876543  24666665

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=94.84  E-value=0.025  Score=45.60  Aligned_cols=23  Identities=43%  Similarity=0.644  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      +|+|.|..|+||||+++.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999885

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=94.84  E-value=0.07  Score=53.35  Aligned_cols=24  Identities=25%  Similarity=0.279  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ||.|+|++|+||||+|+.+.+...
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999988664

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.

>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=94.83  E-value=0.12  Score=51.01  Aligned_cols=26  Identities=35%  Similarity=0.543  Sum_probs=22.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ++.++|++|+||||+++.+.......
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            68899999999999999999876643

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.

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

Probab=94.81  E-value=0.062  Score=55.63  Aligned_cols=39  Identities=26%  Similarity=0.375  Sum_probs=29.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc--cCCCEEEEEEeC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK--KLFDRVVFSEVS  221 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~--~~f~~~~wv~~~  221 (1085)
                      ++|-+.|++|.|||+|+++.++...++  +.|....-+.++
T Consensus       178 RliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEin  218 (423)
T KOG0744|consen  178 RLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEIN  218 (423)
T ss_pred             eEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEe
Confidence            789999999999999999999988764  334333334443

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=94.80  E-value=0.058  Score=53.56  Aligned_cols=42  Identities=21%  Similarity=0.428  Sum_probs=30.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  226 (1085)
                      .|+|+|-||+||||+|.......-.++.|+. .=|+.-..+++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~V-LvVDaDpd~nL   43 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNV-LVVDADPDSNL   43 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCceE-EEEeCCCCCCh
Confidence            5899999999999999997776665544543 33666555544

>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=94.79  E-value=0.95  Score=50.01  Aligned_cols=67  Identities=21%  Similarity=0.332  Sum_probs=48.1

Q ss_pred             hHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHH-HHHHHHHhhccCCCEEEEEEeCC---CcCHHHHHHHHHHHhC
Q 037935          166 RVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLV-KEFARQAREKKLFDRVVFSEVSQ---TPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       166 r~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa-~~v~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~i~~~l~  238 (1085)
                      |.+..++|..||.+..-..|.|.|+-|.||+.|+ .++.++.+.      +..+++.+   ..+-..+.+.++.++|
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r~~------vL~IDC~~i~~ar~D~~~I~~lA~qvG   71 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDRKN------VLVIDCDQIVKARGDAAFIKNLASQVG   71 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCCCC------EEEEEChHhhhccChHHHHHHHHHhcC
Confidence            5667889999998777789999999999999999 777776432      55555533   2344555556655554

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 [].

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=94.77  E-value=0.5  Score=44.42  Aligned_cols=111  Identities=14%  Similarity=0.138  Sum_probs=69.2

Q ss_pred             HHHHHH-HHHHHHHhhhhhHHhhhchhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHH
Q 037935            8 LEIIVT-LVLELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANG   86 (1085)
Q Consensus         8 a~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~l~~a~~~~~~~~~~~~~wl~~~~~   86 (1085)
                      ||.+.+ ++|.+++-+...+.+...--.  .+       +.-+++|.+.+..+.-.+++.+.-+...+..-+.-+.++.+
T Consensus         3 ~eL~~gaalG~~~~eLlk~v~~~~~k~~--~f-------k~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~   73 (147)
T PF05659_consen    3 AELVGGAALGAVFGELLKAVIDASKKSL--SF-------KSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKE   73 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--hh-------hhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHH
Confidence            555554 345555555555554444333  33       44556666666666666666555444445555777888999


Q ss_pred             HHHHHHHHHHhHhhcccccccCcCCChhHHHHHhHHHHHHHHHHHHHH
Q 037935           87 IIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEVKALVELG  134 (1085)
Q Consensus        87 ~~~~~ed~ld~~~~~~~~~~~~~~~~~~~r~~~~~~i~~~~~~~~~~~  134 (1085)
                      ...+++++++.+..-++       .++...++.+++|+++.+.+....
T Consensus        74 ~L~~g~~LV~k~sk~~r-------~n~~kk~~y~~Ki~~le~~l~~f~  114 (147)
T PF05659_consen   74 LLEKGKELVEKCSKVRR-------WNLYKKPRYARKIEELEESLRRFI  114 (147)
T ss_pred             HHHHHHHHHHHhccccH-------HHHHhhHhHHHHHHHHHHHHHHHh
Confidence            99999999987643221       235566778889998888887764

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>CHL00195 ycf46 Ycf46; Provisional

Probab=94.77  E-value=0.11  Score=59.62  Aligned_cols=92  Identities=14%  Similarity=0.140  Sum_probs=53.8

Q ss_pred             ccccchHHHHHHHHHHh---c----c---CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHH
Q 037935          161 EAFESRVSTLKSIQNAL---T----D---VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQ  230 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l---~----~---~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  230 (1085)
                      .++.|.+..++.+.+..   .    .   ...+-|-++|++|+|||.+|+++.+.....  |   +-++.+      .  
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~--~---~~l~~~------~--  294 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLP--L---LRLDVG------K--  294 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC--E---EEEEhH------H--
Confidence            34667776665554321   1    1   234678899999999999999999987532  2   112221      1  


Q ss_pred             HHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          231 GEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       231 ~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                        +..    .....+ ...+..+++......+++|++|+++.
T Consensus       295 --l~~----~~vGes-e~~l~~~f~~A~~~~P~IL~IDEID~  329 (489)
T CHL00195        295 --LFG----GIVGES-ESRMRQMIRIAEALSPCILWIDEIDK  329 (489)
T ss_pred             --hcc----cccChH-HHHHHHHHHHHHhcCCcEEEehhhhh
Confidence              111    111111 22344444444457899999999874

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=94.75  E-value=0.22  Score=51.97  Aligned_cols=53  Identities=11%  Similarity=0.293  Sum_probs=36.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      .-+++.|.|.+|+|||++|.++....-.+  =..++||+...  +..++.+.+ .+++
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~--ge~~lyvs~ee--~~~~i~~~~-~~~g   72 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGIYVALEE--HPVQVRRNM-AQFG   72 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEEEeeC--CHHHHHHHH-HHhC
Confidence            34799999999999999999876654322  34688888754  555655553 3444

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.

>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=94.74  E-value=0.015  Score=34.55  Aligned_cols=22  Identities=41%  Similarity=0.578  Sum_probs=17.6

Q ss_pred             cceEEEecCCcccCCchhhhcc
Q 037935          542 KLRVVDLTRVRLFSLPSSIGQL  563 (1085)
Q Consensus       542 ~Lr~L~Ls~~~i~~lp~~i~~L  563 (1085)
                      +|++|||++|+++.+|.+|++|
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT-
T ss_pred             CccEEECCCCcCEeCChhhcCC
Confidence            5889999999999888877654

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 ....

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=94.74  E-value=0.029  Score=56.61  Aligned_cols=26  Identities=46%  Similarity=0.698  Sum_probs=23.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ||+|.|.+|+||||+|+.+.......
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~   26 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKR   26 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCcc
Confidence            79999999999999999999988743

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.69  E-value=0.14  Score=58.31  Aligned_cols=60  Identities=17%  Similarity=0.202  Sum_probs=38.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLEL  241 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~  241 (1085)
                      .+|++++|..|+||||.+..++.....+..-..+..|+... .....+-++...+.++.+.
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv  316 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPV  316 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCe
Confidence            37999999999999999999988764332222455555432 1233344455556666543

>TIGR00959 ffh signal recognition particle protein

Probab=94.65  E-value=0.42  Score=53.98  Aligned_cols=89  Identities=24%  Similarity=0.295  Sum_probs=50.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCC----chHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSD----EAEYRRASRLYE  255 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~~  255 (1085)
                      ...++.++|.+|+||||.|..++.....+..+ .++-|++-. .....+-++...+..+.+...    .+..+......+
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~-kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~  176 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLKKKQGK-KVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALE  176 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhCCC-eEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHH
Confidence            45799999999999999999888775422222 344454432 112333445556666554221    122233334444


Q ss_pred             HHHcCCcE-EEEEeCCC
Q 037935          256 RLKNENKI-LVILDNIW  271 (1085)
Q Consensus       256 ~l~~~~~~-LlvlDdv~  271 (1085)
                      ... .+.| ++|+|-.-
T Consensus       177 ~~~-~~~~DvVIIDTaG  192 (428)
T TIGR00959       177 YAK-ENGFDVVIVDTAG  192 (428)
T ss_pred             HHH-hcCCCEEEEeCCC
Confidence            443 3334 78888654

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.63  E-value=0.15  Score=61.18  Aligned_cols=88  Identities=16%  Similarity=0.203  Sum_probs=54.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      -+||+++|+.|+||||.+..+.........-..+..++... .....+-++...+.++.+.....+...+....+.+. +
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~-~  263 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALG-D  263 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhc-C
Confidence            47999999999999999998887664322223455555432 222445566677777765543223333455555553 4


Q ss_pred             CcEEEEEeCCC
Q 037935          261 NKILVILDNIW  271 (1085)
Q Consensus       261 ~~~LlvlDdv~  271 (1085)
                      + =+|++|-.-
T Consensus       264 ~-D~VLIDTAG  273 (767)
T PRK14723        264 K-HLVLIDTVG  273 (767)
T ss_pred             C-CEEEEeCCC
Confidence            4 377778765

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=94.62  E-value=0.28  Score=52.07  Aligned_cols=89  Identities=20%  Similarity=0.267  Sum_probs=49.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH--HHHHHHHHHHhCCCCC----CchHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI--KKIQGEIAEKLGLELS----DEAEYRRASRL  253 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~----~~~~~~~~~~~  253 (1085)
                      .+.+++.++|.+|+||||.+..++.....++  ..+.+++.-. +..  .+-++..++..+.+..    ..+........
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~~~g--~~V~li~~D~-~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~  146 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLKKQG--KSVLLAAGDT-FRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDA  146 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcC--CEEEEEeCCC-CCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHH
Confidence            3468999999999999999999887765432  3566666532 222  2333444555553321    11111222222


Q ss_pred             HHHHHcCCcEEEEEeCCC
Q 037935          254 YERLKNENKILVILDNIW  271 (1085)
Q Consensus       254 ~~~l~~~~~~LlvlDdv~  271 (1085)
                      .+.......=++|+|-.-
T Consensus       147 l~~~~~~~~D~ViIDT~G  164 (272)
T TIGR00064       147 IQKAKARNIDVVLIDTAG  164 (272)
T ss_pred             HHHHHHCCCCEEEEeCCC
Confidence            233322444577778653

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.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=94.62  E-value=0.14  Score=57.86  Aligned_cols=91  Identities=23%  Similarity=0.362  Sum_probs=60.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHHHhCCC-------CCCchHH-----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAEKLGLE-------LSDEAEY-----  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~~-----  247 (1085)
                      .-..++|+|.+|+|||||+..+......+ +-+.++++-+.+. ..+.++.+++...-...       ..+.+..     
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~~~-~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a  220 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNISKQ-HSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRV  220 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhh-CCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHH
Confidence            44689999999999999999988877643 5688888877654 45667777765532211       1111111     


Q ss_pred             -HHHHHHHHHHH-c-CCcEEEEEeCCCC
Q 037935          248 -RRASRLYERLK-N-ENKILVILDNIWK  272 (1085)
Q Consensus       248 -~~~~~~~~~l~-~-~~~~LlvlDdv~~  272 (1085)
                       .....+.++++ + ++++|+++|++..
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLl~~DslTR  248 (461)
T PRK12597        221 VLTGLTIAEYLRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEeccchH
Confidence             12234445554 3 8999999999843

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=94.55  E-value=4.4  Score=44.82  Aligned_cols=88  Identities=24%  Similarity=0.331  Sum_probs=54.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe-CCCcCHHHHHHHHHHHhCCCCCC----chHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV-SQTPDIKKIQGEIAEKLGLELSD----EAEYRRASRLYE  255 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~-~~~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~~  255 (1085)
                      ...||-.||.-|.||||-|..+++..+.++ + .+.-|.+ -..+...+-++.++++.+.+.-.    .+..+.+..-.+
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lkk~~-~-kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~  176 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLKKKG-K-KVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALE  176 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHHHcC-C-ceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHH
Confidence            457899999999999999998888777532 2 2333333 12334556677888888776422    233444455555


Q ss_pred             HHHcCCcEEEEEeCC
Q 037935          256 RLKNENKILVILDNI  270 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv  270 (1085)
                      +.+....=++|+|-.
T Consensus       177 ~ak~~~~DvvIvDTA  191 (451)
T COG0541         177 KAKEEGYDVVIVDTA  191 (451)
T ss_pred             HHHHcCCCEEEEeCC
Confidence            555344345566654

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=94.51  E-value=0.084  Score=47.46  Aligned_cols=45  Identities=16%  Similarity=0.248  Sum_probs=34.1

Q ss_pred             cccchHHHHHHHHHHhc----c---CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          162 AFESRVSTLKSIQNALT----D---VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~----~---~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .++|..-..+.+++++.    +   .+.-|++..|.+|+|||.+++.+++..
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            46777666666666554    2   355799999999999999999888874

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=94.51  E-value=0.049  Score=50.71  Aligned_cols=81  Identities=22%  Similarity=0.337  Sum_probs=37.9

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCcccccccchhhhhcccc
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTR  590 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~  590 (1085)
                      .|.+|+.+.+...    ...++...|.+++.|+.+++.++ +..++ ..+.++..|+++.+.+  .+..++...|..+++
T Consensus        10 ~~~~l~~i~~~~~----~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~--~~~~i~~~~F~~~~~   82 (129)
T PF13306_consen   10 NCSNLESITFPNT----IKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN--NLKSIGDNAFSNCTN   82 (129)
T ss_dssp             T-TT--EEEETST------EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS--TT-EE-TTTTTT-TT
T ss_pred             CCCCCCEEEECCC----eeEeChhhccccccccccccccc-ccccceeeeecccccccccccc--ccccccccccccccc
Confidence            4456666665432    44555566666666666666553 55544 2455555666666654  455555555566666


Q ss_pred             CCEEeccCC
Q 037935          591 LEELYMGSC  599 (1085)
Q Consensus       591 L~~L~L~~~  599 (1085)
                      |+.+++..+
T Consensus        83 l~~i~~~~~   91 (129)
T PF13306_consen   83 LKNIDIPSN   91 (129)
T ss_dssp             ECEEEETTT
T ss_pred             ccccccCcc
Confidence            666666443

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=94.50  E-value=0.069  Score=52.39  Aligned_cols=49  Identities=27%  Similarity=0.354  Sum_probs=33.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  235 (1085)
                      ..+|+|-||=|+||||||+.+.++.+.+     ++.-.+...+=+..+..++-+
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~~~-----~~~E~vednp~L~~FY~d~~~   52 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLGFK-----VFYELVEDNPFLDLFYEDPER   52 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhCCc-----eeeecccCChHHHHHHHhHHH
Confidence            4789999999999999999999998743     222334444444455544433

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=94.49  E-value=0.018  Score=61.05  Aligned_cols=90  Identities=19%  Similarity=0.242  Sum_probs=50.8

Q ss_pred             HHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHH
Q 037935          171 KSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRA  250 (1085)
Q Consensus       171 ~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~  250 (1085)
                      ..+++.+...+ +-+.++|+.|+|||++++.......... | .+.-++++...+...+++.+-..+.......-..   
T Consensus        23 ~~ll~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l~~~~-~-~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~~~gP---   96 (272)
T PF12775_consen   23 SYLLDLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSLDSDK-Y-LVITINFSAQTTSNQLQKIIESKLEKRRGRVYGP---   96 (272)
T ss_dssp             HHHHHHHHHCT-EEEEEESSTTSSHHHHHHHHHHCSTTCC-E-EEEEEES-TTHHHHHHHHCCCTTECECTTEEEEE---
T ss_pred             HHHHHHHHHcC-CcEEEECCCCCchhHHHHhhhccCCccc-c-ceeEeeccCCCCHHHHHHHHhhcEEcCCCCCCCC---
Confidence            44566555544 4568999999999999999887543321 1 2444666665555555433322221111000000   


Q ss_pred             HHHHHHHHcCCcEEEEEeCCCCc
Q 037935          251 SRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       251 ~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                             ..+|+.++.+||+.-.
T Consensus        97 -------~~~k~lv~fiDDlN~p  112 (272)
T PF12775_consen   97 -------PGGKKLVLFIDDLNMP  112 (272)
T ss_dssp             -------ESSSEEEEEEETTT-S
T ss_pred             -------CCCcEEEEEecccCCC
Confidence                   0478999999998643

>PRK05480 uridine/cytidine kinase; Provisional

Probab=94.49  E-value=0.037  Score=56.64  Aligned_cols=27  Identities=33%  Similarity=0.442  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .+..+|+|+|.+|+||||||+.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999999876

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=94.49  E-value=0.035  Score=50.56  Aligned_cols=33  Identities=33%  Similarity=0.434  Sum_probs=26.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      +-|.|.|.+|+||||+|.+++.....       -|+++|+
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~~~-------~~i~isd   40 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKTGL-------EYIEISD   40 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHhCC-------ceEehhh
Confidence            45789999999999999999976543       2667665

>PRK05439 pantothenate kinase; Provisional

Probab=94.49  E-value=0.25  Score=52.93  Aligned_cols=81  Identities=16%  Similarity=0.183  Sum_probs=44.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHH--HHHHhCCCCCCchHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGE--IAEKLGLELSDEAEYRRASRLYERL  257 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~--i~~~l~~~~~~~~~~~~~~~~~~~l  257 (1085)
                      +..-+|+|.|.+|+||||+|+.+.........-..+.-++.-.=+...+.+..  +....|.  .+.-+.+.+......+
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdFy~~~~~l~~~~l~~~kg~--Pes~D~~~l~~~L~~L  161 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGFLYPNAVLEERGLMKRKGF--PESYDMRALLRFLSDV  161 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEeccccccCHHHHhhhhccccCCC--cccccHHHHHHHHHHH
Confidence            45679999999999999999998886542211122333444332222222221  1111121  2233445566777777


Q ss_pred             HcCCc
Q 037935          258 KNENK  262 (1085)
Q Consensus       258 ~~~~~  262 (1085)
                      +.++.
T Consensus       162 k~G~~  166 (311)
T PRK05439        162 KSGKP  166 (311)
T ss_pred             HcCCC
Confidence            76665

>PTZ00301 uridine kinase; Provisional

Probab=94.46  E-value=0.039  Score=55.84  Aligned_cols=26  Identities=27%  Similarity=0.565  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+|+|.|.+|.||||+|+.+.+...
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~   28 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELM   28 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHH
Confidence            47999999999999999999988764

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

Probab=94.46  E-value=0.087  Score=59.28  Aligned_cols=47  Identities=26%  Similarity=0.192  Sum_probs=35.6

Q ss_pred             ccccchHHHHHHHHHHhc-------cC---------CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALT-------DV---------NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~-------~~---------~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|.+..++.+...+.       ..         ..+.+.++|++|+|||++|+.+.....
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~  133 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD  133 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC
Confidence            357899998887755442       00         125689999999999999999987664

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=94.44  E-value=0.14  Score=64.10  Aligned_cols=106  Identities=20%  Similarity=0.277  Sum_probs=60.5

Q ss_pred             ccccchHHHHHHHHHHhcc---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTD---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      ..++|.+..++.+.+.+..         ....++.++|+.|+|||++|+.+.......  -...+-++++.-.+...   
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~--~~~~i~~d~s~~~~~~~---  639 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDD--EDAMVRIDMSEYMEKHS---  639 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCC--CCcEEEEechhhcccch---
Confidence            4588999999998888752         124578899999999999999999876422  12334444443222111   


Q ss_pred             HHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          232 EIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       232 ~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                       ..+-+|.+..-.. .+....+.+.+......+|+||++...
T Consensus       640 -~~~l~g~~~g~~g-~~~~g~l~~~v~~~p~~vlllDeieka  679 (852)
T TIGR03346       640 -VARLIGAPPGYVG-YEEGGQLTEAVRRKPYSVVLFDEVEKA  679 (852)
T ss_pred             -HHHhcCCCCCccC-cccccHHHHHHHcCCCcEEEEeccccC
Confidence             1111222211000 000122334444344458999999765

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.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.42  E-value=0.11  Score=57.18  Aligned_cols=77  Identities=21%  Similarity=0.289  Sum_probs=48.2

Q ss_pred             ccccchHHHHHHHHHHhccC--------------CceEEEEEcCCCCcHHHHHHHHHHHHhhcc-CCCEEEEEEeCC-Cc
Q 037935          161 EAFESRVSTLKSIQNALTDV--------------NVSIIGVYGMGGIGKTTLVKEFARQAREKK-LFDRVVFSEVSQ-TP  224 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~--------------~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-~f~~~~wv~~~~-~~  224 (1085)
                      ..++|.++.++.+.-++...              ..+.|.++|++|+|||++|+.+.......- +.+..-++.... ..
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~   91 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGR   91 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccC
Confidence            45788888888776555420              236789999999999999999999876430 012221222211 23


Q ss_pred             CHHHHHHHHHHHh
Q 037935          225 DIKKIQGEIAEKL  237 (1085)
Q Consensus       225 ~~~~~~~~i~~~l  237 (1085)
                      +...+++.+....
T Consensus        92 dvE~i~r~l~e~A  104 (441)
T TIGR00390        92 DVESMVRDLTDAA  104 (441)
T ss_pred             CHHHHHHHHHHHH
Confidence            5666666665443

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=94.41  E-value=0.036  Score=52.77  Aligned_cols=24  Identities=38%  Similarity=0.541  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +|.++|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            688999999999999999987654

...

>PRK08233 hypothetical protein; Provisional

Probab=94.41  E-value=0.037  Score=55.34  Aligned_cols=26  Identities=31%  Similarity=0.502  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+|+|.|.+|+||||+|+.+.....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            47899999999999999999998764

>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=48.07  Aligned_cols=59  Identities=20%  Similarity=0.308  Sum_probs=31.8

Q ss_pred             ccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeec
Q 037935          833 KILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSD  895 (1085)
Q Consensus       833 ~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  895 (1085)
                      ..+++|+.+.+.. .+..+....|..  +++|+.+++..+ +..++...|.++++|+.+.+.+
T Consensus         9 ~~~~~l~~i~~~~-~~~~I~~~~F~~--~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~   67 (129)
T PF13306_consen    9 YNCSNLESITFPN-TIKKIGENAFSN--CTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN   67 (129)
T ss_dssp             TT-TT--EEEETS-T--EE-TTTTTT---TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS
T ss_pred             hCCCCCCEEEECC-CeeEeChhhccc--cccccccccccc-ccccceeeeecccccccccccc
Confidence            4456777777764 456666666655  567777777653 7777766777777777777754

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.40  E-value=0.12  Score=53.04  Aligned_cols=89  Identities=20%  Similarity=0.276  Sum_probs=51.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEE--eC--CCcCHHHHHHHHHHHhCCCCC-------Cch-HHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSE--VS--QTPDIKKIQGEIAEKLGLELS-------DEA-EYR  248 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~--~~--~~~~~~~~~~~i~~~l~~~~~-------~~~-~~~  248 (1085)
                      .-.+++|||.+|+||||+++.+..-.+..  ...+.|-.  +.  ......+-..++++.++.+..       +-+ ...
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt--~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQr  115 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEPT--SGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQR  115 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCCC--CceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence            45799999999999999999998865532  23333311  10  022344455666776664321       111 111


Q ss_pred             HHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          249 RASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       249 ~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                      ....+.+.+ .-++=++|.|+--+
T Consensus       116 QRi~IARAL-al~P~liV~DEpvS  138 (268)
T COG4608         116 QRIGIARAL-ALNPKLIVADEPVS  138 (268)
T ss_pred             hhHHHHHHH-hhCCcEEEecCchh
Confidence            122233333 47888999998543

>PTZ00088 adenylate kinase 1; Provisional

Probab=94.40  E-value=0.065  Score=55.09  Aligned_cols=24  Identities=25%  Similarity=0.541  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|.|+|++|+||||+|+.+.+...
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            388999999999999999988765

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=94.39  E-value=0.042  Score=54.72  Aligned_cols=29  Identities=45%  Similarity=0.610  Sum_probs=25.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      .+.+|+|.|.+|.||||+|+.++...+..
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            45799999999999999999999987743

>TIGR00235 udk uridine kinase

Probab=94.39  E-value=0.041  Score=56.20  Aligned_cols=28  Identities=36%  Similarity=0.432  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +...+|+|+|.+|+||||||+.+.....
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3457999999999999999999998654

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>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=94.36  E-value=0.3  Score=52.43  Aligned_cols=84  Identities=24%  Similarity=0.343  Sum_probs=50.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC------chHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD------EAEYRRASRLYE  255 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~~~~  255 (1085)
                      -+++-|+|..|+||||||-.+.......  -..++||+....++..     .++++|.+.+.      ....+.+ ...+
T Consensus        53 G~ivEi~G~~ssGKttLaL~~ia~~q~~--g~~~a~ID~e~~ld~~-----~a~~lGvdl~rllv~~P~~~E~al-~~~e  124 (322)
T PF00154_consen   53 GRIVEIYGPESSGKTTLALHAIAEAQKQ--GGICAFIDAEHALDPE-----YAESLGVDLDRLLVVQPDTGEQAL-WIAE  124 (322)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--T-EEEEEESSS---HH-----HHHHTT--GGGEEEEE-SSHHHHH-HHHH
T ss_pred             CceEEEeCCCCCchhhhHHHHHHhhhcc--cceeEEecCcccchhh-----HHHhcCccccceEEecCCcHHHHH-HHHH
Confidence            4799999999999999999988876543  3568999998876654     34555554321      1222222 3333


Q ss_pred             H-HHcCCcEEEEEeCCCCc
Q 037935          256 R-LKNENKILVILDNIWKY  273 (1085)
Q Consensus       256 ~-l~~~~~~LlvlDdv~~~  273 (1085)
                      . ++.+.--++|+|-|...
T Consensus       125 ~lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  125 QLIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             HHHHTTSESEEEEE-CTT-
T ss_pred             HHhhcccccEEEEecCccc
Confidence            3 34455568899988654

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 ....

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.35  E-value=0.14  Score=49.68  Aligned_cols=27  Identities=41%  Similarity=0.631  Sum_probs=23.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      +.|.+.|.+|+||||+|+++.+..+.+
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHh
Confidence            457789999999999999999988754

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=94.35  E-value=0.24  Score=52.09  Aligned_cols=49  Identities=22%  Similarity=0.332  Sum_probs=40.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      .-+++=|+|+.|.||||+|-+++-.....  -..++|++....+++..+..
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~aq~~--g~~a~fIDtE~~l~p~r~~~  107 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANAQKP--GGKAAFIDTEHALDPERAKQ  107 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHhhcC--CCeEEEEeCCCCCCHHHHHH
Confidence            34788999999999999998877766543  34799999999999877643

>PRK04296 thymidine kinase; Provisional

Probab=94.33  E-value=0.078  Score=53.10  Aligned_cols=83  Identities=19%  Similarity=0.199  Sum_probs=46.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC---chHHHHHHHHHHHHHc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD---EAEYRRASRLYERLKN  259 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~~l~~  259 (1085)
                      .++.|+|..|.||||+|..+..+....  -..++.+  ...++.+.....+++.++.....   ....+....+.+  ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~--g~~v~i~--k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~--~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEER--GMKVLVF--KPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE--EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHc--CCeEEEE--eccccccccCCcEecCCCCcccceEeCChHHHHHHHHh--hC
Confidence            477899999999999999998877643  2233333  12223333344556666543322   111122222222  23


Q ss_pred             CCcEEEEEeCCC
Q 037935          260 ENKILVILDNIW  271 (1085)
Q Consensus       260 ~~~~LlvlDdv~  271 (1085)
                      ++.-+||+|.+.
T Consensus        77 ~~~dvviIDEaq   88 (190)
T PRK04296         77 EKIDCVLIDEAQ   88 (190)
T ss_pred             CCCCEEEEEccc
Confidence            455589999984

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=94.31  E-value=0.22  Score=52.55  Aligned_cols=94  Identities=12%  Similarity=0.158  Sum_probs=52.7

Q ss_pred             HHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC-------ch
Q 037935          173 IQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD-------EA  245 (1085)
Q Consensus       173 l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~  245 (1085)
                      ..+++...+..+|.|+|.+|+|||||...+.+.....  ... +.+ .....+..+  .+.++..+.+...       -.
T Consensus        95 ~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~--~~~-~VI-~gD~~t~~D--a~rI~~~g~pvvqi~tG~~Chl  168 (290)
T PRK10463         95 NRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDS--VPC-AVI-EGDQQTVND--AARIRATGTPAIQVNTGKGCHL  168 (290)
T ss_pred             HHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccC--CCE-EEE-CCCcCcHHH--HHHHHhcCCcEEEecCCCCCcC
Confidence            3444556788999999999999999999999987543  322 222 222222222  2223444332111       11


Q ss_pred             HHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          246 EYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       246 ~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                      +...+...+..+.....=++|+++|-.
T Consensus       169 ~a~mv~~Al~~L~~~~~d~liIEnvGn  195 (290)
T PRK10463        169 DAQMIADAAPRLPLDDNGILFIENVGN  195 (290)
T ss_pred             cHHHHHHHHHHHhhcCCcEEEEECCCC
Confidence            122344445555434445778898864

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=94.31  E-value=0.047  Score=51.30  Aligned_cols=39  Identities=21%  Similarity=0.414  Sum_probs=28.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      ++|.|+|..|+|||||++.+.+....+ .+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~-g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRR-GYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHc-CCceEEEEEccC
Confidence            589999999999999999999998754 355555665544

>PRK04328 hypothetical protein; Provisional

Probab=94.29  E-value=0.24  Score=52.01  Aligned_cols=54  Identities=13%  Similarity=0.254  Sum_probs=36.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      .-.++.|.|.+|+|||++|.++....-.+  =..++|++...  +..++. +.+++++.
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~--ge~~lyis~ee--~~~~i~-~~~~~~g~   75 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGVYVALEE--HPVQVR-RNMRQFGW   75 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEEeeC--CHHHHH-HHHHHcCC
Confidence            34799999999999999999876654322  24578888765  344433 34455553

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=94.26  E-value=1.3  Score=48.52  Aligned_cols=26  Identities=23%  Similarity=0.333  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+-++|+.|+|||++|+.+....-
T Consensus        21 ~ha~Lf~Gp~G~GK~~lA~~~A~~Ll   46 (342)
T PRK06964         21 PHALLLHGQAGIGKLDFAQHLAQGLL   46 (342)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHc
Confidence            35777899999999999999987654

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.26  E-value=0.0091  Score=57.53  Aligned_cols=35  Identities=17%  Similarity=0.308  Sum_probs=15.1

Q ss_pred             cCccEEEeccccCcccccchhhhhhcccccEEEEcC
Q 037935          970 RNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFG 1005 (1085)
Q Consensus       970 ~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~ 1005 (1085)
                      ++|+.|+|++|++|++. ....+..+++|+.|.+.+
T Consensus       151 ~~L~~L~lsgC~rIT~~-GL~~L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  151 PSLQDLDLSGCPRITDG-GLACLLKLKNLRRLHLYD  185 (221)
T ss_pred             cchheeeccCCCeechh-HHHHHHHhhhhHHHHhcC
Confidence            34444455444444443 122333444444444444

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=94.24  E-value=0.25  Score=56.51  Aligned_cols=167  Identities=14%  Similarity=0.144  Sum_probs=94.8

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      ++++|.+.....|...+..+++ .-....|.-|+||||+|+.++...-....       ....+++.-...++|...-..
T Consensus        16 ~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~-------~~~ePC~~C~~Ck~I~~g~~~   88 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENG-------PTAEPCGKCISCKEINEGSLI   88 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCC-------CCCCcchhhhhhHhhhcCCcc
Confidence            4568999999999988875543 45567899999999999999987654321       112233333333444332111


Q ss_pred             CC-----CCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCc--ccccccccccCCCCCCcEEEe--------------
Q 037935          240 EL-----SDEAEYRRASRLYERLK----NENKILVILDNIWKY--LDLDTIGIPFGNDHEGYNFLI--------------  294 (1085)
Q Consensus       240 ~~-----~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~--~~~~~~~~~~~~~~~gs~ilv--------------  294 (1085)
                      +.     ......+.+..+.+...    .++.=+.|+|+|.-.  ..|+.+...+-.-...-+.|+              
T Consensus        89 DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlS  168 (515)
T COG2812          89 DVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILS  168 (515)
T ss_pred             cchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhh
Confidence            10     01112334555555554    466668899999765  456665444432211222222              


Q ss_pred             -------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchH
Q 037935          295 -------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPI  335 (1085)
Q Consensus       295 -------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  335 (1085)
                             ..++.++-...+...+.. ......++....|++...|...
T Consensus       169 Rcq~f~fkri~~~~I~~~L~~i~~~-E~I~~e~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         169 RCQRFDFKRLDLEEIAKHLAAILDK-EGINIEEDALSLIARAAEGSLR  215 (515)
T ss_pred             ccccccccCCCHHHHHHHHHHHHHh-cCCccCHHHHHHHHHHcCCChh
Confidence                   677777777777666632 1222334555666666666443

>PRK03839 putative kinase; Provisional

Probab=94.21  E-value=0.041  Score=54.80  Aligned_cols=25  Identities=40%  Similarity=0.550  Sum_probs=22.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .|.|+|++|+||||+|+.+++....
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~   26 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGY   26 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5889999999999999999998753

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=94.21  E-value=0.3  Score=50.95  Aligned_cols=53  Identities=25%  Similarity=0.263  Sum_probs=37.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      .-+++.|+|.+|+|||++|.++....-.+  =..++|++....  ..++.+.+ ++++
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~--g~~~~y~~~e~~--~~~~~~~~-~~~g   76 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGALKQ--GKKVYVITTENT--SKSYLKQM-ESVK   76 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHHhC--CCEEEEEEcCCC--HHHHHHHH-HHCC
Confidence            34799999999999999999986553222  246888888654  45555553 3444

>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=94.14  E-value=0.065  Score=50.77  Aligned_cols=36  Identities=28%  Similarity=0.393  Sum_probs=27.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEE
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSE  219 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~  219 (1085)
                      ..||-|.|.+|.||||||+++.+.....+  ..+.++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~g--~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFARG--IKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHTT--S-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHcC--CcEEEec
Confidence            35889999999999999999999987653  3344443

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 ....

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

Probab=94.14  E-value=0.32  Score=57.31  Aligned_cols=28  Identities=36%  Similarity=0.431  Sum_probs=24.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..+.+-++|++|+|||.||+++++....
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~  302 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRS  302 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCC
Confidence            4568999999999999999999996653

>PRK00625 shikimate kinase; Provisional

Probab=94.13  E-value=0.042  Score=53.72  Aligned_cols=24  Identities=29%  Similarity=0.373  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|.++||+|+||||+++.+.+...
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988865

>PRK06762 hypothetical protein; Provisional

Probab=94.12  E-value=0.048  Score=53.47  Aligned_cols=24  Identities=33%  Similarity=0.553  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .+|.|+|++|+||||+|+.+.+..
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999999876

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=94.10  E-value=0.22  Score=49.95  Aligned_cols=45  Identities=16%  Similarity=0.225  Sum_probs=31.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGE  232 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  232 (1085)
                      ++.|.|.+|+|||++|.++......++  ..++|++...  +..++.+.
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~~g--~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLARG--EPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHCC--CcEEEEECCC--CHHHHHHH
Confidence            367899999999999998877654221  3477887654  44555444

A related protein is found in archaea.

>PRK04040 adenylate kinase; Provisional

Probab=94.08  E-value=0.048  Score=54.31  Aligned_cols=25  Identities=28%  Similarity=0.549  Sum_probs=22.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+|+|+|++|+||||+++.+.+...
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            6899999999999999999998774

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=94.06  E-value=0.042  Score=49.05  Aligned_cols=24  Identities=50%  Similarity=0.758  Sum_probs=20.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      |-|+|.+|+|||++|+.+..+...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~   24 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLK   24 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999998887663

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=94.04  E-value=0.15  Score=56.85  Aligned_cols=88  Identities=20%  Similarity=0.367  Sum_probs=54.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCC-------CCCchHHH----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLE-------LSDEAEYR----  248 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~~~----  248 (1085)
                      .-..++|+|..|+|||||++.+.....    .+.++.+-+.+.. .+.++.++++..-+..       ..+.+...    
T Consensus       161 ~GqrigI~G~sG~GKSTLL~~I~~~~~----~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a  236 (444)
T PRK08972        161 KGQRMGLFAGSGVGKSVLLGMMTRGTT----ADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKG  236 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhccCCC----CCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHH
Confidence            446899999999999999999986432    3566666665543 4566666665442221       11111111    


Q ss_pred             --HHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          249 --RASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       249 --~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                        ....+.++++ +++++|+++||+..
T Consensus       237 ~~~A~tiAEyfrd~G~~VLl~~DslTR  263 (444)
T PRK08972        237 CETATTIAEYFRDQGLNVLLLMDSLTR  263 (444)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEEcChHH
Confidence              1223334443 59999999999854

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=94.03  E-value=0.049  Score=54.75  Aligned_cols=26  Identities=27%  Similarity=0.319  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      +.++|.|+|++|+||||+|+.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46899999999999999999998765

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=94.02  E-value=0.1  Score=61.94  Aligned_cols=76  Identities=13%  Similarity=0.144  Sum_probs=58.3

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      -+.++|.+..++.+...+...  +.+.++|.+|+||||+|+.+.+.... .+++..+|..- ...+...+++.++.++|.
T Consensus        30 ~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~~-~~~~~~~~~~n-p~~~~~~~~~~v~~~~G~  105 (637)
T PRK13765         30 IDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLPK-EELQDILVYPN-PEDPNNPKIRTVPAGKGK  105 (637)
T ss_pred             HHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcCh-HhHHHheEeeC-CCcchHHHHHHHHHhcCH
Confidence            356889988888887776544  47889999999999999999987543 34677888665 445778888888876664

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=94.01  E-value=0.23  Score=55.86  Aligned_cols=91  Identities=21%  Similarity=0.362  Sum_probs=59.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCC-------CCCchHH-----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLE-------LSDEAEY-----  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~~-----  247 (1085)
                      .-..++|.|.+|+|||+|+..+...... .+-+.++++-+.... .+.++.+++...-...       ..+.+..     
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~~~-~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~  215 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNMVG-QHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRV  215 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHh-cCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHH
Confidence            4468899999999999999998887653 234788888886554 5666777765432211       1111111     


Q ss_pred             -HHHHHHHHHHH--cCCcEEEEEeCCCC
Q 037935          248 -RRASRLYERLK--NENKILVILDNIWK  272 (1085)
Q Consensus       248 -~~~~~~~~~l~--~~~~~LlvlDdv~~  272 (1085)
                       .....+.++++  +++++|+++||+..
T Consensus       216 ~~~a~tiAEyfrd~~G~~VLl~~DslTR  243 (449)
T TIGR03305       216 GHTALTMAEYFRDDEKQDVLLLIDNIFR  243 (449)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecChHH
Confidence             12334455555  48999999999854

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=93.98  E-value=0.17  Score=63.24  Aligned_cols=106  Identities=18%  Similarity=0.239  Sum_probs=59.2

Q ss_pred             ccccchHHHHHHHHHHhcc---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTD---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      ..++|.+..++.+.+.+..         ....++.++|+.|+|||+||+.+.+..-..  -...+-++.+.-.+...+  
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~--~~~~~~~d~s~~~~~~~~--  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGS--EDAMIRLDMSEYMEKHTV--  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCC--ccceEEEEchhccccccH--
Confidence            4578999999998887751         123567789999999999999999865321  122333444332111111  


Q ss_pred             HHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          232 EIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       232 ~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                        .+-+|.+..-.. .+....+.+.++..-..++++|+++..
T Consensus       585 --~~l~g~~~gyvg-~~~~~~l~~~~~~~p~~VvllDeieka  623 (821)
T CHL00095        585 --SKLIGSPPGYVG-YNEGGQLTEAVRKKPYTVVLFDEIEKA  623 (821)
T ss_pred             --HHhcCCCCcccC-cCccchHHHHHHhCCCeEEEECChhhC
Confidence              111222211000 011123444554344468999999765

>PRK06217 hypothetical protein; Validated

Probab=93.96  E-value=0.093  Score=52.33  Aligned_cols=34  Identities=26%  Similarity=0.305  Sum_probs=26.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCC--CEEEEE
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLF--DRVVFS  218 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f--~~~~wv  218 (1085)
                      .|.|.|.+|+||||+|+.+....... +|  |..+|.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~-~~~~D~~~~~   38 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIP-HLDTDDYFWL   38 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCc-EEEcCceeec
Confidence            58999999999999999999887542 33  446663

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

Probab=93.96  E-value=0.31  Score=56.20  Aligned_cols=92  Identities=21%  Similarity=0.311  Sum_probs=59.3

Q ss_pred             ccccchHHHHHHHHHHhc----------c---CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALT----------D---VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~----------~---~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      +++-|..+.++.+.+.+.          .   ....-|-++|++|+|||.||.++......+       +|+|..+    
T Consensus       667 ~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~-------fisvKGP----  735 (952)
T KOG0735|consen  667 EDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLR-------FISVKGP----  735 (952)
T ss_pred             eecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCee-------EEEecCH----
Confidence            345566655555555554          1   123467899999999999999998876533       4666543    


Q ss_pred             HHHHHHHH-HhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          228 KIQGEIAE-KLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       228 ~~~~~i~~-~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                          +++. .+|..      .+.+..++.+....++|++.+|..++.
T Consensus       736 ----ElL~KyIGaS------Eq~vR~lF~rA~~a~PCiLFFDEfdSi  772 (952)
T KOG0735|consen  736 ----ELLSKYIGAS------EQNVRDLFERAQSAKPCILFFDEFDSI  772 (952)
T ss_pred             ----HHHHHHhccc------HHHHHHHHHHhhccCCeEEEecccccc
Confidence                2322 23321      223556667777799999999987653

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=93.91  E-value=0.24  Score=49.93  Aligned_cols=41  Identities=27%  Similarity=0.413  Sum_probs=29.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCC--------CEEEEEEeCCC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLF--------DRVVFSEVSQT  223 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f--------~~~~wv~~~~~  223 (1085)
                      .++.|+|.+|+||||++..+.........|        ..++|++....
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            588999999999999999988876543222        25788877665

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=93.90  E-value=0.26  Score=47.10  Aligned_cols=24  Identities=25%  Similarity=0.508  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ||.|+|.+|+||||+|+.+.....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            578999999999999999998775

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

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

Probab=93.89  E-value=0.36  Score=49.30  Aligned_cols=93  Identities=26%  Similarity=0.324  Sum_probs=59.1

Q ss_pred             CCccccchHHHHHHHHHHhc-------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcC
Q 037935          159 GYEAFESRVSTLKSIQNALT-------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPD  225 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  225 (1085)
                      ...++-|-+..+++|.+..+             -...+-|.++|.+|.|||-||++|+|.....  |-.++         
T Consensus       183 ty~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSAT--FlRvv---------  251 (440)
T KOG0726|consen  183 TYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSAT--FLRVV---------  251 (440)
T ss_pred             hhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchh--hhhhh---------
Confidence            34456688888998888765             1245677899999999999999999987644  42221         


Q ss_pred             HHHHHHHHH-HHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          226 IKKIQGEIA-EKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       226 ~~~~~~~i~-~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                          -.+++ +.+|..      .....++++.....-+-++++|.++.
T Consensus       252 ----GseLiQkylGdG------pklvRqlF~vA~e~apSIvFiDEIdA  289 (440)
T KOG0726|consen  252 ----GSELIQKYLGDG------PKLVRELFRVAEEHAPSIVFIDEIDA  289 (440)
T ss_pred             ----hHHHHHHHhccc------hHHHHHHHHHHHhcCCceEEeehhhh
Confidence                12222 233321      22334444444456777888888754

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=93.86  E-value=0.1  Score=47.97  Aligned_cols=28  Identities=29%  Similarity=0.251  Sum_probs=24.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .-.+|.+.|.-|+||||+++.+.+....
T Consensus        21 ~~~~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        21 FGTVVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            3468999999999999999999998754

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

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

Probab=93.84  E-value=5.3  Score=44.32  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      |---++|++|.|||++..++++..+
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L~  260 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYLN  260 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhcC
Confidence            4567899999999999999999876

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=93.81  E-value=0.18  Score=53.48  Aligned_cols=56  Identities=20%  Similarity=0.162  Sum_probs=36.8

Q ss_pred             HHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHH
Q 037935          168 STLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQ  230 (1085)
Q Consensus       168 ~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  230 (1085)
                      ..++++..++..+  +-|.++|.+|+|||++|+.+.....    . ..+++++....+..+++
T Consensus         9 ~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~lg----~-~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640         9 RVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKRD----R-PVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHhC----C-CEEEEeCCccCCHHHHh
Confidence            3455556655432  4566899999999999999987442    1 24556666655555544

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).

>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=93.79  E-value=0.079  Score=51.79  Aligned_cols=41  Identities=24%  Similarity=0.185  Sum_probs=31.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT  223 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  223 (1085)
                      ..++.++|+.|+|||.+|+.+.+.... +.....+-++.+.-
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~-~~~~~~~~~d~s~~   43 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFV-GSERPLIRIDMSEY   43 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT--SSCCEEEEEEGGGH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhcc-CCccchHHHhhhcc
Confidence            568889999999999999999998863 12445666666553

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 ....

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=93.79  E-value=0.07  Score=51.69  Aligned_cols=29  Identities=24%  Similarity=0.445  Sum_probs=25.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ..++++|+|..|+|||||++.+......+
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~   33 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCAR   33 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhhc
Confidence            45799999999999999999999887643

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

Probab=93.76  E-value=0.34  Score=48.19  Aligned_cols=89  Identities=22%  Similarity=0.295  Sum_probs=54.3

Q ss_pred             chHHHHHHHHHHhc-------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          165 SRVSTLKSIQNALT-------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       165 gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      |-|+.+++|.+.+.             -.+.+-+.++|++|.|||-||++|++...       +.|+.||..        
T Consensus       151 gLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~-------c~firvsgs--------  215 (404)
T KOG0728|consen  151 GLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTD-------CTFIRVSGS--------  215 (404)
T ss_pred             cHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcc-------eEEEEechH--------
Confidence            45777777666544             13567888999999999999999998665       345777653        


Q ss_pred             HHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          232 EIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       232 ~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      ++.+.+-+.     .......++--.+..-+-+|.+|.+++.
T Consensus       216 elvqk~ige-----gsrmvrelfvmarehapsiifmdeidsi  252 (404)
T KOG0728|consen  216 ELVQKYIGE-----GSRMVRELFVMAREHAPSIIFMDEIDSI  252 (404)
T ss_pred             HHHHHHhhh-----hHHHHHHHHHHHHhcCCceEeeeccccc
Confidence            122111110     0111222333333467788888987653

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=93.72  E-value=0.15  Score=60.66  Aligned_cols=75  Identities=15%  Similarity=0.177  Sum_probs=52.7

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      +.++|.+..++.+...+...  +.+.++|++|+||||+|+.+.+..... .|..++++. ....+...+++.++..++.
T Consensus        18 ~~viG~~~a~~~l~~a~~~~--~~~ll~G~pG~GKT~la~~la~~l~~~-~~~~~~~~~-n~~~~~~~~~~~v~~~~g~   92 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQK--RNVLLIGEPGVGKSMLAKAMAELLPDE-ELEDILVYP-NPEDPNMPRIVEVPAGEGR   92 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcC--CCEEEECCCCCCHHHHHHHHHHHcCch-hheeEEEEe-CCCCCchHHHHHHHHhhch
Confidence            45789998888777776654  356699999999999999999877543 333333332 3334566668888877764

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

>PRK04132 replication factor C small subunit; Provisional

Probab=93.70  E-value=0.94  Score=55.45  Aligned_cols=132  Identities=11%  Similarity=0.057  Sum_probs=73.5

Q ss_pred             CCCCcHHHHHHHHHHHHhhccCC-CEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEe
Q 037935          190 MGGIGKTTLVKEFARQAREKKLF-DRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILD  268 (1085)
Q Consensus       190 ~~G~GKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD  268 (1085)
                      +.|+||||+|.+++++.-.. .+ ..++-++++....+..+. ++++.+.....              +...+.-++|+|
T Consensus       574 Ph~lGKTT~A~ala~~l~g~-~~~~~~lElNASd~rgid~IR-~iIk~~a~~~~--------------~~~~~~KVvIID  637 (846)
T PRK04132        574 PTVLHNTTAALALARELFGE-NWRHNFLELNASDERGINVIR-EKVKEFARTKP--------------IGGASFKIIFLD  637 (846)
T ss_pred             CCcccHHHHHHHHHHhhhcc-cccCeEEEEeCCCcccHHHHH-HHHHHHHhcCC--------------cCCCCCEEEEEE
Confidence            77899999999999986322 12 236667777765555433 33332211000              001245688888


Q ss_pred             CCCCcc--cccccccccCCCCCCcEEEe---------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHH
Q 037935          269 NIWKYL--DLDTIGIPFGNDHEGYNFLI---------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAIN  325 (1085)
Q Consensus       269 dv~~~~--~~~~~~~~~~~~~~gs~ilv---------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~  325 (1085)
                      +++...  ..+.+...+-.-....+++.                     .+++.++-.+.+...+.... ..-.++....
T Consensus       638 EaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Eg-i~i~~e~L~~  716 (846)
T PRK04132        638 EADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG-LELTEEGLQA  716 (846)
T ss_pred             CcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcC-CCCCHHHHHH
Confidence            887653  33333322221111222222                     88888888877776652111 1112567788


Q ss_pred             HHHHhCCchHHHH
Q 037935          326 VAQACGGLPIALT  338 (1085)
Q Consensus       326 i~~~~~glPlai~  338 (1085)
                      |++.++|-+..+.
T Consensus       717 Ia~~s~GDlR~AI  729 (846)
T PRK04132        717 ILYIAEGDMRRAI  729 (846)
T ss_pred             HHHHcCCCHHHHH
Confidence            9999999775443

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=93.67  E-value=0.18  Score=54.47  Aligned_cols=86  Identities=26%  Similarity=0.364  Sum_probs=59.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCc--hHHHHHHHHHHHHHc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDE--AEYRRASRLYERLKN  259 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l~~  259 (1085)
                      -.+|.|-|.+|+|||||.-++..+...+.   .+.+|+-  +-+..++ +-.++.++.+....  .....++.+.+.+.+
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsG--EES~~Qi-klRA~RL~~~~~~l~l~aEt~~e~I~~~l~~  166 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSG--EESLQQI-KLRADRLGLPTNNLYLLAETNLEDIIAELEQ  166 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeC--CcCHHHH-HHHHHHhCCCccceEEehhcCHHHHHHHHHh
Confidence            37899999999999999999999887653   5666544  4444443 34466676544322  122235566677777


Q ss_pred             CCcEEEEEeCCCCc
Q 037935          260 ENKILVILDNIWKY  273 (1085)
Q Consensus       260 ~~~~LlvlDdv~~~  273 (1085)
                      .++-++|+|-+.+.
T Consensus       167 ~~p~lvVIDSIQT~  180 (456)
T COG1066         167 EKPDLVVIDSIQTL  180 (456)
T ss_pred             cCCCEEEEecccee
Confidence            89999999998654

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=93.67  E-value=0.37  Score=51.72  Aligned_cols=52  Identities=19%  Similarity=0.232  Sum_probs=36.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEK  236 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  236 (1085)
                      -.++.|.|.+|+||||++.++......+.. ..++|+++..  +..++.+.+...
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g-~~vl~iS~E~--~~~~~~~r~~~~   81 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLITQHG-VRVGTISLEE--PVVRTARRLLGQ   81 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHHhcC-ceEEEEEccc--CHHHHHHHHHHH
Confidence            368889999999999999998876543211 3578887755  445555555444

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

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

Probab=93.63  E-value=0.21  Score=55.88  Aligned_cols=47  Identities=28%  Similarity=0.187  Sum_probs=36.1

Q ss_pred             ccccchHHHHHHHHHHhc-------c-------C----CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALT-------D-------V----NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~-------~-------~----~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|.+..++.+...+.       .       .    ..+.|.++|++|+|||++|+.+.....
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~  141 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILN  141 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcC
Confidence            457999998888766551       1       0    125799999999999999999997654

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK13949 shikimate kinase; Provisional

Probab=93.63  E-value=0.11  Score=50.78  Aligned_cols=25  Identities=44%  Similarity=0.457  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.|.|+|+.|+||||+++.+.+...
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3589999999999999999999875

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=93.61  E-value=0.42  Score=53.70  Aligned_cols=88  Identities=20%  Similarity=0.359  Sum_probs=54.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCC-------CCCchHH-----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLE-------LSDEAEY-----  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~~-----  247 (1085)
                      .-..++|+|..|+|||||++.+.....    .+.++.+-+.... .+.++.++.+..-+..       ..+.+..     
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~~----~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a  232 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNAD----ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA  232 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccC----CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence            457899999999999999999987654    3455556665443 4556665554433221       1111111     


Q ss_pred             -HHHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          248 -RRASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       248 -~~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                       .....+.++++ +++++|+++||+..
T Consensus       233 ~~~a~tiAEyfrd~G~~Vll~~DslTr  259 (442)
T PRK08927        233 AYLTLAIAEYFRDQGKDVLCLMDSVTR  259 (442)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCcHH
Confidence             11223344443 69999999999854

>PRK06851 hypothetical protein; Provisional

Probab=93.59  E-value=0.96  Score=49.73  Aligned_cols=43  Identities=28%  Similarity=0.279  Sum_probs=33.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT  223 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  223 (1085)
                      +--+++.|.|.+|+||||+++.++.....+ .++..++-|-+.+
T Consensus       212 ~~~~~~~i~G~pG~GKstl~~~i~~~a~~~-G~~v~~~hC~~dP  254 (367)
T PRK06851        212 GVKNRYFLKGRPGTGKSTMLKKIAKAAEER-GFDVEVYHCGFDP  254 (367)
T ss_pred             ccceEEEEeCCCCCcHHHHHHHHHHHHHhC-CCeEEEEeCCCCC
Confidence            345889999999999999999999988654 4666665554443

>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=93.58  E-value=0.042  Score=49.51  Aligned_cols=25  Identities=40%  Similarity=0.542  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          185 IGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      |-|+|.+|+||||+|+.+.......
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~   26 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLS   26 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCc
Confidence            6789999999999999999987643

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.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=93.50  E-value=0.078  Score=49.51  Aligned_cols=25  Identities=28%  Similarity=0.496  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .++++|+|.+|+||||+.+.+....
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5899999999999999999888876

>PF13245 AAA_19: Part of AAA domain

Probab=93.49  E-value=0.22  Score=40.87  Aligned_cols=26  Identities=35%  Similarity=0.392  Sum_probs=19.1

Q ss_pred             CceEEEEEcCCCCcHH-HHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKT-TLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKT-tLa~~v~~~~  206 (1085)
                      +-+++.|.|.+|.||| |++..+.+-.
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3577889999999999 4455555544

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

Probab=93.43  E-value=0.15  Score=53.67  Aligned_cols=54  Identities=22%  Similarity=0.188  Sum_probs=42.1

Q ss_pred             CCccccchHHHHHH---HHHHhccC--CceEEEEEcCCCCcHHHHHHHHHHHHhhccCC
Q 037935          159 GYEAFESRVSTLKS---IQNALTDV--NVSIIGVYGMGGIGKTTLVKEFARQAREKKLF  212 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~---l~~~l~~~--~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f  212 (1085)
                      ..+.++|..+..+.   |+++...+  .-+.|-|+|++|.|||+||-.+.+.....-.|
T Consensus        37 ~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF   95 (450)
T COG1224          37 IGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPF   95 (450)
T ss_pred             cCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCc
Confidence            34678998776654   55666543  35899999999999999999999999866556

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=93.42  E-value=0.34  Score=58.32  Aligned_cols=84  Identities=19%  Similarity=0.255  Sum_probs=55.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC------chHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD------EAEYRRASRLYE  255 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~~~~  255 (1085)
                      -+++-|+|.+|+||||||.+++......  =..++|++....++.     ..++++|.+.+.      .........+..
T Consensus        60 GsiteI~G~~GsGKTtLal~~~~~a~~~--G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i~~  132 (790)
T PRK09519         60 GRVIEIYGPESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIADM  132 (790)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHHHH
Confidence            5788999999999999998876654332  256899998887774     367777765321      122222333333


Q ss_pred             HHHcCCcEEEEEeCCCC
Q 037935          256 RLKNENKILVILDNIWK  272 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv~~  272 (1085)
                      .+..++--|||+|-+..
T Consensus       133 lv~~~~~~LVVIDSI~a  149 (790)
T PRK09519        133 LIRSGALDIVVIDSVAA  149 (790)
T ss_pred             HhhcCCCeEEEEcchhh
Confidence            34456777899998753

>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=93.38  E-value=0.095  Score=55.32  Aligned_cols=26  Identities=35%  Similarity=0.423  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +.|.|.|.+|+||||+|+.+......
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~   27 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEE   27 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHh
Confidence            46889999999999999999997765

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=93.38  E-value=0.21  Score=51.05  Aligned_cols=65  Identities=23%  Similarity=0.298  Sum_probs=38.8

Q ss_pred             HHHHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHH
Q 037935          169 TLKSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEI  233 (1085)
Q Consensus       169 ~~~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  233 (1085)
                      ...++++.+.  .++..+|+|.|.+|+|||||.-.+......+++=-.++=|+=|.+++--.++.+-
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDR   80 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDR   80 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--G
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccH
Confidence            3445555554  4567899999999999999999998887765433334445556667655555443

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>PRK08149 ATP synthase SpaL; Validated

Probab=93.36  E-value=0.24  Score=55.50  Aligned_cols=88  Identities=16%  Similarity=0.298  Sum_probs=53.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCC-------CCCchHH-----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLE-------LSDEAEY-----  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~-------~~~~~~~-----  247 (1085)
                      +-..++|+|..|+|||||++.++....    -+.++...+.. ..++.++..+........       ..+.+..     
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~~~~~----~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a  225 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNA  225 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhH
Confidence            446899999999999999998887443    34444444433 345666666666543321       1111111     


Q ss_pred             -HHHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          248 -RRASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       248 -~~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                       .....+.++++ ++|++|+++||+..
T Consensus       226 ~~~a~tiAE~fr~~G~~Vll~~DslTr  252 (428)
T PRK08149        226 ALVATTVAEYFRDQGKRVVLFIDSMTR  252 (428)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEccchHH
Confidence             11223334443 59999999999854

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=93.32  E-value=0.55  Score=53.06  Aligned_cols=91  Identities=23%  Similarity=0.388  Sum_probs=58.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHHHhCCC-------CCCchHHH----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAEKLGLE-------LSDEAEYR----  248 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~~~----  248 (1085)
                      .-..++|.|.+|+|||||+..+......+. =+.++++-+... ..+.++.+++...-...       ..+.+...    
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~-~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a  221 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRV  221 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhcC-CCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            446899999999999999999887765432 246777777554 45677777776542221       11111111    


Q ss_pred             --HHHHHHHHHH--cCCcEEEEEeCCCC
Q 037935          249 --RASRLYERLK--NENKILVILDNIWK  272 (1085)
Q Consensus       249 --~~~~~~~~l~--~~~~~LlvlDdv~~  272 (1085)
                        ....+.++++  +++++|+++|++..
T Consensus       222 ~~~a~tiAEyfrd~~G~~VLll~DslTR  249 (463)
T PRK09280        222 ALTGLTMAEYFRDVEGQDVLLFIDNIFR  249 (463)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecchHH
Confidence              1223444442  58999999999854

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=93.30  E-value=0.58  Score=56.55  Aligned_cols=26  Identities=35%  Similarity=0.373  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +-|.++|++|+|||++|+.+......
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~  211 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKV  211 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCC
Confidence            45899999999999999999887654

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=93.29  E-value=0.13  Score=56.25  Aligned_cols=46  Identities=22%  Similarity=0.218  Sum_probs=39.4

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..++|.+..+..++-.+.+....-+.|.|..|+||||+++.+..-.
T Consensus         4 ~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             cccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            3478999999888777777777888899999999999999998654

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>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=93.29  E-value=0.05  Score=29.87  Aligned_cols=15  Identities=53%  Similarity=0.718  Sum_probs=5.6

Q ss_pred             cceEEEecCCcccCC
Q 037935          542 KLRVVDLTRVRLFSL  556 (1085)
Q Consensus       542 ~Lr~L~Ls~~~i~~l  556 (1085)
                      +|++|++++|+++++
T Consensus         2 ~L~~L~l~~n~L~~l   16 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSL   16 (17)
T ss_dssp             T-SEEEETSS--SSE
T ss_pred             ccCEEECCCCCCCCC
Confidence            344444444444443

...

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=93.27  E-value=0.065  Score=52.97  Aligned_cols=23  Identities=43%  Similarity=0.628  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      +|+|.|.+|+||||+|+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999875

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=93.25  E-value=0.065  Score=50.65  Aligned_cols=20  Identities=40%  Similarity=0.684  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFA  203 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~  203 (1085)
                      .|+|.|.+|+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999997

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=93.25  E-value=0.46  Score=50.25  Aligned_cols=40  Identities=28%  Similarity=0.478  Sum_probs=30.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      .-+++.|.|.+|+|||++|.++......+  =..+++++...
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~--Ge~vlyis~Ee   74 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQASR--GNPVLFVTVES   74 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEEecC
Confidence            34799999999999999999986654322  23577888764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK11823 DNA repair protein RadA; Provisional

Probab=93.21  E-value=0.24  Score=56.79  Aligned_cols=85  Identities=25%  Similarity=0.325  Sum_probs=49.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCc--hHHHHHHHHHHHHHc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDE--AEYRRASRLYERLKN  259 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l~~  259 (1085)
                      -.++.|.|.+|+|||||+.++......+  =..++|++....  ..++.. .++.++......  .....+..+.+.+.+
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~Ees--~~qi~~-ra~rlg~~~~~l~~~~e~~l~~i~~~i~~  154 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSGEES--ASQIKL-RAERLGLPSDNLYLLAETNLEAILATIEE  154 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEcccc--HHHHHH-HHHHcCCChhcEEEeCCCCHHHHHHHHHh
Confidence            4699999999999999999998876532  235788876543  333322 245555422110  000112334444444


Q ss_pred             CCcEEEEEeCCC
Q 037935          260 ENKILVILDNIW  271 (1085)
Q Consensus       260 ~~~~LlvlDdv~  271 (1085)
                      .+.-++|+|.+.
T Consensus       155 ~~~~lVVIDSIq  166 (446)
T PRK11823        155 EKPDLVVIDSIQ  166 (446)
T ss_pred             hCCCEEEEechh
Confidence            455677888764

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=93.21  E-value=0.16  Score=54.55  Aligned_cols=78  Identities=21%  Similarity=0.382  Sum_probs=55.0

Q ss_pred             ccccchHHHHHHHHHHhc------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC----CCc---CHH
Q 037935          161 EAFESRVSTLKSIQNALT------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS----QTP---DIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~----~~~---~~~  227 (1085)
                      ..|+|.++.++++++.+.      +..-+|+.++|+.|.||||+|+.+.+-.+.   |  .+|.-..    ..+   =+.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~---y--~~Y~l~~~Pm~e~PL~L~P~  135 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEE---Y--PIYTLKGCPMHEEPLHLFPK  135 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhhe---E--EEEEecCCccccChhhhCCH
Confidence            468999999999999886      345689999999999999999999887764   2  3332221    111   134


Q ss_pred             HHHHHHHHHhCCCCCC
Q 037935          228 KIQGEIAEKLGLELSD  243 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~  243 (1085)
                      +.-+.+.+.++.....
T Consensus       136 ~~r~~~~~~~~~~i~g  151 (358)
T PF08298_consen  136 ELRREFEDELGIRIEG  151 (358)
T ss_pred             hHHHHHHHHhCcccCC
Confidence            5555666677664433

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=93.18  E-value=0.12  Score=56.27  Aligned_cols=47  Identities=15%  Similarity=0.193  Sum_probs=41.0

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|.++.+..+...+.+..++-|.|.|..|+||||+|+.+++-..
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            45799999999888888888888888999999999999999987654

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=93.14  E-value=0.065  Score=54.34  Aligned_cols=23  Identities=48%  Similarity=0.687  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      +|+|.|.+|+||||+|+.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998865

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=93.13  E-value=0.078  Score=52.76  Aligned_cols=25  Identities=32%  Similarity=0.367  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+++|+|+.|+||||+++.+.....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999988754

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=93.11  E-value=0.38  Score=52.31  Aligned_cols=35  Identities=20%  Similarity=0.332  Sum_probs=25.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          185 IGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      +.+.|++|+||||+++.+.+.......+ .+.+++.
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~-~v~~~~~   36 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLRRERGW-AVAVITY   36 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhccCC-eEEEEcc
Confidence            5789999999999999999887633223 2444444

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.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=93.10  E-value=0.25  Score=52.13  Aligned_cols=24  Identities=42%  Similarity=0.685  Sum_probs=21.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      |.++|.+|+||||+|+.+......
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            789999999999999999987754

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=93.05  E-value=0.091  Score=52.05  Aligned_cols=26  Identities=27%  Similarity=0.337  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...|.|+|++|+||||+|+.+.+...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999999874

>PRK00889 adenylylsulfate kinase; Provisional

Probab=93.04  E-value=0.11  Score=51.46  Aligned_cols=28  Identities=32%  Similarity=0.502  Sum_probs=24.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ...+|.|+|.+|+||||+|+.+......
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~   30 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLRE   30 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4569999999999999999999998754

>PRK13768 GTPase; Provisional

Probab=93.04  E-value=0.6  Score=49.14  Aligned_cols=37  Identities=30%  Similarity=0.374  Sum_probs=27.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      ..++.|.|.+|+||||++..+......++  ..++.|+.
T Consensus         2 ~~~i~v~G~~G~GKTt~~~~~~~~l~~~g--~~v~~i~~   38 (253)
T PRK13768          2 MYIVFFLGTAGSGKTTLTKALSDWLEEQG--YDVAIVNL   38 (253)
T ss_pred             cEEEEEECCCCccHHHHHHHHHHHHHhcC--CceEEEEC
Confidence            35789999999999999999888776432  23444544

>PRK12678 transcription termination factor Rho; Provisional

Probab=92.99  E-value=0.38  Score=54.92  Aligned_cols=99  Identities=15%  Similarity=0.150  Sum_probs=53.4

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEE-EEeCCCc-CHHHHHHHHHHHhCC-CCCCchH--
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVF-SEVSQTP-DIKKIQGEIAEKLGL-ELSDEAE--  246 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~w-v~~~~~~-~~~~~~~~i~~~l~~-~~~~~~~--  246 (1085)
                      +++.+. -+.-....|+|.+|+|||||++.+.+.... .+-++.++ +-|.+.. .+.++.+.+--++-. ..+....  
T Consensus       406 vIDll~PIGkGQR~LIvgpp~aGKTtLL~~IAn~i~~-n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~  484 (672)
T PRK12678        406 VIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAITT-NNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDH  484 (672)
T ss_pred             eeeeecccccCCEeEEeCCCCCCHHHHHHHHHHHHhh-cCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHH
Confidence            444444 234467889999999999999999986643 22344433 3333332 344443333111111 1111111  


Q ss_pred             ---HHHHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          247 ---YRRASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       247 ---~~~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                         ........+++. .++.+||++|++..
T Consensus       485 ~~~a~~ai~~Ae~fre~G~dVlillDSlTR  514 (672)
T PRK12678        485 TTVAELAIERAKRLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHHHHHHHHHHHHHcCCCEEEEEeCchH
Confidence               112223334443 69999999999853

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=92.99  E-value=0.21  Score=51.71  Aligned_cols=64  Identities=28%  Similarity=0.377  Sum_probs=46.4

Q ss_pred             HHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          171 KSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       171 ~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      .+++..+.  .++..+|+|.|.+|+||+||.-.+......++|=-.++=|+-|.+++--.++.+=+
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRi  103 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRI  103 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHh
Confidence            34555444  56778999999999999999999999887666544455566677777666555443

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=92.99  E-value=0.079  Score=50.68  Aligned_cols=24  Identities=38%  Similarity=0.567  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +|.|+|..|+||||+|+.+.....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999998764

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=92.99  E-value=0.14  Score=49.16  Aligned_cols=33  Identities=18%  Similarity=0.409  Sum_probs=26.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEE
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVF  217 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~w  217 (1085)
                      |++|+|+.|+||||++..+....+.+ .+...+.
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~-G~~V~vi   33 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR-GYRVATI   33 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEE
Confidence            58999999999999999999987654 3544443

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=92.96  E-value=0.6  Score=48.77  Aligned_cols=88  Identities=16%  Similarity=0.195  Sum_probs=51.8

Q ss_pred             CceEEEEEcCCCCcHHHHH-HHHHHHHhhccCCCEE-EEEEeCCC-cCHHHHHHHHHHHhCCC-------CCCchHHH--
Q 037935          181 NVSIIGVYGMGGIGKTTLV-KEFARQAREKKLFDRV-VFSEVSQT-PDIKKIQGEIAEKLGLE-------LSDEAEYR--  248 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa-~~v~~~~~~~~~f~~~-~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~~~--  248 (1085)
                      +-..++|.|.+|+|||+|| ..+.+..    +-+.+ +++-+.+. ..+.++.+++...-...       ..+++...  
T Consensus        68 rGQr~~Ifg~~g~GKt~L~l~~i~~~~----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  143 (274)
T cd01132          68 RGQRELIIGDRQTGKTAIAIDTIINQK----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQY  143 (274)
T ss_pred             cCCEEEeeCCCCCCccHHHHHHHHHhc----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHH
Confidence            3467899999999999996 5565542    23444 56666554 35666766666432111       11111111  


Q ss_pred             ----HHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          249 ----RASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       249 ----~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                          ....+.++++ +++.+|+|+||+..
T Consensus       144 ~a~~~a~aiAE~fr~~G~~Vlvl~DslTr  172 (274)
T cd01132         144 LAPYTGCAMGEYFMDNGKHALIIYDDLSK  172 (274)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEEcChHH
Confidence                1223333333 58999999999854

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 alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>PRK15453 phosphoribulokinase; Provisional

Probab=92.94  E-value=0.62  Score=48.73  Aligned_cols=28  Identities=36%  Similarity=0.541  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+..+|+|.|.+|+||||+|+.+.+..+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if~   30 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIFR   30 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3457999999999999999999987654

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=92.93  E-value=0.082  Score=53.00  Aligned_cols=27  Identities=30%  Similarity=0.496  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-.+++|+|.+|+|||||++.+.--.+
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~~   58 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLEK   58 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhcccC
Confidence            457999999999999999999986554

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=92.92  E-value=0.94  Score=47.75  Aligned_cols=128  Identities=18%  Similarity=0.259  Sum_probs=67.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN  259 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~  259 (1085)
                      +..+++++|..|+||||+++.+......++  ..+.+++..... ....-++..++.++.+.....+...+....+.+.+
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~~--~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~  151 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFHGKK--KTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKE  151 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHHHcC--CeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHh
Confidence            457999999999999999998877654321  245666653221 22222333444444433222222233444444532


Q ss_pred             -CCcEEEEEeCCCCc----ccccccccccCCCCCCcEEEe-c-CCCHHHHHHHHHHhc
Q 037935          260 -ENKILVILDNIWKY----LDLDTIGIPFGNDHEGYNFLI-G-NLSEEEAWRLFKIMN  310 (1085)
Q Consensus       260 -~~~~LlvlDdv~~~----~~~~~~~~~~~~~~~gs~ilv-~-~l~~~~~~~lf~~~~  310 (1085)
                       .+.=++++|..-..    ..++++...+....+...++| . ....+++.+.++...
T Consensus       152 ~~~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~~~f~  209 (270)
T PRK06731        152 EARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFK  209 (270)
T ss_pred             cCCCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHHHHhC
Confidence             34567888876433    223333222222222234544 3 345667777666544

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=92.92  E-value=2.1  Score=47.51  Aligned_cols=178  Identities=15%  Similarity=0.109  Sum_probs=86.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHH----------HhCC---CC-----C
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAE----------KLGL---EL-----S  242 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~----------~l~~---~~-----~  242 (1085)
                      ....+.|||..|.|||-|++++.+.....  ......+.++...-..++..++..          ++..   ++     .
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~--~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y~~dlllIDDiq~l~g  189 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALAN--GPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKYSLDLLLIDDIQFLAG  189 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhh--CCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhhccCeeeechHhHhcC
Confidence            36799999999999999999999987754  332222333322211222222211          1100   00     0


Q ss_pred             CchHHHHHHHHHHHHHcCCcEEEEEeCCCCcccccccccccCC-CCCCcEEEecCCCHHHHHHHHHHhcCCCCCCCCchH
Q 037935          243 DEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGN-DHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKP  321 (1085)
Q Consensus       243 ~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~~~~~~~~~~~-~~~gs~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~  321 (1085)
                      .....+.+=.....+....+.+++-.|-+- .+|..+...+.. ..-|-.+-|.|.+.+.-..++..++.... ..--++
T Consensus       190 k~~~qeefFh~FN~l~~~~kqIvltsdr~P-~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~-~~i~~e  267 (408)
T COG0593         190 KERTQEEFFHTFNALLENGKQIVLTSDRPP-KELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRG-IEIPDE  267 (408)
T ss_pred             ChhHHHHHHHHHHHHHhcCCEEEEEcCCCc-hhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHhcC-CCCCHH
Confidence            111122233334444433334444444322 222222111110 12345555699999999999888763211 111244


Q ss_pred             HHHHHHHHhCC----chHHHHHHHHHHh--cC--CHHHHHHHHHHhcCC
Q 037935          322 TAINVAQACGG----LPIALTTVARALR--NK--SLHEWKNALRELQTP  362 (1085)
Q Consensus       322 ~~~~i~~~~~g----lPlai~~~~~~l~--~~--~~~~w~~~~~~l~~~  362 (1085)
                      +..-|++....    +.-|+..+..+-.  ++  +...-+++++.+...
T Consensus       268 v~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~~~~~  316 (408)
T COG0593         268 VLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKDLLRA  316 (408)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHHHHHHHHHHhhcc
Confidence            55555555443    3344444333322  22  666667777654433

>PTZ00185 ATPase alpha subunit; Provisional

Probab=92.91  E-value=0.73  Score=52.13  Aligned_cols=93  Identities=16%  Similarity=0.127  Sum_probs=54.3

Q ss_pred             CceEEEEEcCCCCcHHHHH-HHHHHHHhh-----ccCCCEEEEEEeCCCcCHHHHHHHHHHHhC-CCC-------CCchH
Q 037935          181 NVSIIGVYGMGGIGKTTLV-KEFARQARE-----KKLFDRVVFSEVSQTPDIKKIQGEIAEKLG-LEL-------SDEAE  246 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa-~~v~~~~~~-----~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~-~~~-------~~~~~  246 (1085)
                      .-..++|.|..|+|||+|| -.+.+....     .++-+.++++-+.+...--.-+.+.+++-+ ...       .+++.
T Consensus       188 RGQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~  267 (574)
T PTZ00185        188 RGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPA  267 (574)
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCH
Confidence            4467899999999999997 556665422     123457788888776543332444444433 111       11111


Q ss_pred             H-H-----HHHHHHHHHH-cCCcEEEEEeCCCCc
Q 037935          247 Y-R-----RASRLYERLK-NENKILVILDNIWKY  273 (1085)
Q Consensus       247 ~-~-----~~~~~~~~l~-~~~~~LlvlDdv~~~  273 (1085)
                      . .     ....+.++++ +++.+|+|+||+..-
T Consensus       268 ~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~  301 (574)
T PTZ00185        268 GLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQ  301 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchHH
Confidence            1 1     1222333332 589999999998643

>PRK13947 shikimate kinase; Provisional

Probab=92.91  E-value=0.081  Score=52.19  Aligned_cols=25  Identities=36%  Similarity=0.316  Sum_probs=22.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      -|.|+|++|+||||+|+.+.+....
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~   27 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSF   27 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4889999999999999999998753

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=92.90  E-value=0.087  Score=52.13  Aligned_cols=25  Identities=40%  Similarity=0.695  Sum_probs=22.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +|+|.|.+|+||||+|+.+......
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~   25 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRV   25 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5899999999999999999988753

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.89  E-value=0.009  Score=57.57  Aligned_cols=43  Identities=21%  Similarity=0.266  Sum_probs=33.4

Q ss_pred             HhhhhceeeeeccccccccCCCCcccccCccEEEeccccCccc
Q 037935          943 IFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMN  985 (1085)
Q Consensus       943 ~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~  985 (1085)
                      ..++|+.|+|++|+++++.--.++..+++|+.|.|.+-+...+
T Consensus       149 ~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~l~~v~~  191 (221)
T KOG3864|consen  149 LAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYDLPYVAN  191 (221)
T ss_pred             cccchheeeccCCCeechhHHHHHHHhhhhHHHHhcCchhhhc
Confidence            4688999999999998877555677888899998877554443

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

Probab=92.87  E-value=0.32  Score=47.38  Aligned_cols=44  Identities=14%  Similarity=0.250  Sum_probs=30.6

Q ss_pred             ccchHHHHHHHHHHhc---cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          163 FESRVSTLKSIQNALT---DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       163 ~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++|.+..++++.+.+.   ... .-|.|+|..|+||+.+|+.+++...
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~-~pVlI~GE~GtGK~~lA~~IH~~s~   47 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSD-LPVLITGETGTGKELLARAIHNNSP   47 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTST-S-EEEECSTTSSHHHHHHHHHHCST
T ss_pred             CEeCCHHHHHHHHHHHHHhCCC-CCEEEEcCCCCcHHHHHHHHHHhhh
Confidence            3566667777766654   233 4556999999999999999999543

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=92.85  E-value=0.74  Score=46.48  Aligned_cols=27  Identities=30%  Similarity=0.426  Sum_probs=24.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ..|+|.|..|+||||+++.+.+.....
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~~   30 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQEN   30 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            579999999999999999999987754

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=92.84  E-value=0.47  Score=49.13  Aligned_cols=25  Identities=32%  Similarity=0.510  Sum_probs=22.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +|+|.|.+|+||||+++.+.+..+.
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~   25 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFAR   25 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5899999999999999999987754

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>TIGR00416 sms DNA repair protein RadA

Probab=92.83  E-value=0.32  Score=55.74  Aligned_cols=86  Identities=24%  Similarity=0.326  Sum_probs=48.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCc--hHHHHHHHHHHHHHc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDE--AEYRRASRLYERLKN  259 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l~~  259 (1085)
                      -.++.|.|.+|+|||||+.++......++  ..++|++....  ..++.. -++.++......  ........+.+.+.+
T Consensus        94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g--~kvlYvs~EEs--~~qi~~-ra~rlg~~~~~l~~~~e~~~~~I~~~i~~  168 (454)
T TIGR00416        94 GSLILIGGDPGIGKSTLLLQVACQLAKNQ--MKVLYVSGEES--LQQIKM-RAIRLGLPEPNLYVLSETNWEQICANIEE  168 (454)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHhcC--CcEEEEECcCC--HHHHHH-HHHHcCCChHHeEEcCCCCHHHHHHHHHh
Confidence            47999999999999999999977664332  35778776543  333322 233444321100  000112334444444


Q ss_pred             CCcEEEEEeCCCC
Q 037935          260 ENKILVILDNIWK  272 (1085)
Q Consensus       260 ~~~~LlvlDdv~~  272 (1085)
                      .+.-++|+|.+..
T Consensus       169 ~~~~~vVIDSIq~  181 (454)
T TIGR00416       169 ENPQACVIDSIQT  181 (454)
T ss_pred             cCCcEEEEecchh
Confidence            4556778887643

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)).

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=92.83  E-value=0.22  Score=53.61  Aligned_cols=49  Identities=22%  Similarity=0.335  Sum_probs=37.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGE  232 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  232 (1085)
                      .+++.+.|.|||||||+|.+..-.....+  ..++-|+.....++.+++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g--~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESG--KKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcC--CcEEEEEeCCCCchHhhhcc
Confidence            47899999999999999998766665443  44777777777776666554

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

Probab=92.83  E-value=0.17  Score=58.66  Aligned_cols=93  Identities=22%  Similarity=0.247  Sum_probs=57.4

Q ss_pred             ccccchHHHHHH---HHHHhccC---------CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH
Q 037935          161 EAFESRVSTLKS---IQNALTDV---------NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       161 ~~~~gr~~~~~~---l~~~l~~~---------~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  228 (1085)
                      .++.|.|+.+++   +++.|.+.         =.+-+..+|++|.|||.||+++.-+..+.  |     .+.|...-+  
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP--F-----f~iSGS~FV--  220 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--F-----FSISGSDFV--  220 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC--c-----eeccchhhh--
Confidence            456787776655   55566532         13678899999999999999999988875  3     222221000  


Q ss_pred             HHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          229 IQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       229 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                         ++.-  +..      ..++..+..+-+++-++++++|.++..
T Consensus       221 ---emfV--GvG------AsRVRdLF~qAkk~aP~IIFIDEiDAv  254 (596)
T COG0465         221 ---EMFV--GVG------ASRVRDLFEQAKKNAPCIIFIDEIDAV  254 (596)
T ss_pred             ---hhhc--CCC------cHHHHHHHHHhhccCCCeEEEehhhhc
Confidence               0110  111      223445555555677899999988654

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=92.80  E-value=0.39  Score=46.75  Aligned_cols=37  Identities=22%  Similarity=0.202  Sum_probs=28.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  226 (1085)
                      +.|.|.+|.|||++|.++....     ...++++.-.+.++.
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~-----~~~~~y~at~~~~d~   38 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL-----GGPVTYIATAEAFDD   38 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----CCCeEEEEccCcCCH
Confidence            6789999999999999987652     235667766666654

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.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=92.79  E-value=0.28  Score=50.92  Aligned_cols=47  Identities=21%  Similarity=0.352  Sum_probs=31.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc-cCCCEEEEEEeCCCcCHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK-KLFDRVVFSEVSQTPDIKKIQGE  232 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~~~~~~~~~  232 (1085)
                      -+++.|.|.+|+|||++|.++....-.+ +  +.++||+...+  ..++.+.
T Consensus        19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~g--e~vlyvs~ee~--~~~l~~~   66 (226)
T PF06745_consen   19 GSVVLISGPPGSGKTTLALQFLYNGLKNFG--EKVLYVSFEEP--PEELIEN   66 (226)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHHHT----EEEEESSS---HHHHHHH
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHhhhhcC--CcEEEEEecCC--HHHHHHH
Confidence            4799999999999999998866544322 1  35778887554  3444444

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=92.77  E-value=0.11  Score=49.58  Aligned_cols=29  Identities=31%  Similarity=0.652  Sum_probs=26.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhcc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKK  210 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~  210 (1085)
                      .+|++|+|+.|.|||||...+....+.++
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L~~~G   30 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKLKARG   30 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHHHhCC
Confidence            47999999999999999999999888664

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=92.75  E-value=0.37  Score=53.96  Aligned_cols=92  Identities=22%  Similarity=0.289  Sum_probs=59.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhcc--CCC---------EEEEEEeCCCcCHHHHHHHHHHHhC-CCC-------
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKK--LFD---------RVVFSEVSQTPDIKKIQGEIAEKLG-LEL-------  241 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~--~f~---------~~~wv~~~~~~~~~~~~~~i~~~l~-~~~-------  241 (1085)
                      .-..++|.|.+|+|||||+..+.+..+.-.  -.|         .++++-+.+.....+.+.+.+..-+ ...       
T Consensus       140 ~GQRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~at  219 (466)
T TIGR01040       140 RGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNL  219 (466)
T ss_pred             cCCeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEEC
Confidence            446889999999999999999988765100  012         5677777877777776666666655 211       


Q ss_pred             CCchHHH------HHHHHHHHHH--cCCcEEEEEeCCCC
Q 037935          242 SDEAEYR------RASRLYERLK--NENKILVILDNIWK  272 (1085)
Q Consensus       242 ~~~~~~~------~~~~~~~~l~--~~~~~LlvlDdv~~  272 (1085)
                      .+.+...      ....+.++++  +++++|+++||+..
T Consensus       220 sd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr  258 (466)
T TIGR01040       220 ANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSS  258 (466)
T ss_pred             CCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHH
Confidence            1111111      1233445555  58999999999853

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

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

Probab=92.75  E-value=0.24  Score=54.75  Aligned_cols=65  Identities=20%  Similarity=0.139  Sum_probs=49.7

Q ss_pred             ccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          163 FESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       163 ~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      ++|++..+..+...+..+  +.+-+.|.+|+|||++|+.+.......     .++|.+.......++.....
T Consensus        26 ~~g~~~~~~~~l~a~~~~--~~vll~G~PG~gKT~la~~lA~~l~~~-----~~~i~~t~~l~p~d~~G~~~   90 (329)
T COG0714          26 VVGDEEVIELALLALLAG--GHVLLEGPPGVGKTLLARALARALGLP-----FVRIQCTPDLLPSDLLGTYA   90 (329)
T ss_pred             eeccHHHHHHHHHHHHcC--CCEEEECCCCccHHHHHHHHHHHhCCC-----eEEEecCCCCCHHHhcCchh
Confidence            788888888877766543  567899999999999999999987632     46677777777776655543

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=92.75  E-value=0.16  Score=55.03  Aligned_cols=41  Identities=24%  Similarity=0.361  Sum_probs=29.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT  223 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  223 (1085)
                      +.++|+|+|-||+||||.+..+....... .+ .+.-|+.-..
T Consensus         3 ~~~~iai~~KGGvGKTt~~~nLa~~la~~-g~-kVLliD~D~q   43 (295)
T PRK13234          3 KLRQIAFYGKGGIGKSTTSQNTLAALVEM-GQ-KILIVGCDPK   43 (295)
T ss_pred             cceEEEEECCCCccHHHHHHHHHHHHHHC-CC-eEEEEecccc
Confidence            45789999999999999999887766544 23 3555555443

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

Probab=92.72  E-value=0.34  Score=53.61  Aligned_cols=77  Identities=22%  Similarity=0.303  Sum_probs=48.8

Q ss_pred             ccccchHHHHHHHHHHhcc--------------CCceEEEEEcCCCCcHHHHHHHHHHHHhhcc-CCCEEEEEEeC-CCc
Q 037935          161 EAFESRVSTLKSIQNALTD--------------VNVSIIGVYGMGGIGKTTLVKEFARQAREKK-LFDRVVFSEVS-QTP  224 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~--------------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-~f~~~~wv~~~-~~~  224 (1085)
                      ..++|.+..++.+..++..              ...+.|.++|++|+|||++|+.+.......- +++..-|.... ...
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~   94 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGR   94 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccC
Confidence            4578999888888776632              0136789999999999999999999875320 11222222211 122


Q ss_pred             CHHHHHHHHHHHh
Q 037935          225 DIKKIQGEIAEKL  237 (1085)
Q Consensus       225 ~~~~~~~~i~~~l  237 (1085)
                      +...+.+.+....
T Consensus        95 d~e~~ir~L~~~A  107 (443)
T PRK05201         95 DVESIIRDLVEIA  107 (443)
T ss_pred             CHHHHHHHHHHHH
Confidence            5556666665544

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=92.72  E-value=0.13  Score=52.59  Aligned_cols=32  Identities=22%  Similarity=0.406  Sum_probs=27.5

Q ss_pred             HhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          176 ALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       176 ~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+.+.++++|+++|..|+|||||.+++.+...
T Consensus        16 ~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        16 RLDKHGLVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             HhhhcCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34467899999999999999999999988754

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=92.72  E-value=0.42  Score=53.73  Aligned_cols=89  Identities=20%  Similarity=0.280  Sum_probs=50.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCC------CCCchHH------H
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLE------LSDEAEY------R  248 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~------~~~~~~~------~  248 (1085)
                      .-..++|+|..|+|||||++.+......   ...++|..-....++.++....+......      ..+.+..      .
T Consensus       164 ~Gqri~I~G~SGsGKTTLL~~Ia~l~~p---d~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~  240 (450)
T PRK06002        164 AGQRIGIFAGSGVGKSTLLAMLARADAF---DTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPL  240 (450)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCC---CeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHH
Confidence            3468999999999999999988764331   22344443223445555544444332110      1111111      1


Q ss_pred             HHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          249 RASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       249 ~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                      ....+.++++ +++++|+++||+..
T Consensus       241 ~a~~iAEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        241 TATAIAEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchHH
Confidence            1223334443 59999999999854

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=92.70  E-value=0.1  Score=51.68  Aligned_cols=25  Identities=20%  Similarity=0.315  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++|.+.|++|+||||+|+.+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            5899999999999999999988754

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>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=92.69  E-value=0.067  Score=29.37  Aligned_cols=17  Identities=35%  Similarity=0.538  Sum_probs=9.8

Q ss_pred             ccccEEeccCcccccccc
Q 037935          564 TKLRMLDLTDCLQLKFIV  581 (1085)
Q Consensus       564 ~~L~~L~Ls~~~~l~~lp  581 (1085)
                      ++|+.|++++| +++++|
T Consensus         1 ~~L~~L~l~~n-~L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNN-RLTSLP   17 (17)
T ss_dssp             TT-SEEEETSS---SSE-
T ss_pred             CccCEEECCCC-CCCCCc
Confidence            46788888888 677765

...

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=92.65  E-value=0.52  Score=53.48  Aligned_cols=92  Identities=24%  Similarity=0.289  Sum_probs=58.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCC--EEEEEEeCCC-cCHHHHHHHHHHHhCCCC-------CCchH----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFD--RVVFSEVSQT-PDIKKIQGEIAEKLGLEL-------SDEAE----  246 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~--~~~wv~~~~~-~~~~~~~~~i~~~l~~~~-------~~~~~----  246 (1085)
                      .-..++|.|..|+|||||+..+.+.....+.+.  .++++-+.+. ..+.++.+++...=....       .+.+.    
T Consensus       140 ~GQR~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~  219 (458)
T TIGR01041       140 RGQKLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERI  219 (458)
T ss_pred             cCCEEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHH
Confidence            346789999999999999999988765321111  5666667554 456777777764332211       11111    


Q ss_pred             --HHHHHHHHHHHH--cCCcEEEEEeCCCC
Q 037935          247 --YRRASRLYERLK--NENKILVILDNIWK  272 (1085)
Q Consensus       247 --~~~~~~~~~~l~--~~~~~LlvlDdv~~  272 (1085)
                        ......+.++++  +++++|+++||+..
T Consensus       220 ~a~~~a~tiAEyfr~d~G~~VLli~DslTR  249 (458)
T TIGR01041       220 VTPRMALTAAEYLAFEKDMHVLVILTDMTN  249 (458)
T ss_pred             HHHHHHHHHHHHHHHccCCcEEEEEcChhH
Confidence              112334555665  59999999999854

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=92.63  E-value=0.17  Score=48.28  Aligned_cols=34  Identities=21%  Similarity=0.481  Sum_probs=28.0

Q ss_pred             HHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          170 LKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       170 ~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ++++.+++.+   ++++++|..|||||||...+....
T Consensus        26 ~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   26 IEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             HHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             HHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            5566777643   899999999999999999998754

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=92.62  E-value=0.14  Score=51.13  Aligned_cols=37  Identities=32%  Similarity=0.405  Sum_probs=29.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      .++|.|+|+.|+|||||++.+......  +|..+++.+-
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~--~~~~~v~~TT   38 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPD--KFGRVVSHTT   38 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTT--TEEEEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhccc--ccccceeecc
Confidence            478999999999999999999998763  3755555444

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=92.62  E-value=0.15  Score=55.44  Aligned_cols=46  Identities=22%  Similarity=0.265  Sum_probs=37.9

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..++|.+..++.+.-.+.+.+..-+.+.|..|+||||+|+.+..-.
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            4578999998888766555556679999999999999999997754

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=92.62  E-value=0.52  Score=54.96  Aligned_cols=54  Identities=28%  Similarity=0.370  Sum_probs=37.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      .-.++.|.|.+|+|||||+.++......++  +.+++++...  +..++.+.+ +.++.
T Consensus       262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~g--e~~~y~s~eE--s~~~i~~~~-~~lg~  315 (484)
T TIGR02655       262 KDSIILATGATGTGKTLLVSKFLENACANK--ERAILFAYEE--SRAQLLRNA-YSWGI  315 (484)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEEeeC--CHHHHHHHH-HHcCC
Confidence            347999999999999999999888764332  4566666544  455555553 45553

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.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=92.62  E-value=0.11  Score=47.59  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      |.|+|..|+|||||.+.+.....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            78999999999999999987543

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=92.56  E-value=0.28  Score=51.30  Aligned_cols=35  Identities=34%  Similarity=0.377  Sum_probs=22.5

Q ss_pred             HHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          170 LKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       170 ~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .+.+..++...  .+..|+|++|.||||++..+....
T Consensus         7 ~~Ai~~~~~~~--~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    7 REAIQSALSSN--GITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHCTSS--E-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCC--CCEEEECCCCCChHHHHHHHHHHh
Confidence            34444444332  278899999999998777776665

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=92.53  E-value=0.11  Score=45.52  Aligned_cols=22  Identities=36%  Similarity=0.400  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFA  203 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~  203 (1085)
                      -..++|+|.+|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4789999999999999999986

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=92.52  E-value=0.91  Score=48.96  Aligned_cols=58  Identities=17%  Similarity=0.296  Sum_probs=41.1

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHH
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIA  234 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~  234 (1085)
                      +++.+. -.+-..++|.|..|+|||+|++++.+...    -+.++++-+.+. ..+.++++++-
T Consensus       147 vID~l~Pi~kGqr~~I~G~~G~GKT~L~~~Iak~~~----~dvvVyv~iGERg~Ev~e~l~ef~  206 (369)
T cd01134         147 VLDTLFPVVKGGTAAIPGPFGCGKTVIQQSLSKYSN----SDIVIYVGCGERGNEMTEVLEEFP  206 (369)
T ss_pred             hhhccccccCCCEEEEECCCCCChHHHHHHHHhCCC----CCEEEEEEeCCChHHHHHHHHHHH
Confidence            444443 13346899999999999999999988543    467888888664 34666666653

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=92.51  E-value=0.46  Score=51.56  Aligned_cols=31  Identities=29%  Similarity=0.528  Sum_probs=26.4

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      .+...+|+|+|.+|+||||++..+......+
T Consensus        31 ~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~   61 (300)
T TIGR00750        31 TGNAHRVGITGTPGAGKSTLLEALGMELRRR   61 (300)
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3567899999999999999999998876543

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=92.51  E-value=0.18  Score=58.43  Aligned_cols=50  Identities=24%  Similarity=0.327  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHhcc-----CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          167 VSTLKSIQNALTD-----VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       167 ~~~~~~l~~~l~~-----~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      .+-++++..||.+     ...+++.+.|++|+||||.++.++++..    |+.+=|.+-
T Consensus        25 kkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg----~~v~Ew~np   79 (519)
T PF03215_consen   25 KKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG----FEVQEWINP   79 (519)
T ss_pred             HHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC----CeeEEecCC
Confidence            4456777777762     2357899999999999999999999875    777778643

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=92.49  E-value=0.41  Score=51.45  Aligned_cols=62  Identities=19%  Similarity=0.184  Sum_probs=41.2

Q ss_pred             ccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          163 FESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       163 ~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      ++=.......++.++..  -+.|.|.|.+|+||||+|+.++......     .+.|.++...+..++..
T Consensus        47 y~f~~~~~~~vl~~l~~--~~~ilL~G~pGtGKTtla~~lA~~l~~~-----~~rV~~~~~l~~~DliG  108 (327)
T TIGR01650        47 YLFDKATTKAICAGFAY--DRRVMVQGYHGTGKSTHIEQIAARLNWP-----CVRVNLDSHVSRIDLVG  108 (327)
T ss_pred             ccCCHHHHHHHHHHHhc--CCcEEEEeCCCChHHHHHHHHHHHHCCC-----eEEEEecCCCChhhcCC
Confidence            43333445566666653  2569999999999999999999987632     23556665555544433

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=92.48  E-value=0.19  Score=53.44  Aligned_cols=54  Identities=17%  Similarity=0.302  Sum_probs=40.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      .-+++.|+|.+|+|||++|.++.......  ...++||+....  ...+.+...+ ++-
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~--ge~vlyvs~~e~--~~~l~~~~~~-~g~   75 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEGARE--GEPVLYVSTEES--PEELLENARS-FGW   75 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHHHhc--CCcEEEEEecCC--HHHHHHHHHH-cCC
Confidence            45899999999999999999988877644  778999988663  4444444433 543

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=92.48  E-value=0.66  Score=48.84  Aligned_cols=110  Identities=19%  Similarity=0.201  Sum_probs=64.8

Q ss_pred             cccchHHHHHHHHHHhc----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH-HHHHHHHHHH
Q 037935          162 AFESRVSTLKSIQNALT----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI-KKIQGEIAEK  236 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~-~~~~~~i~~~  236 (1085)
                      .++|-.++..++-.++.    .+...-+.|+|+.|.|||+|.-.+..+.+  ..=+..+-|........ +-.++.|.++
T Consensus        25 ~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q--~~~E~~l~v~Lng~~~~dk~al~~I~rq  102 (408)
T KOG2228|consen   25 NLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQ--ENGENFLLVRLNGELQTDKIALKGITRQ  102 (408)
T ss_pred             ceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHH--hcCCeEEEEEECccchhhHHHHHHHHHH
Confidence            46777777777777665    34566788999999999999988877722  11133444555544322 2244555554


Q ss_pred             hCC----CCC-CchHHHHHHHHHHHHH-----cCCcEEEEEeCCCCc
Q 037935          237 LGL----ELS-DEAEYRRASRLYERLK-----NENKILVILDNIWKY  273 (1085)
Q Consensus       237 l~~----~~~-~~~~~~~~~~~~~~l~-----~~~~~LlvlDdv~~~  273 (1085)
                      +..    ... ..+-.+.+..+...++     .+.+++.|+|+++..
T Consensus       103 l~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf  149 (408)
T KOG2228|consen  103 LALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLF  149 (408)
T ss_pred             HHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhcc
Confidence            432    111 1122333555555555     245688888887643

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=92.46  E-value=0.096  Score=50.32  Aligned_cols=23  Identities=43%  Similarity=0.608  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ++.|+|.+|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998864

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK13695 putative NTPase; Provisional

Probab=92.39  E-value=0.19  Score=49.66  Aligned_cols=34  Identities=38%  Similarity=0.486  Sum_probs=25.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEE
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFS  218 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv  218 (1085)
                      .|+|+|.+|+|||||++.+++..... .+....|+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~~~-G~~~~g~~   35 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLKEE-GYKVGGFY   35 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC-CCeEEEEE
Confidence            47899999999999999998876542 35444444

>TIGR03263 guanyl_kin guanylate kinase

Probab=92.37  E-value=0.098  Score=52.09  Aligned_cols=24  Identities=38%  Similarity=0.610  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ++|+|+|+.|+||||+++.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999998853

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=92.37  E-value=0.58  Score=50.63  Aligned_cols=88  Identities=22%  Similarity=0.400  Sum_probs=51.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC-CCcCHHHHHHHHHHHhCCC-------CCCchHH-----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS-QTPDIKKIQGEIAEKLGLE-------LSDEAEY-----  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~-------~~~~~~~-----  247 (1085)
                      .-..++|+|..|+|||||.+.+......    +..+..-+. ...++.++..+....-+..       ..+.+..     
T Consensus        68 ~Gqri~I~G~sG~GKTtLl~~Ia~~~~~----~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~  143 (326)
T cd01136          68 KGQRLGIFAGSGVGKSTLLGMIARGTTA----DVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKA  143 (326)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCCCC----CEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHH
Confidence            3468899999999999999988875432    333333333 3345666666665543221       1111111     


Q ss_pred             -HHHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          248 -RRASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       248 -~~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                       .......++++ ++|.+|+++||+..
T Consensus       144 ~~~a~~~AEyfr~~g~~Vll~~Dsltr  170 (326)
T cd01136         144 AYTATAIAEYFRDQGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHHHHHHcCCCeEEEeccchH
Confidence             11222333332 59999999999754

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>PRK14530 adenylate kinase; Provisional

Probab=92.36  E-value=0.12  Score=53.19  Aligned_cols=25  Identities=28%  Similarity=0.299  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.|.|+|++|+||||+|+.+.....
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988764

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=92.35  E-value=0.69  Score=52.10  Aligned_cols=91  Identities=22%  Similarity=0.377  Sum_probs=58.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHHHhCCC-------CCCchHH-----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAEKLGLE-------LSDEAEY-----  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~~-----  247 (1085)
                      .-..++|.|.+|+|||||+..+........ =+.++++-+... ..+.++++++...-...       ..+.+..     
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~~~~-~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a  220 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRV  220 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHHhcC-CCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            446899999999999999999888765321 246777777554 45677777775432211       1112111     


Q ss_pred             -HHHHHHHHHHH--cCCcEEEEEeCCCC
Q 037935          248 -RRASRLYERLK--NENKILVILDNIWK  272 (1085)
Q Consensus       248 -~~~~~~~~~l~--~~~~~LlvlDdv~~  272 (1085)
                       .....+.++++  +++++|+++||+..
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLll~DslTR  248 (461)
T TIGR01039       221 ALTGLTMAEYFRDEQGQDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHHhcCCeeEEEecchhH
Confidence             12334445554  47999999999854

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.

>PRK06936 type III secretion system ATPase; Provisional

Probab=92.32  E-value=0.62  Score=52.36  Aligned_cols=88  Identities=20%  Similarity=0.404  Sum_probs=55.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCC-------CCCchHHH----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLE-------LSDEAEYR----  248 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~~~----  248 (1085)
                      +-..++|.|..|+|||||.+.+++...    -+.++.+-+.+.. .+.++.+..+..-+..       ..+.+...    
T Consensus       161 ~Gq~~~I~G~sG~GKStLl~~Ia~~~~----~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a  236 (439)
T PRK06936        161 EGQRMGIFAAAGGGKSTLLASLIRSAE----VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKA  236 (439)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhcCCC----CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHH
Confidence            456899999999999999999988654    3567777776543 4555555544322211       11111111    


Q ss_pred             --HHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          249 --RASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       249 --~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                        ....+.++++ +++++|+++||+..
T Consensus       237 ~~~a~tiAEyfrd~G~~Vll~~DslTR  263 (439)
T PRK06936        237 GFVATSIAEYFRDQGKRVLLLMDSVTR  263 (439)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhH
Confidence              1223344443 59999999999854

>TIGR01287 nifH nitrogenase iron protein

Probab=92.31  E-value=0.12  Score=55.51  Aligned_cols=40  Identities=30%  Similarity=0.474  Sum_probs=29.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP  224 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  224 (1085)
                      +.|+|+|-|||||||++..+......++ + .++-|+.-...
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~~G-~-~VlliD~D~q~   40 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAEMG-K-KVMIVGCDPKA   40 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHHCC-C-eEEEEeCCCCC
Confidence            4789999999999999999998877543 3 34445554333

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=92.27  E-value=0.12  Score=49.83  Aligned_cols=23  Identities=39%  Similarity=0.478  Sum_probs=21.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      |.|+|++|+||||+|+.+.....
T Consensus         2 i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Confidence            68999999999999999988764

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

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

Probab=92.22  E-value=0.36  Score=50.07  Aligned_cols=29  Identities=28%  Similarity=0.305  Sum_probs=25.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ..+.+.|||++|.|||.+|+.|+....+.
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~mg~n  193 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATMGVN  193 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhcCCc
Confidence            34789999999999999999999988765

>PRK14529 adenylate kinase; Provisional

Probab=92.20  E-value=0.4  Score=48.85  Aligned_cols=24  Identities=25%  Similarity=0.264  Sum_probs=21.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      |.|.|++|+||||+|+.+......
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~   26 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDL   26 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
Confidence            788999999999999999988764

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=92.17  E-value=0.12  Score=52.33  Aligned_cols=26  Identities=27%  Similarity=0.460  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+|+|+|++|+|||||.+.+.--.
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44799999999999999999997643

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=92.15  E-value=0.26  Score=53.37  Aligned_cols=46  Identities=22%  Similarity=0.370  Sum_probs=31.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQ  230 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  230 (1085)
                      +++.+.|-|||||||+|.+..-....++  ..+.-|+.....++.+++
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G--~rtLlvS~Dpa~~L~d~l   47 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRG--KRTLLVSTDPAHSLSDVL   47 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTT--S-EEEEESSTTTHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCC--CCeeEeecCCCccHHHHh
Confidence            6889999999999999988777665443  235556665554444443

...

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=92.14  E-value=1.3  Score=48.40  Aligned_cols=25  Identities=28%  Similarity=0.246  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-+.++|+.|+||||+|+.+....-
T Consensus        22 hA~Lf~G~~G~GK~~la~~~a~~ll   46 (325)
T PRK08699         22 NAWLFAGKKGIGKTAFARFAAQALL   46 (325)
T ss_pred             eEEEeECCCCCCHHHHHHHHHHHHc
Confidence            4678999999999999999988753

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=92.12  E-value=0.41  Score=47.86  Aligned_cols=23  Identities=43%  Similarity=0.557  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      ..+|+|+|+.|+||||+|+.+.+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            36899999999999999999877

>PRK05922 type III secretion system ATPase; Validated

Probab=92.11  E-value=0.63  Score=52.25  Aligned_cols=88  Identities=20%  Similarity=0.353  Sum_probs=51.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCC-------CCchHH-----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLEL-------SDEAEY-----  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~-------~~~~~~-----  247 (1085)
                      .-..++|+|..|+|||||.+.+.....    .+....+-+.. .......+.+.........       .+.+..     
T Consensus       156 ~GqrigI~G~nG~GKSTLL~~Ia~~~~----~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a  231 (434)
T PRK05922        156 KGQRIGVFSEPGSGKSSLLSTIAKGSK----STINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIA  231 (434)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhccCC----CCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHH
Confidence            446799999999999999999987543    23333333433 2334455555544332211       111111     


Q ss_pred             -HHHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          248 -RRASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       248 -~~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                       .....+.++++ +++++|+++||+..
T Consensus       232 ~~~a~tiAEyfrd~G~~VLl~~DslTR  258 (434)
T PRK05922        232 GRAAMTIAEYFRDQGHRVLFIMDSLSR  258 (434)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhH
Confidence             12233444443 69999999999854

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=92.11  E-value=0.11  Score=48.80  Aligned_cols=23  Identities=35%  Similarity=0.602  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .|+|+|+.|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999998864

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=92.10  E-value=0.17  Score=59.49  Aligned_cols=47  Identities=23%  Similarity=0.391  Sum_probs=38.7

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++++|.+..++.+...+......-+.|+|.+|+|||++|+.+++..+
T Consensus        65 ~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~  111 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAK  111 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhh
Confidence            45899999998888777655556778999999999999999987643

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=92.10  E-value=0.14  Score=50.34  Aligned_cols=26  Identities=31%  Similarity=0.344  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+.|.|+|+.|+||||+|+.+.....
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcC
Confidence            35699999999999999999998764

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=92.08  E-value=0.15  Score=51.06  Aligned_cols=26  Identities=31%  Similarity=0.428  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+|.|.|.+|+||||+|+.+.....
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~~   28 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHRA   28 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            46899999999999999999998753

>PRK00300 gmk guanylate kinase; Provisional

Probab=92.05  E-value=0.13  Score=52.40  Aligned_cols=26  Identities=35%  Similarity=0.456  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ...+|+|+|+.|+|||||++.+....
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34789999999999999999999864

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=92.03  E-value=0.58  Score=53.23  Aligned_cols=89  Identities=13%  Similarity=0.237  Sum_probs=55.9

Q ss_pred             CceEEEEEcCCCCcHHHHH-HHHHHHHhhccCCCE-EEEEEeCCC-cCHHHHHHHHHHHhCCCC-------CCchHHH--
Q 037935          181 NVSIIGVYGMGGIGKTTLV-KEFARQAREKKLFDR-VVFSEVSQT-PDIKKIQGEIAEKLGLEL-------SDEAEYR--  248 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa-~~v~~~~~~~~~f~~-~~wv~~~~~-~~~~~~~~~i~~~l~~~~-------~~~~~~~--  248 (1085)
                      .-..++|.|..|+|||||| ..+.+...    -|. ++++-+.+. ..+.++.+.+...=....       .+.+...  
T Consensus       161 rGQR~~Ifg~~g~GKT~Lal~~I~~q~~----~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r~  236 (497)
T TIGR03324       161 RGQRELILGDRQTGKTAIAIDTILNQKG----RNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQY  236 (497)
T ss_pred             cCCEEEeecCCCCCHHHHHHHHHHHhcC----CCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHHH
Confidence            4468899999999999997 46766532    454 677888765 456777777765432211       1111111  


Q ss_pred             ----HHHHHHHHHH-cCCcEEEEEeCCCCc
Q 037935          249 ----RASRLYERLK-NENKILVILDNIWKY  273 (1085)
Q Consensus       249 ----~~~~~~~~l~-~~~~~LlvlDdv~~~  273 (1085)
                          ....+.++++ +++++|+|+||+...
T Consensus       237 ~ap~~a~aiAEyfrd~G~~VLlv~DdlTr~  266 (497)
T TIGR03324       237 IAPYAATSIGEHFMEQGRDVLIVYDDLTQH  266 (497)
T ss_pred             HHHHHHHHHHHHHHhCCCCEEEEEcChhHH
Confidence                1223334443 699999999998643

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.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=92.01  E-value=0.12  Score=51.71  Aligned_cols=24  Identities=25%  Similarity=0.487  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .++.|+|+.|+|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997754

>PRK13236 nitrogenase reductase; Reviewed

Probab=92.01  E-value=0.17  Score=54.75  Aligned_cols=31  Identities=39%  Similarity=0.570  Sum_probs=26.7

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      +++.++|++.|-|||||||+|..+..-...+
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~La~~   33 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLAAMAEM   33 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHHHHHHC
Confidence            5678999999999999999999888776653

>PRK13975 thymidylate kinase; Provisional

Probab=92.00  E-value=0.15  Score=51.68  Aligned_cols=26  Identities=35%  Similarity=0.415  Sum_probs=23.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .+|+|.|+.|+||||+|+.+.+....
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            57999999999999999999998763

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=91.99  E-value=0.65  Score=52.68  Aligned_cols=91  Identities=23%  Similarity=0.354  Sum_probs=57.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCC--------------CCCch
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLE--------------LSDEA  245 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~--------------~~~~~  245 (1085)
                      .-..++|.|.+|+|||+|+..+....... +=+.++++-+.+.. .+.++..++...-...              ..+.+
T Consensus       160 kGQR~gIfgg~GvGKs~L~~~~~~~~~~~-~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p  238 (494)
T CHL00060        160 RGGKIGLFGGAGVGKTVLIMELINNIAKA-HGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEP  238 (494)
T ss_pred             cCCEEeeecCCCCChhHHHHHHHHHHHHh-cCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCCC
Confidence            44689999999999999999888773321 12778888886654 5677777776511110              01111


Q ss_pred             HH------HHHHHHHHHHHc-C-CcEEEEEeCCCC
Q 037935          246 EY------RRASRLYERLKN-E-NKILVILDNIWK  272 (1085)
Q Consensus       246 ~~------~~~~~~~~~l~~-~-~~~LlvlDdv~~  272 (1085)
                      ..      .....+.++++. + +++||++||+..
T Consensus       239 ~~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR  273 (494)
T CHL00060        239 PGARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFR  273 (494)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchH
Confidence            11      123345566652 4 499999999854

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=91.93  E-value=0.49  Score=53.14  Aligned_cols=88  Identities=24%  Similarity=0.426  Sum_probs=51.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHHHhCCC-------CCCchHH-----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAEKLGLE-------LSDEAEY-----  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~~-----  247 (1085)
                      .-..++|+|..|+|||||.+.+.....    .+..+.+.+... ..+.++.+.....-...       ..+.+..     
T Consensus       136 ~Gq~~~I~G~sG~GKTtLl~~I~~~~~----~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a  211 (411)
T TIGR03496       136 RGQRMGIFAGSGVGKSTLLGMMARYTE----ADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRA  211 (411)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhcCCC----CCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHH
Confidence            446799999999999999998886543    234444445443 34555555544332111       1111111     


Q ss_pred             -HHHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          248 -RRASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       248 -~~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                       .....+.++++ +++++|+++||+..
T Consensus       212 ~~~a~tiAEyfr~~G~~Vll~~Dsltr  238 (411)
T TIGR03496       212 AFYATAIAEYFRDQGKDVLLLMDSLTR  238 (411)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEeChHH
Confidence             11223344443 58999999999853

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=91.90  E-value=0.14  Score=49.11  Aligned_cols=27  Identities=26%  Similarity=0.331  Sum_probs=23.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      +-|.++||.|+||||+.+.+++.....
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~   29 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLP   29 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCC
Confidence            357899999999999999999887643

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=91.89  E-value=0.16  Score=52.08  Aligned_cols=27  Identities=37%  Similarity=0.646  Sum_probs=23.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ++|+|.|-||+||||++..+.......
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~la~~   27 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAALAEM   27 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHHHHC
Confidence            479999999999999999988877654

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=91.85  E-value=0.34  Score=48.76  Aligned_cols=37  Identities=27%  Similarity=0.310  Sum_probs=28.1

Q ss_pred             HHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          173 IQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       173 l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      .+..+...+-+++.|.|.+|+||||+++.+.......
T Consensus         9 a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~   45 (196)
T PF13604_consen    9 AVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAA   45 (196)
T ss_dssp             HHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhC
Confidence            3333333445789999999999999999998877654

>PRK09099 type III secretion system ATPase; Provisional

Probab=91.84  E-value=0.49  Score=53.40  Aligned_cols=90  Identities=20%  Similarity=0.327  Sum_probs=52.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCC-------CCCchHH-----
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLE-------LSDEAEY-----  247 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-------~~~~~~~-----  247 (1085)
                      .+-..++|.|..|+|||||++.+.......   ..+++..=.+...+.++.+.+...-+..       ..+.+..     
T Consensus       161 ~~Gq~~~I~G~sG~GKTtLl~~ia~~~~~d---~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a  237 (441)
T PRK09099        161 GEGQRMGIFAPAGVGKSTLMGMFARGTQCD---VNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKA  237 (441)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCC---eEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHH
Confidence            345789999999999999999998754321   1233333233445666666665442221       1111111     


Q ss_pred             -HHHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          248 -RRASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       248 -~~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                       .....+.++++ +++++|+++||+..
T Consensus       238 ~~~a~tiAEyfrd~G~~VLl~~DslTr  264 (441)
T PRK09099        238 AYVATAIAEYFRDRGLRVLLMMDSLTR  264 (441)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhH
Confidence             11223344443 68999999999854

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=91.83  E-value=0.44  Score=48.29  Aligned_cols=25  Identities=36%  Similarity=0.533  Sum_probs=22.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +|+|.|+.|+||||+++.+.+....
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~~   26 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLEA   26 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6899999999999999999998763

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=91.81  E-value=0.17  Score=49.33  Aligned_cols=24  Identities=38%  Similarity=0.576  Sum_probs=20.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      |.|.|.+|+||||+++.+++..+.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc
Confidence            679999999999999999998753

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=91.81  E-value=0.25  Score=49.97  Aligned_cols=28  Identities=18%  Similarity=0.304  Sum_probs=24.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ....+|+|+|.+|+||||+|+.+.....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~   49 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALH   49 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4568999999999999999999998764

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=91.77  E-value=0.14  Score=47.53  Aligned_cols=24  Identities=33%  Similarity=0.439  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      +.|.++|..|+|||||++.+....
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            568899999999999999997754

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=91.75  E-value=0.61  Score=52.45  Aligned_cols=90  Identities=18%  Similarity=0.338  Sum_probs=48.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCC-------CCCch------
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLE-------LSDEA------  245 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~-------~~~~~------  245 (1085)
                      ..-..++|+|..|+|||||++.+.....    .+..+..-+.. ..++.++..+.+.+-+..       ..+.+      
T Consensus       153 ~~GQ~igI~G~sGaGKSTLl~~I~g~~~----~dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~  228 (434)
T PRK07196        153 GKGQRVGLMAGSGVGKSVLLGMITRYTQ----ADVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIK  228 (434)
T ss_pred             ecceEEEEECCCCCCccHHHHHHhcccC----CCeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHH
Confidence            3457899999999999999998877543    23332222322 223444443433332221       11111      


Q ss_pred             HHHHHHHHHHHHH-cCCcEEEEEeCCCCc
Q 037935          246 EYRRASRLYERLK-NENKILVILDNIWKY  273 (1085)
Q Consensus       246 ~~~~~~~~~~~l~-~~~~~LlvlDdv~~~  273 (1085)
                      ....+..+.+... +++++|+++||+...
T Consensus       229 a~e~a~~iAEyfr~~g~~Vll~~Dsltr~  257 (434)
T PRK07196        229 ATELCHAIATYYRDKGHDVLLLVDSLTRY  257 (434)
T ss_pred             HHHHHHHHHHHhhhccCCEEEeecchhHH
Confidence            1111222222222 589999999998543

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=91.73  E-value=0.68  Score=52.74  Aligned_cols=91  Identities=26%  Similarity=0.350  Sum_probs=58.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhc---cCCCEEEEEEeCCC-cCHHHHHHHHHHHhCCC-------CCCchHH--
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREK---KLFDRVVFSEVSQT-PDIKKIQGEIAEKLGLE-------LSDEAEY--  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~---~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~~--  247 (1085)
                      .-..++|.|..|+|||+|+..+.+.....   ..+ .++++-+.+. ..+.++.+++...=...       ..+.+..  
T Consensus       142 ~GQR~gIfgg~G~GKs~L~~~ia~~~~~d~~~~~~-v~V~~~iGeRgrEv~e~~~~~~~~~~l~rtvvV~atsd~p~~~R  220 (460)
T PRK04196        142 RGQKLPIFSGSGLPHNELAAQIARQAKVLGEEENF-AVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIER  220 (460)
T ss_pred             CCCEEEeeCCCCCCccHHHHHHHHhhhhccCCCce-EEEEEEeccccHHHHHHHHHHHhcCCcceEEEEEEcCCCCHHHH
Confidence            34678999999999999999998876532   112 5667777654 45677777776542221       1111111  


Q ss_pred             ----HHHHHHHHHHH--cCCcEEEEEeCCCC
Q 037935          248 ----RRASRLYERLK--NENKILVILDNIWK  272 (1085)
Q Consensus       248 ----~~~~~~~~~l~--~~~~~LlvlDdv~~  272 (1085)
                          -....+.++++  +++++|+++||+..
T Consensus       221 ~~a~~~a~tiAEyfr~d~G~~VLli~DslTR  251 (460)
T PRK04196        221 ILTPRMALTAAEYLAFEKGMHVLVILTDMTN  251 (460)
T ss_pred             HHHHHHHHHHHHHHHHhcCCcEEEEEcChHH
Confidence                12334556665  58999999999854

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=91.71  E-value=0.38  Score=49.31  Aligned_cols=41  Identities=29%  Similarity=0.483  Sum_probs=31.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPD  225 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  225 (1085)
                      +.|+|+|-||+||||.+..+..-....+  ..++-|-+..+.+
T Consensus         1 r~IAiYGKGGIGKST~~~Nlsaala~~G--~kVl~iGCDPK~D   41 (273)
T PF00142_consen    1 RKIAIYGKGGIGKSTTASNLSAALAEMG--KKVLQIGCDPKAD   41 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTT----EEEEEESSSST
T ss_pred             CeEEEEcCCCcccChhhhHHHHHHHhcc--ceeeEecccCCCc
Confidence            5799999999999999999988776542  4577777765543

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=91.67  E-value=0.15  Score=52.86  Aligned_cols=33  Identities=27%  Similarity=0.367  Sum_probs=22.9

Q ss_pred             EEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC
Q 037935          187 VYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS  221 (1085)
Q Consensus       187 I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  221 (1085)
                      |+|++|+||||+++.+.+.....+  ..++-|+.-
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~--~~~~~vNLD   33 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNG--RDVYIVNLD   33 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT---S-EEEEE--
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhcc--CCceEEEcc
Confidence            689999999999999999887542  234445553

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=91.65  E-value=0.27  Score=47.33  Aligned_cols=27  Identities=33%  Similarity=0.603  Sum_probs=24.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ++++|+|..|+|||||+..+......+
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l~~~   28 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPALSAR   28 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            689999999999999999999887654

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>PRK13948 shikimate kinase; Provisional

Probab=91.64  E-value=0.18  Score=49.82  Aligned_cols=28  Identities=25%  Similarity=0.353  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .....|.++|+.|+||||+++.+.+...
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3457899999999999999999998865

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

Probab=91.63  E-value=0.31  Score=48.38  Aligned_cols=42  Identities=17%  Similarity=0.228  Sum_probs=31.6

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      ..++|.+..+..+.-+...  ..-+.++|.+|+|||++|+.+..
T Consensus         3 ~dI~GQe~aKrAL~iAAaG--~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG--GHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC--C--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcC--CCCeEEECCCCCCHHHHHHHHHH
Confidence            4578888887777666553  36889999999999999999875

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

>PRK13946 shikimate kinase; Provisional

Probab=91.60  E-value=0.15  Score=50.91  Aligned_cols=26  Identities=23%  Similarity=0.322  Sum_probs=23.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +.|.++|+.|+||||+++.+.+....
T Consensus        11 ~~I~l~G~~GsGKsti~~~LA~~Lg~   36 (184)
T PRK13946         11 RTVVLVGLMGAGKSTVGRRLATMLGL   36 (184)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            57999999999999999999998753

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=91.59  E-value=0.62  Score=52.38  Aligned_cols=86  Identities=21%  Similarity=0.276  Sum_probs=49.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcC-HHHHHHHHHHHhCCC---------CCCc-hH--
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPD-IKKIQGEIAEKLGLE---------LSDE-AE--  246 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~~l~~~---------~~~~-~~--  246 (1085)
                      ..-..++|+|..|+|||||++.+.....    -+..+..-+..... ..++.+.   .++..         ..++ ..  
T Consensus       155 ~~Gq~~~i~G~sG~GKStLl~~i~~~~~----~~v~vi~~iGergrev~e~~~~---~l~~~l~~tvvV~atsddsp~~R  227 (434)
T PRK08472        155 GKGQKLGIFAGSGVGKSTLMGMIVKGCL----APIKVVALIGERGREIPEFIEK---NLGGDLENTVIVVATSDDSPLMR  227 (434)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhccC----CCEEEEEeeCccchhHHHHHHH---HhcCcccceEEEEECCCCCHHHh
Confidence            3456899999999999999999987543    23444444444332 2333332   22221         0111 11  


Q ss_pred             ---HHHHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          247 ---YRRASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       247 ---~~~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                         ......+.+++. +++++|+++||+..
T Consensus       228 ~~~~~~a~~iAEyFrd~G~~Vll~~DslTr  257 (434)
T PRK08472        228 KYGAFCAMSVAEYFKNQGLDVLFIMDSVTR  257 (434)
T ss_pred             hHHHHHHHHHHHHHHHcCCCEEEecccchH
Confidence               111233444443 69999999999854

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=91.55  E-value=0.32  Score=52.23  Aligned_cols=43  Identities=28%  Similarity=0.462  Sum_probs=31.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      ++|+|.|-||+||||++..+......++ + .++-|+.....+..
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La~~G-~-kVlliD~Dpq~n~~   44 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALAEMG-K-KVMIVGCDPKADST   44 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHHhCC-C-eEEEEEcCCCCCch
Confidence            5788899999999999999988776432 2 45557765554433

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=91.54  E-value=0.13  Score=50.14  Aligned_cols=22  Identities=27%  Similarity=0.530  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      |.|+|++|+||||+|+.+....
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998875

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=91.54  E-value=0.19  Score=53.21  Aligned_cols=35  Identities=26%  Similarity=0.391  Sum_probs=28.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      ++|+|+|.+|+|||||+..+......++   .++-|..
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G---~V~~IKh   36 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSGRG---RVGTVKH   36 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCC---CEEEEEE
Confidence            5899999999999999999999988664   2554544

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=91.50  E-value=0.66  Score=52.31  Aligned_cols=88  Identities=20%  Similarity=0.409  Sum_probs=51.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHHHhCCCC-------CCchHH-----
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAEKLGLEL-------SDEAEY-----  247 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~-------~~~~~~-----  247 (1085)
                      .-..++|+|..|+|||||++.+.....    .+.++...+... .+..++...+...-+...       .+.+..     
T Consensus       167 ~GqrigI~G~sG~GKSTLl~~I~g~~~----~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a  242 (451)
T PRK05688        167 RGQRLGLFAGTGVGKSVLLGMMTRFTE----ADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRA  242 (451)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCC----CCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHH
Confidence            446799999999999999998876432    344444444333 345555555554432211       111111     


Q ss_pred             -HHHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          248 -RRASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       248 -~~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                       .....+.++++ +++++|+++||+..
T Consensus       243 ~~~a~aiAEyfrd~G~~VLl~~DslTR  269 (451)
T PRK05688        243 AMYCTRIAEYFRDKGKNVLLLMDSLTR  269 (451)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEecchhH
Confidence             11223334443 69999999999854

>cd01878 HflX HflX subfamily

Probab=91.48  E-value=0.57  Score=47.70  Aligned_cols=27  Identities=19%  Similarity=0.388  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .....|+|+|.+|+|||||...+....
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            456799999999999999999988764

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PRK00279 adk adenylate kinase; Reviewed

Probab=91.46  E-value=0.86  Score=46.80  Aligned_cols=24  Identities=29%  Similarity=0.241  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|.|.|++|+||||+|+.+.....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~   25 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYG   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987754

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=91.44  E-value=0.28  Score=52.81  Aligned_cols=50  Identities=20%  Similarity=0.262  Sum_probs=36.6

Q ss_pred             CccccchHHHHHH---HHHHhccCC--ceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          160 YEAFESRVSTLKS---IQNALTDVN--VSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       160 ~~~~~gr~~~~~~---l~~~l~~~~--~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ...+||..+..+.   +++++..++  -+.|-+.|++|.|||+||..+.+....+
T Consensus        23 ~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~   77 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGED   77 (398)
T ss_dssp             ETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTT
T ss_pred             cccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCC
Confidence            3578998777665   456655543  4889999999999999999999998755

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>PRK14737 gmk guanylate kinase; Provisional

Probab=91.43  E-value=0.18  Score=50.22  Aligned_cols=26  Identities=15%  Similarity=0.355  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..++|.|+|++|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45789999999999999999998754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	1085
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	6e-40
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-36
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-27
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-17
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-06
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-16
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-09
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-16
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-09
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-05
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	8e-16
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-15
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-11
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	9e-11
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	7e-15
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	7e-12
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-14
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-12
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-12
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	9e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	6e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-10
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-07
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-06
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	6e-10
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-07
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	8e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-09
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	4e-08
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-09
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-08
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	4e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	9e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-09
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-08
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-08
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	7e-08
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	8e-06
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-08
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	7e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	1e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-07
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	3e-08
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-04
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	9e-07
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-05
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-07
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	4e-05
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	7e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-07
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-07
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-07
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-05
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-07
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-06
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	5e-07
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	5e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	5e-06
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	5e-07
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	5e-04
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	9e-07
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	1e-05
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	3e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	4e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	4e-06
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	8e-06
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	8e-06
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	6e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	5e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	5e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-05
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-04
3m19_A	251	Variable lymphocyte receptor A diversity region; a	8e-05
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	8e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	7e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-04
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	1e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-04
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	3e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	7e-04
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	8e-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 =  155 bits (393), Expect = 6e-40
 Identities = 52/439 (11%), Positives = 124/439 (28%), Gaps = 47/439 (10%)

Query: 71  EEIEEKVEKWLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRYQLSKKAETEVKAL 130
           E I +   +    AN  +    +   +              +L    +           L
Sbjct: 42  ELISKMSTRLERIAN-FLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPDL 100

Query: 131 VELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGM 190
           +       +F             +         E  V  +    + + D++   + ++G 
Sbjct: 101 LRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGR 160

Query: 191 GGIGKTTLVKEFARQARE--KKLFDRVVFSEVSQTP---------DIKKIQGEIAEKLGL 239
            G GK+ +  +   ++ +     +D +V+ + S T          DI  +     + L  
Sbjct: 161 AGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNF 220

Query: 240 ELSDEAEYRRASRLYER-LKNENKILVILDNIWKYLDLDTIGIPFGN------------- 285
              +        R+    L +    L + D++      +TI                   
Sbjct: 221 PSVEHVTSVVLKRMICNALIDRPNTLFVFDDVV---QEETIRWAQELRLRCLVTTRDVEI 277

Query: 286 ----DHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVA 341
                       + +L  +E +   +          K +       +   G P  L    
Sbjct: 278 SNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFF 337

Query: 342 RALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSI----ELSFKYLKGEQLKKIFLLC 397
           ++   K+  +      +L++  +V  E +   +Y S+    +   + L  E  +      
Sbjct: 338 KSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDE-DRSALAFA 396

Query: 398 SLIGNSF---YLIDLLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRN--E 452
            +          I +  +S  + +    N+ E   +++   +  L     LL G R    
Sbjct: 397 VV----MPPGVDIPVKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVL 452

Query: 453 TFYMHDVVCDVAVSIACRD 471
           TF +  ++      +    
Sbjct: 453 TFKIDHIIHMFLKHVVDAQ 471

>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 =  148 bits (373), Expect = 3e-36
 Identities = 82/588 (13%), Positives = 183/588 (31%), Gaps = 145/588 (24%)

Query: 69  KGEEIEEKVEK-----------WLVSANGIIDQAAKFVEDEESTNKRCLKGLCPNLKTRY 117
             EEI+  +             W + +    +   KFVE+    N          L +  
Sbjct: 47  SKEEIDHIIMSKDAVSGTLRLFWTLLSKQE-EMVQKFVEEVLRINY-------KFLMSPI 98

Query: 118 QLSKKAETEVKALVELGEEVKKFDIVSHRTTPEEIWLKSNKGYEAFESRVSTLKSIQNAL 177
           +  ++  + +  +    E+  +    +       +             R+     ++ AL
Sbjct: 99  KTEQRQPSMMTRMYI--EQRDRLYNDNQVFAKYNVS------------RLQPYLKLRQAL 144

Query: 178 TDVNVS-IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVF----SEVSQTPDIKKIQGE 232
            ++  +  + + G+ G GKT +  +     + +   D  +F       +    + ++  +
Sbjct: 145 LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK 204

Query: 233 IAEKLGLELSDEAEY-----RRASRLYERL------KNENKILVILDNIW-----KYLDL 276
           +  ++    +  +++      R   +   L      K     L++L N+         +L
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264

Query: 277 --------------DTIGIPFGNDHEGYNFLIGNLSEEEAWRLF-KIMNGDDVENCKFK- 320
                         D +       H   +     L+ +E   L  K +      +C+ + 
Sbjct: 265 SCKILLTTRFKQVTDFLS-AATTTHISLDHHSMTLTPDEVKSLLLKYL------DCRPQD 317

Query: 321 -PTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSIE 379
            P      +     P  L+ +A ++R+     W N          VN +    +  + IE
Sbjct: 318 LP-----REVLTTNPRRLSIIAESIRDGLAT-WDNWKH-------VNCD----KLTTIIE 360

Query: 380 LSFKYLKGEQLKKIFLLCSLIGNSFYL-IDLLRYSMGLGLFHGVNKMEDARNKLYALVHE 438
            S   L+  + +K+F   S+   S ++   L      L L        D       +V++
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL------LSLIWFDVIKSDVMV----VVNK 410

Query: 439 LRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQ-HVFLVRNDAVWE-WPDGDALKKC-- 494
           L    L+ +  +  T  +  +  ++ V +      H  +V +  + + +   D +     
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470

Query: 495 -YAIS-----LLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDL 548
            Y  S     L N    E    F    L+F                 F +  +K+R    
Sbjct: 471 QYFYSHIGHHLKNIEHPERMTLFRMVFLDF----------------RFLE--QKIRHDST 512

Query: 549 TRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYM 596
                 S+ +++ QL   +           +I  N    + RL    +
Sbjct: 513 AWNASGSILNTLQQLKFYK----------PYICDND-PKYERLVNAIL 549

>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 = 72.2 bits (176), Expect = 8e-13
 Identities = 90/662 (13%), Positives = 186/662 (28%), Gaps = 208/662 (31%)

Query: 438  ELRDCCLLLEGDR-NETFYMHDVVCDVAVSIACRDQHVFLVRNDAVWEWPDGDALKKCYA 496
            E+    +++  D  + T  +   +      +  +    F+            + L+  Y 
Sbjct: 50   EIDH--IIMSKDAVSGTLRLFWTLLSKQEEMVQK----FV-----------EEVLRINY- 91

Query: 497  ISLLNSSIHEVSLEFECPQLEF------LHIDPKITFAELNIPDNFFKGMKKLRVVDLTR 550
               L S I     +       +      L+ D ++ FA+ N+           R+    +
Sbjct: 92   -KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV-FAKYNVS----------RLQPYLK 139

Query: 551  VR--LFSLPSS----------IGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGS 598
            +R  L  L  +           G   K         +       ++  S+    ++    
Sbjct: 140  LRQALLELRPAKNVLIDGVLGSG---K-------TWV-----ALDVCLSYKVQCKMDFK- 183

Query: 599  CSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDG 658
              I W +   N          L  LQ+L   +ID  + +   D     KL          
Sbjct: 184  --IFW-LNLKNCNSPE---TVLEMLQKLL-YQID-PNWTSRSDHSSNIKLR--------- 226

Query: 659  SFDSTKIIGNDWFQTFNIQSIYIFC-IVMALELNAINVDEIWHYNQLPAM-VPCFQSL-- 714
               S +       +       Y  C +V+           + +     A  + C + L  
Sbjct: 227  -IHSIQ----AELRRLLKSKPYENCLLVL---------LNVQNAKAWNAFNLSC-KILLT 271

Query: 715  TRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTT 774
            TR       K            L       I L       ++ +    +       +   
Sbjct: 272  TR------FK-------QVTDFLSAATTTHISL-DHHSMTLTPDEVKSL-----LLKYLD 312

Query: 775  LKLDGLPELRC----LYPGM-------HTSEWPALKNLVACNCDKIT------LSQNDEN 817
             +   LP            +         + W   K++   NCDK+T      L+  +  
Sbjct: 313  CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV---NCDKLTTIIESSLNVLEPA 369

Query: 818  DQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDD--FPQHLFGSL-KQLRVGDDDL 874
            +       + +F         + L+        +       P  L   +   +   D  +
Sbjct: 370  EY------RKMF---------DRLS--------VFPPSAHIPTILLSLIWFDVIKSDVMV 406

Query: 875  ---ACFPLDLLERFHNLEFLY-LSDCSYEVVFSNEGYLETHARKLALIKRLNLTR---LN 927
                     L+E+    E    +     E+    E     H     ++   N+ +    +
Sbjct: 407  VVNKLHKYSLVEK-QPKESTISIPSIYLELKVKLENEYALHRS---IVDHYNIPKTFDSD 462

Query: 928  HLQQLWKHDSKELD-FIFQHLQILRVLHCQNL-----LSLLPSSSVSFRNLTRLETFACK 981
             L   +      LD + + H+      H +N+     ++L     + FR       F  +
Sbjct: 463  DLIPPY------LDQYFYSHI----GHHLKNIEHPERMTLFRMVFLDFR-------FLEQ 505

Query: 982  KLMNLLTSSKAKS--LERLVSLRIFG------CPAMTEVIISDEDETANLKEEIVFSKLS 1033
            K+ +  T+  A    L  L  L+ +        P    ++ +  D    ++E ++ SK +
Sbjct: 506  KIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYT 565

Query: 1034 AL 1035
             L
Sbjct: 566  DL 567

>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 = 69.5 bits (169), Expect = 5e-12
 Identities = 114/704 (16%), Positives = 199/704 (28%), Gaps = 209/704 (29%)

Query: 350 HEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNSFYLIDL 409
           +++K+ L   +   V NF+          ++    L  E++  I +    +  +  L   
Sbjct: 16  YQYKDILSVFEDAFVDNFD-----CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70

Query: 410 LRYSMGLGLFHGVNK-MEDARNKLYA-LVHELRDCCLLLEGDRNETFYMHDVVCDVAVSI 467
           L           V K +E+     Y  L+  ++                 D + +     
Sbjct: 71  LLSKQE----EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126

Query: 468 A----CRDQHVFLVRNDAVWEWPDGDAL---------KKCYAISLLNSSIHEVSLEFECP 514
           A     R Q    +R  A+ E      +         K   A+ +  S  ++V  + +  
Sbjct: 127 AKYNVSRLQPYLKLRQ-ALLELRPAKNVLIDGVLGSGKTWVALDVCLS--YKVQCKMDF- 182

Query: 515 QLEFLHIDPKI---TFAELNIPDNFFKGMKKL-RVVDLTRVRLFSLPSSIGQLT-----K 565
                    KI        N P+   + ++KL   +D          S+I         +
Sbjct: 183 ---------KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233

Query: 566 LRML----DLTDCLQLKFIV------PNILSSFTRLEELYMGSCSIKWEVRKGNSERSNA 615
           LR L       +CL    +V          ++F         SC I              
Sbjct: 234 LRRLLKSKPYENCL----LVLLNVQNAKAWNAFN-------LSCKI-------------- 268

Query: 616 SLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFN 675
                  L  LTT    V D        F        IS+   S   T        +  +
Sbjct: 269 -------L--LTTRFKQVTD--------FLSAATTTHISLDHHSMTLTP------DEVKS 305

Query: 676 IQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVW---GCDKLKYIFSAS 732
           +   Y+ C    L    +  +     + +   +     L     W    CDKL  I  +S
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPR-RLSIIAESIR--DGLATWDNWKHVNCDKLTTIIESS 362

Query: 733 TIQSLEQLQHLEIRLC-KSLQEIISENRTDQVTAYFVFP---RVTTLKLDGLPELRCLYP 788
               L  L+  E R     L                VFP    + T+ L        L  
Sbjct: 363 ----LNVLEPAEYRKMFDRL---------------SVFPPSAHIPTILL-------SLI- 395

Query: 789 GMHTSEWPALKN----LVACNCDKITLSQNDEND-QFGVPAQQPLFSFKKILPNLEGL-- 841
                 W  +      +V     K +L +    +    +P+       K  L N   L  
Sbjct: 396 ------WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY--LELKVKLENEYALHR 447

Query: 842 ----------ALSGKDITMILQDD-FPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEF 890
                          D+     D  F  H+   LK +            +  ER      
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI------------EHPERMTLFRM 495

Query: 891 LYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKH-----DSKE------ 939
           ++L          +  +LE   R  +     + + LN LQQL  +     D+        
Sbjct: 496 VFL----------DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545

Query: 940 ---LDFIFQHLQILRVLHCQNLL--SLL-PSSSV---SFRNLTR 974
              LDF+ +  + L      +LL  +L+    ++   + + + R
Sbjct: 546 NAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 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 = 51.4 bits (122), Expect = 2e-06
 Identities = 81/495 (16%), Positives = 142/495 (28%), Gaps = 135/495 (27%)

Query: 618  DELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQ 677
            D L   +       D +D   +P  + +K  E  D  I      S               
Sbjct: 20   DILSVFEDAFVDNFDCKDVQDMPKSILSK--EEIDHIIMSKDAVS--------------G 63

Query: 678  SIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSL 737
            ++ +F     L      +            V  F       V    ++ Y F  S I++ 
Sbjct: 64   TLRLFWT---LLSKQEEM------------VQKF-------VEEVLRINYKFLMSPIKTE 101

Query: 738  EQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPR---VTTLKLDGLPELR-----CLYPG 789
            ++   +  R+    ++ +  N       Y V  R      L+   L ELR      +  G
Sbjct: 102  QRQPSMMTRMYIEQRDRL-YNDNQVFAKYNV-SRLQPYLKLR-QALLELRPAKNVLID-G 157

Query: 790  MHTS--EWPALKNLVACNCDK-----------ITLSQNDENDQFGVPAQQPLFSFKKILP 836
            +  S   W AL     C   K           + L   +  +   +   Q L    +I P
Sbjct: 158  VLGSGKTWVALD---VCLSYKVQCKMDFKIFWLNLKNCNSPETV-LEMLQKLLY--QIDP 211

Query: 837  NLEGLALSGKDITMILQD--DFPQHLFGSLKQ----LRVGDD----------DLACFPLD 880
            N    +    +I + +       + L    K     L V  +          +L+C  L 
Sbjct: 212  NWTSRSDHSSNIKLRIHSIQAELRRLL-KSKPYENCLLVLLNVQNAKAWNAFNLSCKIL- 269

Query: 881  LLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKEL 940
            L  RF  +                          L+     +++  +H   L   + K L
Sbjct: 270  LTTRFKQV-----------------------TDFLSAATTTHISLDHHSMTLTPDEVKSL 306

Query: 941  --DFIFQHLQILRVLHCQN---LLSLLPSSSVSFRN-LTRLETFACKKLMNLLTSSKAKS 994
               ++    Q L           LS++  S           +   C KL  ++ SS    
Sbjct: 307  LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS-LNV 365

Query: 995  LE------RLVSLRIF----GCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLT 1044
            LE          L +F      P +   +I  +   ++    +V +KL   SL +     
Sbjct: 366  LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD--VMVVVNKLHKYSLVEKQPK- 422

Query: 1045 SFSSGNYAFKLPSLQ 1059
                      +PS+ 
Sbjct: 423  -----ESTISIPSIY 432

>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 =  117 bits (295), Expect = 2e-27
 Identities = 49/327 (14%), Positives = 105/327 (32%), Gaps = 60/327 (18%)

Query: 181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLF--DRVVFSEVSQTPDIKKIQG--EIAEK 236
               + ++GM G GK+ L  E  R     +      V +  V +      +     +  +
Sbjct: 146 EPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTR 205

Query: 237 LGLELSDEAEYRR-----ASRLYERLKN-ENKILVILDNIWKYLDLDTIGIPFG------ 284
           L  + S              RL   +     + L+ILD++W    L              
Sbjct: 206 LDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD--SQCQILLT 263

Query: 285 ----------NDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLP 334
                        +    +  +L +E+   +  +       +      A ++ + C G P
Sbjct: 264 TRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKADL--PEQAHSIIKECKGSP 321

Query: 335 IALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSSI----ELSFKYLKGEQL 390
           + ++ +   LR+   + W+  L++LQ           +  Y ++     +S + L+ E +
Sbjct: 322 LVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLR-EDI 379

Query: 391 KKIFLLCSLIGNSF---YLID---LLRYSMGLGLFHGVNKMEDARNKLYALVHELRDCCL 444
           K  +   S+          +    L              ++ED       ++ E  +  L
Sbjct: 380 KDYYTDLSI----LQKDVKVPTKVLCILWDMET-----EEVED-------ILQEFVNKSL 423

Query: 445 LL--EGDRNETFYMHDVVCDVAVSIAC 469
           L      ++  +Y+HD+  D      C
Sbjct: 424 LFCDRNGKSFRYYLHDLQVDFLTEKNC 450

>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 = 84.0 bits (208), Expect = 9e-17
 Identities = 92/523 (17%), Positives = 168/523 (32%), Gaps = 83/523 (15%)

Query: 514  PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDL 571
            P+L+ L +   +I      I D  ++ +  L  + LT   + SL       L+ L+ L  
Sbjct: 52   PELQVLDLSRCEIQ----TIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA 107

Query: 572  TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEI 631
             +   L  +    +     L+EL +            N  +S    +   +L  L  L  
Sbjct: 108  VET-NLASLENFPIGHLKTLKELNVA----------HNLIQSFKLPEYFSNLTNLEHL-- 154

Query: 632  DVEDDSI--LPDGLFT--KKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMA 687
            D+  + I  +         ++   ++S+ D S +    I    F+   +  + +     +
Sbjct: 155  DLSSNKIQSIYCTDLRVLHQMPLLNLSL-DLSLNPMNFIQPGAFKEIRLHKLTLRNNFDS 213

Query: 688  LELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRL 747
            L +    +  +        ++  F++   L           F  S ++ L  L   E RL
Sbjct: 214  LNVMKTCIQGLAGLEVHRLVLGEFRNEGNL---------EKFDKSALEGLCNLTIEEFRL 264

Query: 748  CKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALK-------- 799
                   +     D +  +     V++  L  +  +  +    +   W  L+        
Sbjct: 265  AY-----LDYYLDDIIDLFNCLTNVSSFSLVSV-TIERVKDFSYNFGWQHLELVNCKFGQ 318

Query: 800  --NLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFP 857
               L   +  ++T + N   +          FS    LP+LE L LS   ++        
Sbjct: 319  FPTLKLKSLKRLTFTSNKGGN---------AFSEVD-LPSLEFLDLSRNGLSFKGCCSQS 368

Query: 858  QHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSD-----CSYEVVFSNEGYLET-- 910
                 SLK L +  + +     + L     LE L          S   VF +   L    
Sbjct: 369  DFGTTSLKYLDLSFNGVITMSSNFLG-LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLD 427

Query: 911  -HARKLALIKRLNLTRLNHLQQLW----KHDSKELDFIFQHLQILRVLH-CQNLLSLLPS 964
                   +        L+ L+ L           L  IF  L+ L  L   Q  L  L  
Sbjct: 428  ISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSP 487

Query: 965  SSVSFRNLTRLETFACKKL---MNLLTSSKAKSLERLVSLRIF 1004
            +  +F +L+ L+      L    N L S      +RL SL+  
Sbjct: 488  T--AFNSLSSLQV-----LNMASNQLKSVPDGIFDRLTSLQKI 523

>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 = 60.9 bits (148), Expect = 1e-09
 Identities = 77/473 (16%), Positives = 141/473 (29%), Gaps = 104/473 (21%)

Query: 513 CPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVV----DLTRVRLFSLPSSIGQLTKLR 567
              LE L +   KI     +I     + + ++ ++    DL+   +  +     +  +L 
Sbjct: 148 LTNLEHLDLSSNKIQ----SIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLH 203

Query: 568 MLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLT 627
            L L +      ++   +     LE   +          +            L  L  LT
Sbjct: 204 KLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEF-----RNEGNLEKFDKSALEGLCNLT 258

Query: 628 TLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMA 687
             E  +       D +                F+    + +    +  I+ +  F     
Sbjct: 259 IEEFRLAYLDYYLDDII-------------DLFNCLTNVSSFSLVSVTIERVKDFSYNFG 305

Query: 688 LE-LNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIR 746
            + L  +N      + Q P +    +SL RL     +K    FS   + SLE L      
Sbjct: 306 WQHLELVNC----KFGQFPTL--KLKSLKRLTF-TSNKGGNAFSEVDLPSLEFL------ 352

Query: 747 LCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNC 806
                   +S N          F    +    G   L+ L                    
Sbjct: 353 -------DLSRNG-------LSFKGCCSQSDFGTTSLKYLD------------------- 379

Query: 807 DKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQ 866
               LS N       + +     +F   L  LE L     ++  + +      L  +L  
Sbjct: 380 ----LSFNGVIT---MSS-----NFLG-LEQLEHLDFQHSNLKQMSEFSVFLSL-RNLIY 425

Query: 867 LRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRL 926
           L +           +     +LE L ++  S++  F  + +      +L  +  L+L++ 
Sbjct: 426 LDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIF-----TELRNLTFLDLSQ- 479

Query: 927 NHLQQLWKHDSKELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLETF 978
             L+QL           F  L  L+VL+   N L  +P     F  LT L+  
Sbjct: 480 CQLEQLSPT-------AFNSLSSLQVLNMASNQLKSVPDG--IFDRLTSLQKI 523

>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 = 50.1 bits (120), Expect = 3e-06
 Identities = 70/441 (15%), Positives = 135/441 (30%), Gaps = 124/441 (28%)

Query: 533 PDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLT---DCLQLKFIVPNILSSF 588
              +F  +  L  +DL+  ++ S+  + +  L ++ +L+L+       + FI P      
Sbjct: 141 LPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEI 200

Query: 589 TRLEELYMGSCSIKWEVRKG------NSERSNASLDELMHLQRLTTLEIDVEDDSILPDG 642
            RL +L + +      V K         E     L E  +   L   +          +G
Sbjct: 201 -RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSA------LEG 253

Query: 643 LFTKKLERFDISIGD-------GSFDSTKIIGNDWFQTFNIQSIYIFCIVMALE-LNAIN 694
           L    +E F ++  D         F+    + +    +  I+ +  F      + L  +N
Sbjct: 254 LCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVN 313

Query: 695 VDEIWHYNQLPAMVPCFQSLTRLIV-----------WGCDKLKYI-----------FSAS 732
                 + Q P +    +SL RL                  L+++             + 
Sbjct: 314 C----KFGQFPTL--KLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQ 367

Query: 733 TIQSLEQLQHL------------EIRLCKSLQEI-ISENRTDQVTAYFVFPRVTTLK--- 776
           +      L++L                 + L+ +    +   Q++ + VF  +  L    
Sbjct: 368 SDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLD 427

Query: 777 -------------LDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVP 823
                         +GL  L  L                        ++ N     F   
Sbjct: 428 ISHTHTRVAFNGIFNGLSSLEVLK-----------------------MAGN----SFQEN 460

Query: 824 AQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRV---GDDDLACFPLD 880
               +F+    L NL  L LS   +  +         F SL  L+V     + L   P  
Sbjct: 461 FLPDIFTE---LRNLTFLDLSQCQLEQL-----SPTAFNSLSSLQVLNMASNQLKSVPDG 512

Query: 881 LLERFHNLEFLYLS----DCS 897
           + +R  +L+ ++L     DCS
Sbjct: 513 IFDRLTSLQKIWLHTNPWDCS 533

>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 = 47.4 bits (113), Expect = 2e-05
 Identities = 25/132 (18%), Positives = 47/132 (35%), Gaps = 13/132 (9%)

Query: 497 ISLLNSSIHEVSLEFECPQLEFLHI-DPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS 555
           ++  ++       E + P LEFL +    ++F           G   L+ +DL+   + +
Sbjct: 330 LTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSF--KGCCSQSDFGTTSLKYLDLSFNGVIT 387

Query: 556 LPSSIGQLTKLRMLDLTDCLQLKFIVP-NILSSFTRLEELYMGSCSIKWEVRKGNSERSN 614
           + S+   L +L  LD      LK +   ++  S   L  L +                 N
Sbjct: 388 MSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTHT--------RVAFN 438

Query: 615 ASLDELMHLQRL 626
              + L  L+ L
Sbjct: 439 GIFNGLSSLEVL 450

>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 = 47.4 bits (113), Expect = 2e-05
 Identities = 45/230 (19%), Positives = 70/230 (30%), Gaps = 47/230 (20%)

Query: 843  LSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVF 902
                +   I     P +L  S K L +  + L          F  L+ L LS C  +   
Sbjct: 14   CMELNFYKI-----PDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQT-- 66

Query: 903  SNEGYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH-CQNLLS 960
                 +E  A + L+ +  L LT  N +Q L           F  L  L+ L   +  L+
Sbjct: 67   -----IEDGAYQSLSHLSTLILTG-NPIQSL-------ALGAFSGLSSLQKLVAVETNLA 113

Query: 961  LLPSSSVSFRNLTRLET--FACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDED 1018
             L +      +L  L+    A   + +        +L  L  L +      +   I   D
Sbjct: 114  SLENF--PIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS---IYCTD 168

Query: 1019 ETANLKEEIVFSKLSALSLFDLD------SLTSFSSGNYAFKLPSLQDLW 1062
                         L  + L +L        +     G  AFK   L  L 
Sbjct: 169  ----------LRVLHQMPLLNLSLDLSLNPMNFIQPG--AFKEIRLHKLT 206

>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 = 43.5 bits (103), Expect = 3e-04
 Identities = 41/239 (17%), Positives = 77/239 (32%), Gaps = 44/239 (18%)

Query: 834  ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYL 893
            +  + + L LS   +  +    F    F  L+ L +   ++        +   +L  L L
Sbjct: 26   LPFSTKNLDLSFNPLRHLGSYSFFS--FPELQVLDLSRCEIQTIEDGAYQSLSHLSTLIL 83

Query: 894  SDCSYEVVFSNE-GYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILR 951
            +         N    L   A   L+ +++L      +L  L        +F   HL+ L+
Sbjct: 84   T--------GNPIQSLALGAFSGLSSLQKLVAVE-TNLASL-------ENFPIGHLKTLK 127

Query: 952  VLH-CQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLR-------- 1002
             L+   NL+         F NLT LE        N + S     L  L  +         
Sbjct: 128  ELNVAHNLIQSFKLPEY-FSNLTNLEHLDLSS--NKIQSIYCTDLRVLHQMPLLNLSLDL 184

Query: 1003 -----------IFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGN 1050
                        F    + ++ + +  ++ N+ +      L+ L +  L      + GN
Sbjct: 185  SLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKT-CIQGLAGLEVHRLVLGEFRNEGN 242

>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 = 82.7 bits (205), Expect = 3e-16
 Identities = 94/603 (15%), Positives = 173/603 (28%), Gaps = 139/603 (23%)

Query: 513  CPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLD 570
              QL  L +    I+     +     + +  L+V++L    L  L   +    T L  L 
Sbjct: 48   YSQLTSLDVGFNTIS----KLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELH 103

Query: 571  LTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLE 630
            L     ++ I  N       L  L +    +           S+  L   + L+ L  L 
Sbjct: 104  LMSN-SIQKIKNNPFVKQKNLITLDLSHNGL-----------SSTKLGTQVQLENLQEL- 150

Query: 631  IDVEDDSI--LPDGLFT----KKLERFDIS------IGDGSFDSTKIIGNDWFQTFNIQS 678
              + ++ I  L            L++ ++S         G F +             + +
Sbjct: 151  -LLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIG-----RLFGLFLNN 204

Query: 679  IYIFCIVMA---LELNAINVDEIW-HYNQLPAMVP------CFQSLTRLIVWGCDKLKYI 728
            + +   +     LEL   ++  +    +QL            + +LT L +     L  +
Sbjct: 205  VQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYN-NLNVV 263

Query: 729  FSASTIQSLEQLQHL-------------EIRLCKSLQEI-ISENRTDQVTAYFVFPRVTT 774
                +   L QL++               +    +++ + +  + T Q  +    P++  
Sbjct: 264  -GNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDD 322

Query: 775  LKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKI 834
                 L  L  L                        +  N                F   
Sbjct: 323  FSFQWLKCLEHLN-----------------------MEDN----DI---PGIKSNMFTG- 351

Query: 835  LPNLEGLALSG--KDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLY 892
            L NL+ L+LS     +  +  + F       L  L +  + ++    D      +LE L 
Sbjct: 352  LINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLD 411

Query: 893  LSDCSYEVVFSNEGYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILR 951
            L              L     R L  I  + L+  N   QL ++        F  +  L+
Sbjct: 412  LGLN------EIGQELTGQEWRGLENIFEIYLSY-NKYLQLTRN-------SFALVPSLQ 457

Query: 952  VLH-CQNLLSLLPSSSVSFRNLTRLETFACKKLM---NLLTSSKAKSLERLVSLRIFGCP 1007
             L   +  L  + SS   F+ L  L       L    N + +     LE L  L      
Sbjct: 458  RLMLRRVALKNVDSSPSPFQPLRNLTI-----LDLSNNNIANINDDMLEGLEKLE----- 507

Query: 1008 AMTEVIISD------EDETANLKEEIVFSKLSALSLFDLDS--LTSFSSGNYAFK-LPSL 1058
                + +                       LS L + +L+S            FK L  L
Sbjct: 508  ---ILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVE--VFKDLFEL 562

Query: 1059 QDL 1061
            + +
Sbjct: 563  KII 565

>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 = 66.9 bits (164), Expect = 2e-11
 Identities = 81/491 (16%), Positives = 163/491 (33%), Gaps = 108/491 (21%)

Query: 532 IPDNF-FKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSF- 588
             +         L+ ++L+  ++    P     + +L  L L +  QL   +   L    
Sbjct: 161 KSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNV-QLGPSLTEKLCLEL 219

Query: 589 --TRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTK 646
             T +  L + +  +           ++ +    +    LT L++   + +++ +  F  
Sbjct: 220 ANTSIRNLSLSNSQL---------STTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAW 270

Query: 647 --KLERFDIS---IGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHY 701
             +LE F +    I         +  +     FN++          L L      +    
Sbjct: 271 LPQLEYFFLEYNNI-------QHLFSHSLHGLFNVRY---------LNLKRSFTKQSISL 314

Query: 702 NQLPAMVP----CFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCK-SLQEIIS 756
             LP +        + L  L +     +  I  ++    L  L++L +     SL+ + +
Sbjct: 315 ASLPKIDDFSFQWLKCLEHLNMEDN-DIPGI-KSNMFTGLINLKYLSLSNSFTSLRTLTN 372

Query: 757 ENRTDQVTAYFVFPRVTTLK----------------LDGLPELRCLY-------PGMHTS 793
           E         FV    + L                    L  L  L          +   
Sbjct: 373 ET--------FVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQ 424

Query: 794 EWPALKNLVACNCDKITLSQN----DENDQFGVPAQQPLFSFKKILPNLEGLALSGKDIT 849
           EW  L+N+      +I LS N       + F             ++P+L+ L L    + 
Sbjct: 425 EWRGLENIF-----EIYLSYNKYLQLTRNSFA------------LVPSLQRLMLRRVALK 467

Query: 850 MILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSN--EGY 907
            +     P     +L  L + ++++A    D+LE    LE L L   +   ++ +   G 
Sbjct: 468 NVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGG 527

Query: 908 LETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQ-NLLSLLPSSS 966
                + L+ +  LNL   N   ++          +F+ L  L+++    N L+ LP+S 
Sbjct: 528 PIYFLKGLSHLHILNLES-NGFDEIPVE-------VFKDLFELKIIDLGLNNLNTLPAS- 578

Query: 967 VSFRNLTRLET 977
             F N   L++
Sbjct: 579 -VFNNQVSLKS 588

>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 = 65.8 bits (161), Expect = 5e-11
 Identities = 90/562 (16%), Positives = 174/562 (30%), Gaps = 125/562 (22%)

Query: 532  IPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTR 590
            +PD+    +  L   +LT  +L  L  ++  + ++L  LD+     +  + P +      
Sbjct: 19   VPDDLPTNITVL---NLTHNQLRRLPAANFTRYSQLTSLDVGFN-TISKLEPELCQKLPM 74

Query: 591  LEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI--LPDGLFT--K 646
            L+ L +    +        S+ S+ +     +L  L      +  +SI  + +  F   K
Sbjct: 75   LKVLNLQHNEL--------SQLSDKTFAFCTNLTEL-----HLMSNSIQKIKNNPFVKQK 121

Query: 647  KLERFDIS------IGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWH 700
             L   D+S         G+    +          N+Q + +                   
Sbjct: 122  NLITLDLSHNGLSSTKLGTQVQLE----------NLQELLL------------------S 153

Query: 701  YNQLPAMVP------CFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEI 754
             N++ A+           SL +L +    ++K   S     ++ +L  L +   +     
Sbjct: 154  NNKIQALKSEELDIFANSSLKKLELSSN-QIKEF-SPGCFHAIGRLFGLFLNNVQ----- 206

Query: 755  ISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQN 814
            +  + T+++        +  L L    +L                 L   N   + LS N
Sbjct: 207  LGPSLTEKLCLELANTSIRNLSLSNS-QLSTTSNT-------TFLGLKWTNLTMLDLSYN 258

Query: 815  DENDQF-GVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQ-------HLFGSLKQ 866
                    V       SF   LP LE   L   +I  +              +L  S  +
Sbjct: 259  ----NLNVVGND----SFAW-LPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTK 309

Query: 867  LRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRL 926
              +    L        +    LE L + D     + SN          L  +K L+L+  
Sbjct: 310  QSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMF------TGLINLKYLSLSN- 362

Query: 927  NHLQQLWKHDSKELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLET--FACKKL 983
            +              F+      L +L+  +N +S + S   +F  L  LE       ++
Sbjct: 363  SFTSLR---TLTNETFVSLAHSPLHILNLTKNKISKIESD--AFSWLGHLEVLDLGLNEI 417

Query: 984  MNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDS- 1042
               LT  + + LE +  + +                 +       F+ + +L    L   
Sbjct: 418  GQELTGQEWRGLENIFEIYLSYNK------YLQLTRNS-------FALVPSLQRLMLRRV 464

Query: 1043 -LTSFSSGNYAFK-LPSLQDLW 1062
             L +  S    F+ L +L  L 
Sbjct: 465  ALKNVDSSPSPFQPLRNLTILD 486

>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 = 65.4 bits (160), Expect = 8e-11
 Identities = 77/447 (17%), Positives = 143/447 (31%), Gaps = 107/447 (23%)

Query: 543 LRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIK 602
             V D + ++L  +P  +   T + +L+LT   QL+ +     + +++L  L +G  +I 
Sbjct: 6   HEVADCSHLKLTQVPDDL--PTNITVLNLTHN-QLRRLPAANFTRYSQLTSLDVGFNTIS 62

Query: 603 WEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI--LPDGLFT--KKLERFDIS---- 654
                          +    L  L  L  +++ + +  L D  F     L    +     
Sbjct: 63  KLEP-----------ELCQKLPMLKVL--NLQHNELSQLSDKTFAFCTNLTELHLMSNSI 109

Query: 655 --IGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQ 712
             I +  F   K          N+ ++ +                   +N          
Sbjct: 110 QKIKNNPFVKQK----------NLITLDL------------------SHNG--------- 132

Query: 713 SLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRV 772
            L+                 T   LE LQ L +   K +Q + SE         F    +
Sbjct: 133 -LSSTK------------LGTQVQLENLQELLLSNNK-IQALKSE-----ELDIFANSSL 173

Query: 773 TTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFK 832
             L+L     ++   PG           +       + L+      Q G    + L    
Sbjct: 174 KKLELSSNQ-IKEFSPG-------CFHAIG--RLFGLFLNNV----QLGPSLTEKLCLEL 219

Query: 833 KILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLY 892
               ++  L+LS   ++      F    + +L  L +  ++L     D       LE+ +
Sbjct: 220 A-NTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFF 278

Query: 893 LSDCSYEVVFSNEGYLETHARKLALIKRLNLTR-LNHLQQLWKHDSKELDFIFQHLQILR 951
           L   + + +FS+          L  ++ LNL R             K  DF FQ L+ L 
Sbjct: 279 LEYNNIQHLFSH------SLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLE 332

Query: 952 VLHCQ-NLLSLLPSSSVSFRNLTRLET 977
            L+ + N +  + S+   F  L  L+ 
Sbjct: 333 HLNMEDNDIPGIKSN--MFTGLINLKY 357

>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 = 60.4 bits (147), Expect = 3e-09
 Identities = 71/429 (16%), Positives = 135/429 (31%), Gaps = 72/429 (16%)

Query: 498 SLLNSSIHEVSLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMK--KLRVVDLTRVRLF 554
            L  S   ++ LE     +  L +   +++       +  F G+K   L ++DL+   L 
Sbjct: 206 QLGPSLTEKLCLELANTSIRNLSLSNSQLS----TTSNTTFLGLKWTNLTMLDLSYNNLN 261

Query: 555 SL-PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERS 613
            +   S   L +L    L     ++ +  + L     +  L +     K  +   +  + 
Sbjct: 262 VVGNDSFAWLPQLEYFFLEYN-NIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKI 320

Query: 614 NASLDELMHLQRLTTLEIDVEDDSILPDGLFTK--KLERFDISIGDGSFDSTKIIGNDWF 671
           +        L+ L  L ++  D   +   +FT    L+   +S    SF S + + N+ F
Sbjct: 321 DDF--SFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLS---NSFTSLRTLTNETF 375

Query: 672 QTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVP-CFQSLTRLIVWGCD----KLK 726
            +     ++I      L L           N++  +    F  L  L V   D    ++ 
Sbjct: 376 VSLAHSPLHI------LNLT---------KNKISKIESDAFSWLGHLEV--LDLGLNEIG 418

Query: 727 YIFSASTIQSLEQLQHL-------------EIRLCKSLQEI-ISENRTDQVTAYFVFPRV 772
              +    + LE +  +                L  SLQ + +       V +       
Sbjct: 419 QELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSP--- 475

Query: 773 TTLKLDGLPELRCLY------PGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQ 826
                  L  L  L         ++      L+ L       + L  N+    +      
Sbjct: 476 ----FQPLRNLTILDLSNNNIANINDDMLEGLEKLE-----ILDLQHNNLARLWKHANPG 526

Query: 827 PLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFH 886
               F K L +L  L L       I  + F       LK + +G ++L   P  +     
Sbjct: 527 GPIYFLKGLSHLHILNLESNGFDEIPVEVFKD--LFELKIIDLGLNNLNTLPASVFNNQV 584

Query: 887 NLEFLYLSD 895
           +L+ L L  
Sbjct: 585 SLKSLNLQK 593

>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 = 50.4 bits (121), Expect = 3e-06
 Identities = 39/172 (22%), Positives = 61/172 (35%), Gaps = 32/172 (18%)

Query: 837  NLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDC 896
            + E    S   +T       P  L  ++  L +  + L   P     R+  L  L +   
Sbjct: 5    SHEVADCSHLKLT-----QVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFN 59

Query: 897  SYEVVFSNEGYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH- 954
            +          LE    +KL ++K LNL   N L QL        D  F     L  LH 
Sbjct: 60   TIS-------KLEPELCQKLPMLKVLNLQH-NELSQL-------SDKTFAFCTNLTELHL 104

Query: 955  CQNLLSLLPSSSVSFRNLTRLETFACKKL---MNLLTSSKAKSLERLVSLRI 1003
              N +  + ++   F     L T     L    N L+S+K  +  +L +L+ 
Sbjct: 105  MSNSIQKIKNN--PFVKQKNLIT-----LDLSHNGLSSTKLGTQVQLENLQE 149

>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 = 47.7 bits (114), Expect = 2e-05
 Identities = 63/399 (15%), Positives = 127/399 (31%), Gaps = 84/399 (21%)

Query: 513 CPQLEFLHIDPKITFAEL------NIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTK 565
              + +L++    T   +       I D  F+ +K L  +++    +  +  +    L  
Sbjct: 295 LFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLIN 354

Query: 566 LRMLDLTD-CLQLKFIVPNILSSF--TRLEELYMGSCSIKWEVRKGNSERSNASLDELMH 622
           L+ L L++    L+ +      S   + L  L +    I        S+  + +   L H
Sbjct: 355 LKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKI--------SKIESDAFSWLGH 406

Query: 623 LQRLTTLEIDVEDDSI---LPDGLFT--KKLERFDISIGDGSFDSTKIIGNDWFQTFNIQ 677
           L+ L     D+  + I   L    +   + +    +S             N         
Sbjct: 407 LEVL-----DLGLNEIGQELTGQEWRGLENIFEIYLS------------YN------KYL 443

Query: 678 SIYIFCIVMALELNAINVDE--IWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQ 735
            +      +   L  + +    + + +  P+     ++LT L +     +  I +   ++
Sbjct: 444 QLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNN-NIANI-NDDMLE 501

Query: 736 SLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLY------PG 789
            LE+L+ L+++    L  +               P      L GL  L  L         
Sbjct: 502 GLEKLEILDLQHNN-LARLWKHA----------NPGGPIYFLKGLSHLHILNLESNGFDE 550

Query: 790 MHTSEWPALKNLVACNCDKITLSQNDENDQF-GVPAQQPLFSFKKILPNLEGLALSGKDI 848
           +    +  L  L       I L  N        +PA      F     +L+ L L    I
Sbjct: 551 IPVEVFKDLFELK-----IIDLGLN----NLNTLPAS----VFNN-QVSLKSLNLQKNLI 596

Query: 849 TMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHN 887
           T + +  F    F +L +L +  +   C   + +  F N
Sbjct: 597 TSVEKKVF-GPAFRNLTELDMRFNPFDCTC-ESIAWFVN 633

>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 = 81.6 bits (202), Expect = 6e-16
 Identities = 84/507 (16%), Positives = 163/507 (32%), Gaps = 83/507 (16%)

Query: 531  NIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
            +     F G+  L  +     +L SL S  IGQL  L+ L++         +P   S+ T
Sbjct: 94   SFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLT 153

Query: 590  RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI--LPDGLFTK- 646
             L  + +    I           +   L  L    ++  L +D+  + I  + D  F   
Sbjct: 154  NLVHVDLSYNYI--------QTITVNDLQFLRENPQV-NLSLDMSLNPIDFIQDQAFQGI 204

Query: 647  KLERFDIS-------IGDGSFDS------TKIIGNDWFQTFNIQSI--YIFCIVMALELN 691
            KL    +        I      +       ++I  ++    N++     I   +  + ++
Sbjct: 205  KLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTID 264

Query: 692  AINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLE-------QLQHLE 744
               +     ++       C  +++ + + G   +KY+         +       QL+   
Sbjct: 265  EFRLTYTNDFSDDIVKFHCLANVSAMSLAGV-SIKYLEDVPKHFKWQSLSIIRCQLKQFP 323

Query: 745  IRLCKSLQEI-ISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVA 803
                  L+ + ++ N+          P ++ L L            +  S   +  +L  
Sbjct: 324  TLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNA--------LSFSGCCSYSDLGT 375

Query: 804  CNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGS 863
             +   + LS N               +F   L  L+ L      +  + +      L   
Sbjct: 376  NSLRHLDLSFNGAIIMSA--------NFMG-LEELQHLDFQHSTLKRVTEFSAFLSL-EK 425

Query: 864  LKQLRVGDDDLACFPLDLLERFHNLEFLYLS-----DCSYEVVFSNEGYLETHARKLALI 918
            L  L +   +       +     +L  L ++     D +   VF+N   L          
Sbjct: 426  LLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTF-------- 477

Query: 919  KRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLET 977
              L+L++   L+Q+          +F  L  L++L+   N L  L SS   +  L  L T
Sbjct: 478  --LDLSK-CQLEQISWG-------VFDTLHRLQLLNMSHNNLLFLDSS--HYNQLYSLST 525

Query: 978  FACKKLMNLLTSSKAKSLERLVSLRIF 1004
              C    N + +SK        SL  F
Sbjct: 526  LDCSF--NRIETSKGILQHFPKSLAFF 550

>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 = 59.7 bits (145), Expect = 4e-09
 Identities = 95/564 (16%), Positives = 171/564 (30%), Gaps = 123/564 (21%)

Query: 545  VVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWE 604
                   +L  +P  I   +  + +DL+    LK +     S+F+ L+ L +  C I+  
Sbjct: 15   TYQCMDQKLSKVPDDIP--SSTKNIDLSFN-PLKILKSYSFSNFSELQWLDLSRCEIETI 71

Query: 605  VRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFT--KKLERFDISIGDGSFDS 662
                              L  L+ L +          G F+    LE             
Sbjct: 72   ED-----------KAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAV-------- 112

Query: 663  TKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQL-----PAMVPCFQSLTRL 717
                         + S+  F I   + L  +NV     +N +     PA      +L  +
Sbjct: 113  ----ET------KLASLESFPIGQLITLKKLNV----AHNFIHSCKLPAYFSNLTNLVHV 158

Query: 718  IVWGCDKLKYIFSASTIQSLEQLQHLEIRL----------------CKSLQEI-ISENRT 760
             +     ++ I + + +Q L +   + + L                   L E+ +  N  
Sbjct: 159  DLSYN-YIQTI-TVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFN 216

Query: 761  DQVTAYFVFPRVTTLKLDGLPELRCL-YPGMHTSEWPALKNLVACNCDKITLSQNDENDQ 819
                       +  L +  L          +   E   ++ L     D+  L+  ++   
Sbjct: 217  SSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDF-- 274

Query: 820  FGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPL 879
                    +  F   L N+  ++L+G  I  +             + L +    L  FP 
Sbjct: 275  -----SDDIVKFHC-LANVSAMSLAGVSIKYLEDVPK----HFKWQSLSIIRCQLKQFPT 324

Query: 880  DLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKE 939
              L     L+ L L+     + F            L  +  L+L+R N L          
Sbjct: 325  LDL---PFLKSLTLTMNKGSISFKKVA--------LPSLSYLDLSR-NALSFS-----GC 367

Query: 940  LDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLET--FACKKLMNLLTSSKAKSLE 996
              +       LR L    N   ++ +   +F  L  L+   F    L  +   S   SLE
Sbjct: 368  CSYSDLGTNSLRHLDLSFNGAIIMSA---NFMGLEELQHLDFQHSTLKRVTEFSAFLSLE 424

Query: 997  RLVSLRI-------------FGCPAMTEVIISDEDETANLKEEI---VFSKLSALSLFDL 1040
            +L+ L I              G  ++  + ++      + K+     VF+  + L+  DL
Sbjct: 425  KLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAG----NSFKDNTLSNVFANTTNLTFLDL 480

Query: 1041 DS--LTSFSSGNYAFK-LPSLQDL 1061
                L   S G   F  L  LQ L
Sbjct: 481  SKCQLEQISWG--VFDTLHRLQLL 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 = 48.1 bits (115), Expect = 2e-05
 Identities = 25/133 (18%), Positives = 45/133 (33%), Gaps = 14/133 (10%)

Query: 497 ISLLNSSIHEVSLEFE-CPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLF 554
           + L  +    +S  F    +L+ L      +         + F  ++KL  +D++     
Sbjct: 381 LDLSFNGAIIMSANFMGLEELQHLDFQHSTLKR---VTEFSAFLSLEKLLYLDISYTNTK 437

Query: 555 SLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERS 613
                I   LT L  L +         + N+ ++ T L  L +  C ++          S
Sbjct: 438 IDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQI--------S 489

Query: 614 NASLDELMHLQRL 626
               D L  LQ L
Sbjct: 490 WGVFDTLHRLQLL 502

>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 = 81.8 bits (202), Expect = 8e-16
 Identities = 70/398 (17%), Positives = 136/398 (34%), Gaps = 55/398 (13%)

Query: 163 FESRVSTLKSIQNALTDVNVS--IIGVYGMGGIGKTTLVKEFARQARE-KKLF-DRVVFS 218
           F +R   + +IQ  L  +N     + +YGM G GK+ L  E  R     +  F   V + 
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 185

Query: 219 EVSQT--PDIKKIQGEIAEKLGLE------LSDEAEYRRASRLYERLKNENKILVILDNI 270
            + +     +      +  +L  E      L    E  +       L+   + L+ILD++
Sbjct: 186 SIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV 245

Query: 271 WKYLDLDTIGI-----------PFGNDHEGYNFLI---GNLSEEEAWRLFKIMNGDDVEN 316
           W    L                   +   G   ++     L  E+   +  +      E 
Sbjct: 246 WDPWVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKE- 304

Query: 317 CKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYS 376
                 A ++ + C G P+ ++ +   LR+   + W   LR+LQ           +  Y 
Sbjct: 305 -DLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRIRKSSSYDYE 362

Query: 377 SI----ELSFKYLKGEQLKKIFLLCSLIGNSFYLIDLLRYSMGLGLFHGVNKMEDARNKL 432
           ++     +S + L+ E +K  +   S++     +   +     L +   +   E+  + L
Sbjct: 363 ALDEAMSISVEMLR-EDIKDYYTDLSILQKDVKVPTKV-----LCVLWDLET-EEVEDIL 415

Query: 433 YALVHELRDCCLLLEGDRNET---FYMHDVVCDVAVSIAC---RDQHVFLV---RNDAVW 483
              V++      LL  +RN     +Y+HD+  D          +D H  +V   +     
Sbjct: 416 QEFVNK-----SLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQLQDLHRKMVTQFQRYYQP 470

Query: 484 EWPDGDALKKCYAISLLNSSIHEVSLEFE-CPQLEFLH 520
                D     Y  + L   +   ++  E C  +  L 
Sbjct: 471 HTLSPDQEDCMYWYNFLAYHMASANMHKELCALMFSLD 508

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 80.7 bits (199), Expect = 1e-15
 Identities = 75/544 (13%), Positives = 158/544 (29%), Gaps = 88/544 (16%)

Query: 531  NIPDNFFKGMKKLRVVDLTRVRL-FSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
            + P        ++  + L        +P +IGQLT+L++L                    
Sbjct: 313  DQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTH-SETVSGRLFGDEEL 371

Query: 590  RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLE 649
              +        I+              LD    L     L+  +  +  +       ++ 
Sbjct: 372  TPDMSEERKHRIR-------MHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRIS 424

Query: 650  RFDISIGDGSFDSTKI---IGN-DWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLP 705
              D  IG+ +   T I   I      Q     +       +A++    N D    Y    
Sbjct: 425  LKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEE 484

Query: 706  AMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTA 765
                  + LT + ++ C  +  +     +  L +LQ L           I+ NR      
Sbjct: 485  LSWSNLKDLTDVELYNCPNMTQL--PDFLYDLPELQSLN----------IACNRGISAAQ 532

Query: 766  YFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQF-GVPA 824
                        D  P+++  Y                       +  N         PA
Sbjct: 533  LKADWTRLADDEDTGPKIQIFY-----------------------MGYN----NLEEFPA 565

Query: 825  QQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLER 884
               L      +  L  L      +  +  + F       L  L++  + +   P D    
Sbjct: 566  SASLQK----MVKLGLLDCVHNKVRHL--EAFGT--NVKLTDLKLDYNQIEEIPEDFCAF 617

Query: 885  FHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELD-FI 943
               +E L  S    + + +       +A+ + ++  ++ +  N +    ++ S  +D + 
Sbjct: 618  TDQVEGLGFSHNKLKYIPN-----IFNAKSVYVMGSVDFSY-NKIGSEGRNISCSMDDYK 671

Query: 944  FQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRI 1003
              +   + + +  N +   P+    F   + + T     L N L +S  ++  +      
Sbjct: 672  GINASTVTLSY--NEIQKFPTE--LFATGSPISTI---ILSNNLMTSIPENSLKPKDGNY 724

Query: 1004 FGCPAMTEVIISDEDETAN----LKEEIVFSKLSALSLFDLDS--LTSFSSGNYAFKLPS 1057
                 +T + +       N    L ++   + L  LS  D+     +SF +         
Sbjct: 725  KNTYLLTTIDLRF-----NKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQ--PLNSSQ 777

Query: 1058 LQDL 1061
            L+  
Sbjct: 778  LKAF 781

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 66.4 bits (162), Expect = 4e-11
 Identities = 68/541 (12%), Positives = 163/541 (30%), Gaps = 139/541 (25%)

Query: 497  ISLLNSSIHEVSLEFECPQLEFLHIDPKITFAEL------------NIPDNFFKGMKKLR 544
              +     H + + ++     FL  D ++  ++L             I  +    +K  +
Sbjct: 373  PDMSEERKHRIRMHYK---KMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQ 429

Query: 545  VVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWE 604
            + +LT  R+  +  +I +LTKL+++   +     +    +       +            
Sbjct: 430  IGNLTN-RITFISKAIQRLTKLQIIYFANS-PFTYDNIAVDWEDANSDYAK--------- 478

Query: 605  VRKGNSERSNASLDELMHLQRLTTLEI-DVEDDSILPDGLFT-KKLERFDISIGDGSFDS 662
                   +         +L+ LT +E+ +  + + LPD L+   +L+  +I+        
Sbjct: 479  -------QYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIA-------- 523

Query: 663  TKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGC 722
                 N         S                      + +L         +    +   
Sbjct: 524  ----CN------RGISA---------------AQLKADWTRLADDEDTGPKIQIFYMGYN 558

Query: 723  DKLKYIFSASTIQSLEQLQHL-----------EIRLCKSLQEI-ISENRTDQVTAYFVFP 770
              L+   +++++Q + +L  L                  L ++ +  N+           
Sbjct: 559  -NLEEFPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQ----------- 606

Query: 771  RVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFS 830
                  ++ +PE  C       +    ++ L   +  K+            +P    +F+
Sbjct: 607  ------IEEIPEDFC-------AFTDQVEGLGFSHN-KLK----------YIP---NIFN 639

Query: 831  FKKILPNLEGLALSGKDITMILQDDF---PQHLFGSLKQLRVGDDDLACFPLDLLERFHN 887
             K  +  +  +  S   I    ++       +   +   + +  +++  FP +L      
Sbjct: 640  AKS-VYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSP 698

Query: 888  LEFLYLSDCSYEVVFSNEGYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQH 946
            +  + LS+     +  N    +    +   L+  ++L   N L  L        DF    
Sbjct: 699  ISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRF-NKLTSL------SDDFRATT 751

Query: 947  LQILRVLH-CQNLLSLLPSSSVSFRNLTRLETFACKKLM----NLLTSSKAKSLERLVSL 1001
            L  L  +    N  S  P+      N ++L+ F  +       N +       +    SL
Sbjct: 752  LPYLSNMDVSYNCFSSFPT---QPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSL 808

Query: 1002 R 1002
             
Sbjct: 809  I 809

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 65.3 bits (159), Expect = 9e-11
 Identities = 67/567 (11%), Positives = 158/567 (27%), Gaps = 144/567 (25%)

Query: 497  ISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL 556
            +S    S       F   +L     + +     ++    F    ++L + DL +  +   
Sbjct: 352  LSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRN 411

Query: 557  PSSIGQLTKLRMLDLTDCL------QLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNS 610
            P  +  + K   + L D        ++ FI    +   T+L+ +Y  +    ++    + 
Sbjct: 412  PE-MKPIKKDSRISLKDTQIGNLTNRITFI-SKAIQRLTKLQIIYFANSPFTYDNIAVDW 469

Query: 611  ERSNASL--------DELMHLQRLTTLEI-DVEDDSILPDGLFT-KKLERFDISIGDGSF 660
            E +N+              +L+ LT +E+ +  + + LPD L+   +L+  +I+      
Sbjct: 470  EDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIA------ 523

Query: 661  DSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVW 720
                   N         S                      + +L         +    + 
Sbjct: 524  ------CN------RGISA---------------AQLKADWTRLADDEDTGPKIQIFYMG 556

Query: 721  GCDKLKYIFSASTIQSLEQLQHL-----------EIRLCKSLQEI-ISENRTDQVTAYFV 768
                L+   +++++Q + +L  L                  L ++ +  N+ +++   F 
Sbjct: 557  YN-NLEEFPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDF- 614

Query: 769  FPRVTTLKLDGLPELRCLY----------PGMHTSEWPALKNLVACNCDKITLSQNDEND 818
                         ++  L              +      + ++          S N    
Sbjct: 615  --------CAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSV--------DFSYN---- 654

Query: 819  QF-GVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRV---GDDDL 874
            +                  N   + LS  +I        P  LF +   +      ++ +
Sbjct: 655  KIGSEGRNISCSMDDYKGINASTVTLSYNEIQKF-----PTELFATGSPISTIILSNNLM 709

Query: 875  ACFPLDLLERF-------HNLEFLYLSDC-----SYEVVFSNEGYLETHARKLALIKRLN 922
               P + L+         + L  + L        S +   +   YL            ++
Sbjct: 710  TSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSN----------MD 759

Query: 923  LTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQ-----NLLSLLPSSSVSFRNLTRLET 977
            ++  N           +       L+   + H +      +L   P+          L  
Sbjct: 760  VSY-NCFSSF----PTQP-LNSSQLKAFGIRHQRDAEGNRILRQWPT---GITTCPSLIQ 810

Query: 978  FACKKL-MNLLTSSKAKSLERLVSLRI 1003
                ++  N +     K   +L  L I
Sbjct: 811  L---QIGSNDIRKVDEKLTPQLYILDI 834

>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 = 77.8 bits (192), Expect = 7e-15
 Identities = 73/488 (14%), Positives = 158/488 (32%), Gaps = 87/488 (17%)

Query: 531  NIPDNFFKGMKKLRVVDLTRVRLFSLPSS--IGQLTKLRMLDLTDCLQLKFIVPNILSSF 588
            ++  ++F  +  L+ ++L      +L  +     LT L+ L + +      I     +  
Sbjct: 88   SLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGL 147

Query: 589  TRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFT--K 646
            T L EL + + S+            N     L  ++ +  L + + + + L +       
Sbjct: 148  TSLNELEIKALSL-----------RNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILS 196

Query: 647  KLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPA 706
             +   ++                 FQ   +    +   +  L      + +   +N+L  
Sbjct: 197  SVRYLELR----------DTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDE-SFNELLK 245

Query: 707  MVPCFQSLTRLIVWGCDKLKY-IFSASTIQSLEQLQHLEIRLCKSLQEI-ISENRTDQVT 764
            ++     L+ +    C       F+ S    + +L  +E     +++ + I +       
Sbjct: 246  LLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVE---TVTIRRLHIPQFYLFYDL 302

Query: 765  AYFVFPRVTTLKLDGLPELRCLY------PGMHTSEWPALKNLVACNCDKITLSQNDEND 818
            +              L +++ +         +  S    LK+L       + LS+N   +
Sbjct: 303  STV---------YSLLEKVKRITVENSKVFLVPCSFSQHLKSLE-----FLDLSENLMVE 348

Query: 819  QFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFP 878
            ++         + K   P+L+ L LS   +  + +         +L  L +  +     P
Sbjct: 349  EYLKN-----SACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMP 403

Query: 879  LDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSK 938
             D  +    + FL LS                       I+ +       L+ L   ++ 
Sbjct: 404  -DSCQWPEKMRFLNLSSTG--------------------IRVVKTCIPQTLEVLDVSNNN 442

Query: 939  ELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLETFACKKL-MNLLTSSKAKSLE 996
             LD     L  L+ L+  +N L  LP  +  F  L  ++      +  N L S      +
Sbjct: 443  -LDSFSLFLPRLQELYISRNKLKTLP-DASLFPVLLVMK------ISRNQLKSVPDGIFD 494

Query: 997  RLVSLRIF 1004
            RL SL+  
Sbjct: 495  RLTSLQKI 502

>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 = 68.2 bits (167), Expect = 7e-12
 Identities = 61/423 (14%), Positives = 129/423 (30%), Gaps = 80/423 (18%)

Query: 514 PQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLT 572
             L+ L I    TF+E  I    F G+  L  +++  + L +  S S+  +  +  L L 
Sbjct: 123 TNLQTLRIGNVETFSE--IRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLH 180

Query: 573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEID 632
              +  F++       + +  L +   ++             +S  + +  +     +  
Sbjct: 181 LS-ESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDES 239

Query: 633 VEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTF--------------NIQS 678
             +   L   +    LE  ++   D + +                           +I  
Sbjct: 240 FNELLKLLRYI----LELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQ 295

Query: 679 IYIFCIVMALELNAINVDEIW-HYNQLPAM-VPCFQSLTRLIVWGCDKLKYI-FSASTIQ 735
            Y+F  +  +      V  I    +++  +     Q L  L        +++  S + + 
Sbjct: 296 FYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSL--------EFLDLSENLMV 347

Query: 736 SLEQLQHLEIRLCKSLQEII-SENR-TDQVTAYFVFPRVTTLKLDGLPELRCLY------ 787
                         SLQ ++ S+N          +           L  L  L       
Sbjct: 348 EEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEIL--------LTLKNLTSLDISRNTF 399

Query: 788 PGMHTS-EWPA-----------LKNLVACNCDKIT---LSQNDENDQFGVPAQQPLFSFK 832
             M  S +WP            ++ +  C    +    +S N+            L SF 
Sbjct: 400 HPMPDSCQWPEKMRFLNLSSTGIRVVKTCIPQTLEVLDVSNNN------------LDSFS 447

Query: 833 KILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLY 892
             LP L+ L +S   +  +         F  L  +++  + L   P  + +R  +L+ ++
Sbjct: 448 LFLPRLQELYISRNKLKTLPDASL----FPVLLVMKISRNQLKSVPDGIFDRLTSLQKIW 503

Query: 893 LSD 895
           L  
Sbjct: 504 LHT 506

>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 = 50.1 bits (120), Expect = 3e-06
 Identities = 37/172 (21%), Positives = 62/172 (36%), Gaps = 21/172 (12%)

Query: 834  ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYL 893
            +   ++ L LS   IT I   D       +L+ L +    +     D      +LE L L
Sbjct: 24   LTAAMKSLDLSFNKITYIGHGDLRA--CANLQVLILKSSRINTIEGDAFYSLGSLEHLDL 81

Query: 894  SDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVL 953
            SD     +  +  +       L+ +K LNL   N  Q L       +  +F +L  L+ L
Sbjct: 82   SDNHLSSL--SSSWF----GPLSSLKYLNLMG-NPYQTL------GVTSLFPNLTNLQTL 128

Query: 954  H--CQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRI 1003
                    S +      F  LT L     K     L + +++SL+ +  +  
Sbjct: 129  RIGNVETFSEIRRI--DFAGLTSLNELEIKA--LSLRNYQSQSLKSIRDIHH 176

>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 = 47/253 (18%), Positives = 83/253 (32%), Gaps = 47/253 (18%)

Query: 843  LSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVF 902
               +  T I     P  L  ++K L +  + +       L    NL+ L L         
Sbjct: 12   GRSRSFTSI-----PSGLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRIN--- 63

Query: 903  SNEGYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH-CQNLLS 960
                 +E  A   L  ++ L+L+  NHL  L           F  L  L+ L+   N   
Sbjct: 64   ----TIEGDAFYSLGSLEHLDLSD-NHLSSLSSS-------WFGPLSSLKYLNLMGNPYQ 111

Query: 961  LLPSSSVSFRNLTRLETFACKKL--MNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDED 1018
             L  +S+ F NLT L+T    ++  +   +  +      L SL         E+ I    
Sbjct: 112  TLGVTSL-FPNLTNLQTL---RIGNVETFSEIRRIDFAGLTSLN--------ELEIKAL- 158

Query: 1019 ETANLK--EEIVFSKLSALSLFDLDSLTSFSSGNYAFK-LPSLQDLWVIGCPKMKL---- 1071
               +L+  +      +  +    L    S          L S++ L +      +     
Sbjct: 159  ---SLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSP 215

Query: 1072 FTKGELSTPLRLN 1084
                E+S+P++  
Sbjct: 216  LPVDEVSSPMKKL 228

>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 = 75.6 bits (186), Expect = 5e-14
 Identities = 96/549 (17%), Positives = 174/549 (31%), Gaps = 106/549 (19%)

Query: 502 SSIHEVSLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI 560
            ++   S  F   QL+ L +         L I    F+ +  LR++DL   +++ L    
Sbjct: 37  RTVTASSFPF-LEQLQLLELGSQYTP---LTIDKEAFRNLPNLRILDLGSSKIYFLHPDA 92

Query: 561 -GQLTKLRMLDLTDC-LQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLD 618
              L  L  L L  C L    +      +   L  L +    I+       S   + S  
Sbjct: 93  FQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIR-------SLYLHPSFG 145

Query: 619 ELMHLQ--RLTTLEIDVEDDSILPDGLFTKKLERFDIS-------IGDGSFDSTKIIGND 669
           +L  L+    ++ +I +  +  L + L  K L  F ++       +            N 
Sbjct: 146 KLNSLKSIDFSSNQIFLVCEHEL-EPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNM 204

Query: 670 WFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIF 729
             +  ++        +     NAI+  + +       ++        +            
Sbjct: 205 VLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNI---------KDP 255

Query: 730 SASTIQSLEQLQHLEIRL---------------CKSLQEI-ISENRTDQVTAYFV--FPR 771
             +T   L +     + L                K L+ + ++ N+ +++          
Sbjct: 256 DQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDN 315

Query: 772 VTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSF 831
           +  L L     L  LY        P +  +         L +   N    +  Q   F F
Sbjct: 316 LQVLNLSYNL-LGELYSSNFY-GLPKVAYI--------DLQK---NHIAIIQDQ--TFKF 360

Query: 832 KKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLR-VGDDDLACFPLDL--------- 881
              L  L+ L L    +T I        +F S  +L  +   +L    + L         
Sbjct: 361 ---LEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLD 417

Query: 882 ----LERFHNLEFLYLSD-----CSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQL 932
               L R  +L+ L L+      CS +   S              +++L L   N LQ  
Sbjct: 418 ILYFLLRVPHLQILILNQNRFSSCSGDQTPSE----------NPSLEQLFLGE-NMLQLA 466

Query: 933 WKHDSKELDFIFQHLQILRVLHCQ-NLLSLLPSSSVSFRNLTRLET--FACKKLMNLLTS 989
           W+ +      +F+ L  L+VL+   N L+ LP     F +LT L        +L  L  +
Sbjct: 467 WETELCW--DVFEGLSHLQVLYLNHNYLNSLPPG--VFSHLTALRGLSLNSNRLTVLSHN 522

Query: 990 SKAKSLERL 998
               +LE L
Sbjct: 523 DLPANLEIL 531

>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 = 70.2 bits (172), Expect = 3e-12
 Identities = 78/581 (13%), Positives = 170/581 (29%), Gaps = 98/581 (16%)

Query: 544  RVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKW 603
            R+       L  +P  +    +   L L+    ++ +  +      +L+ L +GS     
Sbjct: 7    RIAFYRFCNLTQVPQVLNTTER---LLLSFN-YIRTVTASSFPFLEQLQLLELGSQYTPL 62

Query: 604  EVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLF--TKKLERFDISIGDGSFD 661
             + K          +   +L  L  L++       L    F     L    +        
Sbjct: 63   TIDK----------EAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLY---FCGL 109

Query: 662  STKIIGNDWFQTF-NIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPC--FQSLTRLI 718
            S  ++ + +F+    +  + +                    NQ+ ++     F  L  L 
Sbjct: 110  SDAVLKDGYFRNLKALTRLDL------------------SKNQIRSLYLHPSFGKLNSLK 151

Query: 719  VWGCD--KLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLK 776
                   ++  +     ++ L+        L  +           +    F    +  L 
Sbjct: 152  SIDFSSNQIFLV-CEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILD 210

Query: 777  LDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKK-IL 835
            + G         G  ++     +         I  +    ++           +F     
Sbjct: 211  VSGN-GWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQ----NTFAGLAR 265

Query: 836  PNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSD 895
             ++  L LS   +  +    F       LK L +  + +     +      NL+ L LS 
Sbjct: 266  SSVRHLDLSHGFVFSLNSRVF--ETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSY 323

Query: 896  CSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHC 955
                 ++S+      +   L  +  ++L + NH+  +     K L    + LQ L +   
Sbjct: 324  NLLGELYSS------NFYGLPKVAYIDLQK-NHIAIIQDQTFKFL----EKLQTLDLRDN 372

Query: 956  Q----NLLSLLPSSSVSFRNLTRLETFAC---------KKLMNLLTSSKAKSLERLVSLR 1002
                 + +  +P   +S   L  L               +L NL        +  L  L 
Sbjct: 373  ALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQILI 432

Query: 1003 I--------------FGCPAMTEVIISD---EDETANLKEEIVFSKLSALSLFDLDS--L 1043
            +                 P++ ++ + +   +          VF  LS L +  L+   L
Sbjct: 433  LNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYL 492

Query: 1044 TSFSSGNYAFK-LPSLQDLWVIGCPKMKLFTKGELSTPLRL 1083
             S   G   F  L +L+ L +    ++ + +  +L   L +
Sbjct: 493  NSLPPG--VFSHLTALRGLSLNSN-RLTVLSHNDLPANLEI 530

>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 = 56.4 bits (136), Expect = 4e-08
 Identities = 64/388 (16%), Positives = 125/388 (32%), Gaps = 57/388 (14%)

Query: 531 NIPDNFFKGMKK--LRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSS 587
           +   N F G+ +  +R +DL+   +FSL S +   L  L++L+L    ++  I       
Sbjct: 254 DPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYN-KINKIADEAFYG 312

Query: 588 FTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI--LPDGLFT 645
              L+ L +    +         E  +++   L  +  +     D++ + I  + D  F 
Sbjct: 313 LDNLQVLNLSYNLL--------GELYSSNFYGLPKVAYI-----DLQKNHIAIIQDQTFK 359

Query: 646 --KKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCI-VMALELNAINVDEIW-HY 701
             +KL+  D+         T I          +    +  +  + L  N I++ E     
Sbjct: 360 FLEKLQTLDLR----DNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLEN 415

Query: 702 NQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTD 761
             +   +     L  LI+    +        T      L+ L +          +E   D
Sbjct: 416 LDILYFLLRVPHLQILILNQN-RFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWD 474

Query: 762 QVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFG 821
               +     +  L L+    L  L PG+ +    AL+ L        +L+ N       
Sbjct: 475 ---VFEGLSHLQVLYLNHN-YLNSLPPGVFSH-LTALRGL--------SLNSNRLTV--- 518

Query: 822 VPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACF-PLD 880
                   S   +  NLE L +S   +           +F SL  L +  +   C   L 
Sbjct: 519 -------LSHNDLPANLEILDISRNQLLAP-----NPDVFVSLSVLDITHNKFICECELS 566

Query: 881 LLERFHNLEFLYLSDCSYEVVFSNEGYL 908
               + N   + ++    ++        
Sbjct: 567 TFINWLNHTNVTIAGPPADIYCVYPDSF 594

>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 = 74.3 bits (183), Expect = 1e-13
 Identities = 88/540 (16%), Positives = 163/540 (30%), Gaps = 122/540 (22%)

Query: 544  RVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKW 603
            +  +   + L  +P ++        L+ +    L  I     S    L  L +  C I W
Sbjct: 15   KTYNCENLGLNEIPGTL--PNSTECLEFSFN-VLPTIQNTTFSRLINLTFLDLTRCQIYW 71

Query: 604  EVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI--LPDGLFT--KKLERFDISIGDGS 659
                          D      RL TL   +  + +  + +   +  K L+          
Sbjct: 72   IHE-----------DTFQSQHRLDTL--VLTANPLIFMAETALSGPKALKHLFFI----- 113

Query: 660  FDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAM-VPCFQ---SLT 715
                            I SI    +     L ++ +      N + ++ +P       L 
Sbjct: 114  -------QT------GISSIDFIPLHNQKTLESLYL----GSNHISSIKLPKGFPTEKLK 156

Query: 716  RLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAY-FVFPRVTT 774
             L       + Y+ S   + SL+Q  +L + L        + N    +    F      +
Sbjct: 157  VLDFQNN-AIHYL-SKEDMSSLQQATNLSLNL--------NGNDIAGIEPGAFDSAVFQS 206

Query: 775  LKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKI 834
            L   G   L  ++ G+  S   +L           T    D+ D         +F     
Sbjct: 207  LNFGGTQNLLVIFKGLKNSTIQSLWLG--------TFEDMDDEDI-----SPAVFEGLCE 253

Query: 835  LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS 894
            + ++E + L       I  + F  H F  L++L +    L+  P   L     L+ L LS
Sbjct: 254  M-SVESINLQKHYFFNISSNTF--HCFSGLQELDLTATHLSELP-SGLVGLSTLKKLVLS 309

Query: 895  DCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLW----KHDSKELDFIFQHLQIL 950
                               K   + +++ +    L  L         +      ++L+ L
Sbjct: 310  AN-----------------KFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENL 352

Query: 951  RVLHCQ-NLLSLLPSSSVSFRNLTRLETFACKKLM-NLLTSSKAKSLERLVSLRIFGCPA 1008
            R L    + +      ++  RNL+ L++     L  N   S K ++ +    L       
Sbjct: 353  RELDLSHDDIETSDCCNLQLRNLSHLQSL---NLSYNEPLSLKTEAFKECPQLE------ 403

Query: 1009 MTEVIISDEDETAN----LKEEIVFSKLSALSLFDLDS--LTSFSSGNYAFK-LPSLQDL 1061
               + ++              +  F  L  L + +L    L   S     F  LP+LQ L
Sbjct: 404  --LLDLAF-----TRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQ--LFDGLPALQHL 454

>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 = 73.1 bits (180), Expect = 3e-13
 Identities = 85/526 (16%), Positives = 153/526 (29%), Gaps = 123/526 (23%)

Query: 531  NIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
             I +  F  +  L  +DLTR +++ +   +     +L  L LT    L F+    LS   
Sbjct: 47   TIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTAN-PLIFMAETALSGPK 105

Query: 590  RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI--LPDGLF--T 645
             L+ L+     I           S+     L + + L +L   +  + I  +       T
Sbjct: 106  ALKHLFFIQTGI-----------SSIDFIPLHNQKTLESL--YLGSNHISSIKLPKGFPT 152

Query: 646  KKLERFDIS------IGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIW 699
            +KL+  D        +      S +             ++ +      L  N I      
Sbjct: 153  EKLKVLDFQNNAIHYLSKEDMSSLQ----------QATNLSL-----NLNGNDI------ 191

Query: 700  HYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCK---------- 749
                +            L   G   L  IF      +++ L                   
Sbjct: 192  --AGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFE 249

Query: 750  -----SLQEI-ISENR-TDQVTAYFV-FPRVTTLKLD------------GLPELRCLY-- 787
                 S++ I + ++   +  +  F  F  +  L L             GL  L+ L   
Sbjct: 250  GLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLS 309

Query: 788  ----PGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLAL 843
                  +         +L       +++  N +  +            +  L NL  L L
Sbjct: 310  ANKFENLCQISASNFPSLT-----HLSIKGNTKRLEL------GTGCLEN-LENLRELDL 357

Query: 844  SGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSD-----CSY 898
            S  DI      +        L+ L +  ++      +  +    LE L L+         
Sbjct: 358  SHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDA 417

Query: 899  EVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQN- 957
            +  F N          L L+K LNL+  + L    +        +F  L  L+ L+ Q  
Sbjct: 418  QSPFQN----------LHLLKVLNLSH-SLLDISSEQ-------LFDGLPALQHLNLQGN 459

Query: 958  -LLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLR 1002
                     + S + L RLE          L+S    +   L  + 
Sbjct: 460  HFPKGNIQKTNSLQTLGRLEILVLSF--CDLSSIDQHAFTSLKMMN 503

>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 = 68.9 bits (169), Expect = 5e-12
 Identities = 79/505 (15%), Positives = 153/505 (30%), Gaps = 104/505 (20%)

Query: 532  IPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTR 590
            I        K L  + L    + S+         KL++LD  +   + ++    +SS  +
Sbjct: 120  IDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNN-AIHYLSKEDMSSLQQ 178

Query: 591  LE--ELYMGSCSIKWEVRKGNSERSNASLDELM--------------HLQRLTTLEIDVE 634
                 L +    I              SL+                  +Q L     +  
Sbjct: 179  ATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDM 238

Query: 635  DDSILPDGLFTK----KLERFDISIGDGSFDSTKIIGNDWFQTF-NIQSIYIFCIVMALE 689
            DD  +   +F       +E  ++      F +   I ++ F  F  +Q +        L 
Sbjct: 239  DDEDISPAVFEGLCEMSVESINLQ--KHYFFN---ISSNTFHCFSGLQELD-------LT 286

Query: 690  LNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCK 749
               +        ++LP+ +    +L +L++    K + +    +  +   L HL I+   
Sbjct: 287  ATHL--------SELPSGLVGLSTLKKLVLSAN-KFENL-CQISASNFPSLTHLSIKGNT 336

Query: 750  SLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLY--------PGMHTSEWPALKNL 801
               E+ +                    L+ L  LR L               +   L +L
Sbjct: 337  KRLELGTGC------------------LENLENLRELDLSHDDIETSDCCNLQLRNLSHL 378

Query: 802  VACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLF 861
                   + LS N+      +  +   F      P LE L L+   + +       Q+L 
Sbjct: 379  -----QSLNLSYNEPL---SLKTE--AFKE---CPQLELLDLAFTRLKVKDAQSPFQNL- 424

Query: 862  GSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHA-RKLALIKR 920
              LK L +    L      L +    L+ L L        F      +T++ + L  ++ 
Sbjct: 425  HLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNH----FPKGNIQKTNSLQTLGRLEI 480

Query: 921  LNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLETFA 979
            L L+    L  + +H        F  L+++  +    N L+       +  +L  +    
Sbjct: 481  LVLSF-CDLSSIDQH-------AFTSLKMMNHVDLSHNRLTSSSIE--ALSHLKGIYLNL 530

Query: 980  CKKLMNLLTSSKAKSLERLVSLRIF 1004
                 N ++      L  L   R  
Sbjct: 531  AS---NHISIILPSLLPILSQQRTI 552

>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 = 61.6 bits (150), Expect = 9e-10
 Identities = 73/410 (17%), Positives = 127/410 (30%), Gaps = 92/410 (22%)

Query: 531 NIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTR 590
           NI  N F     L+ +DLT   L  LPS +  L+ L+ L L+   + + +     S+F  
Sbjct: 268 NISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSAN-KFENLCQISASNFPS 326

Query: 591 LEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLER 650
           L  L +          KGN++R       L +L+ L  L  D+  D I            
Sbjct: 327 LTHLSI----------KGNTKRLELGTGCLENLENLREL--DLSHDDIE----------- 363

Query: 651 FDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPC 710
                 +    +            ++QS+        L  N            L      
Sbjct: 364 -TSDCCNLQLRNLS----------HLQSLN-------LSYNEP--------LSLKTEAFK 397

Query: 711 F-QSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVF 769
               L  L +    +LK   + S  Q+L  L+ L           +S +  D  +     
Sbjct: 398 ECPQLELLDLAFT-RLKVKDAQSPFQNLHLLKVL----------NLSHSLLDISSEQL-- 444

Query: 770 PRVTTLKLDGLPELRCLY------PGMHTSEWPALKNLVACNCDKITLSQNDENDQF-GV 822
                   DGLP L+ L       P  +  +  +L+ L     + + LS          +
Sbjct: 445 -------FDGLPALQHLNLQGNHFPKGNIQKTNSLQTLG--RLEILVLSFC----DLSSI 491

Query: 823 PAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLL 882
                  +F   L  +  + LS   +T    +            L +  + ++     LL
Sbjct: 492 DQH----AFTS-LKMMNHVDLSHNRLTSSSIEALSHL---KGIYLNLASNHISIILPSLL 543

Query: 883 ERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQL 932
                   + L     +   SN  +LE +   +  ++    T   +   L
Sbjct: 544 PILSQQRTINLRQNPLDCTCSNIYFLEWYKENMQKLEDTEDTLCENPPLL 593

>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 = 72.0 bits (177), Expect = 6e-13
 Identities = 85/499 (17%), Positives = 162/499 (32%), Gaps = 92/499 (18%)

Query: 531  NIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
            ++    F G+  L+ +      L SL    IG L  L+ L++   L   F +P   S+ T
Sbjct: 90   SLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLT 149

Query: 590  RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI--LPDGLFTK- 646
             LE L + S  I               L  L  +  L  L +D+  + +  +  G F + 
Sbjct: 150  NLEHLDLSSNKI--------QSIYCTDLRVLHQMP-LLNLSLDLSLNPMNFIQPGAFKEI 200

Query: 647  KLERFDIS-------IGDGSFDS------TKIIGNDWFQTFNIQSIYIF----CIVMALE 689
            +L +  +        +              +++  ++    N++            + +E
Sbjct: 201  RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIE 260

Query: 690  LNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCK 749
               +   + +  + +  +  C  +++   +        I            QHLE     
Sbjct: 261  EFRLAYLDYYL-DDIIDLFNCLTNVSSFSLVSV----TIERVKDFSYNFGWQHLE----- 310

Query: 750  SLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLY-PGMHTSEWPALKNLVACNCDK 808
                 +   +         F +  TLKL  L  L      G +      L +L       
Sbjct: 311  -----LVNCK---------FGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLE-----F 351

Query: 809  ITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLR 868
            + LS+N  + +          S      +L+ L LS   +  +  +         L+ L 
Sbjct: 352  LDLSRNGLSFKGCCS-----QSDFG-TTSLKYLDLSFNGVITMSSNFLG---LEQLEHLD 402

Query: 869  VGDDDLA-CFPLDLLERFHNLEFLYLSDCSYEVVFSNE-GYLETHARKLALIKRLNLTRL 926
                +L       +     NL +L +S     V F+     L +       ++ L +   
Sbjct: 403  FQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSS-------LEVLKMAG- 454

Query: 927  NHLQQLWKHDSKELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLETFACKKLM- 984
            N  Q+ +  D      IF  L+ L  L   Q  L  L  +  +F +L+ L+      +  
Sbjct: 455  NSFQENFLPD------IFTELRNLTFLDLSQCQLEQLSPT--AFNSLSSLQVL---NMSH 503

Query: 985  NLLTSSKAKSLERLVSLRI 1003
            N   S      + L SL++
Sbjct: 504  NNFFSLDTFPYKCLNSLQV 522

>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 = 63.5 bits (155), Expect = 2e-10
 Identities = 97/560 (17%), Positives = 176/560 (31%), Gaps = 131/560 (23%)

Query: 531  NIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
            ++    F    +L+V+DL+R  + ++   +   L+ L  L LT    ++ +     S  +
Sbjct: 42   HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLS 100

Query: 590  RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVED---DSILPDGLFT- 645
             L++L     ++        +   N  +  L  L+ L     +V      S      F+ 
Sbjct: 101  SLQKLVAVETNL--------ASLENFPIGHLKTLKEL-----NVAHNLIQSFKLPEYFSN 147

Query: 646  -KKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQL 704
               LE  D+S             N       IQSIY   + +  ++  +N+      N +
Sbjct: 148  LTNLEHLDLS------------SN------KIQSIYCTDLRVLHQMPLLNLSLDLSLNPM 189

Query: 705  PAMVP-CFQ--SLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTD 761
              + P  F+   L +L +            + IQ L  L+   + L +            
Sbjct: 190  NFIQPGAFKEIRLHKLTLRNN-FDSLNVMKTCIQGLAGLEVHRLVLGEFR---------- 238

Query: 762  QVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFG 821
                                        +   +  AL+ L     ++  L+  D      
Sbjct: 239  ------------------------NEGNLEKFDKSALEGLCNLTIEEFRLAYLDYY---- 270

Query: 822  VPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDL 881
                  +  F   L N+   +L    I  +    +        + L + +     FP   
Sbjct: 271  --LDDIIDLFNC-LTNVSSFSLVSVTIERVKDFSY----NFGWQHLELVNCKFGQFPTLK 323

Query: 882  LERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELD 941
            L+    L F            SN+G        L  ++ L+L+R N L            
Sbjct: 324  LKSLKRLTFT-----------SNKGGNAFSEVDLPSLEFLDLSR-NGLSFK-----GCCS 366

Query: 942  FIFQHLQILRVLHCQ-NLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVS 1000
                    L+ L    N +  + S+ +    L  L+ F    L  +   S   SL  L+ 
Sbjct: 367  QSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLD-FQHSNLKQMSEFSVFLSLRNLIY 425

Query: 1001 LRI-------------FGCPAMTEVIISDEDETANLKEEI---VFSKLSALSLFDLDS-- 1042
            L I              G  ++  + ++      + +E     +F++L  L+  DL    
Sbjct: 426  LDISHTHTRVAFNGIFNGLSSLEVLKMAG----NSFQENFLPDIFTELRNLTFLDLSQCQ 481

Query: 1043 LTSFSSGNYAFK-LPSLQDL 1061
            L   S    AF  L SLQ L
Sbjct: 482  LEQLSPT--AFNSLSSLQVL 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 = 50.4 bits (121), Expect = 3e-06
 Identities = 23/139 (16%), Positives = 47/139 (33%), Gaps = 14/139 (10%)

Query: 491 LKKCYAISLLNSSIHEVSLEFE-CPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDL 548
                 + L  + +  +S  F    QLE L      +         + F  ++ L  +D+
Sbjct: 372 TTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLK---QMSEFSVFLSLRNLIYLDI 428

Query: 549 TRVRL-FSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRK 607
           +      +       L+ L +L +      +  +P+I +    L  L +  C +      
Sbjct: 429 SHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL------ 482

Query: 608 GNSERSNASLDELMHLQRL 626
              + S  + + L  LQ L
Sbjct: 483 --EQLSPTAFNSLSSLQVL 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 = 49.3 bits (118), Expect = 5e-06
 Identities = 25/141 (17%), Positives = 47/141 (33%), Gaps = 11/141 (7%)

Query: 487 DGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHI-DPKITFAELNIPDNFFKGMKKLRV 545
               LK    ++  ++       E + P LEFL +    ++F           G   L+ 
Sbjct: 320 PTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSF--KGCCSQSDFGTTSLKY 377

Query: 546 VDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEV 605
           +DL+   + ++ S+   L +L  LD       +    ++  S   L  L +         
Sbjct: 378 LDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHT---- 433

Query: 606 RKGNSERSNASLDELMHLQRL 626
                   N   + L  L+ L
Sbjct: 434 ----RVAFNGIFNGLSSLEVL 450

>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 = 45.0 bits (107), Expect = 1e-04
 Identities = 80/482 (16%), Positives = 150/482 (31%), Gaps = 100/482 (20%)

Query: 513 CPQLEFLHI-DPKITFAELNIPDNFFKGMKKLRVV----DLTRVRLFSLPSSIGQLTKLR 567
              LE L +   KI     +I     + + ++ ++    DL+   +  +     +  +L 
Sbjct: 148 LTNLEHLDLSSNKIQ----SIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLH 203

Query: 568 MLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQ--- 624
            L L +      ++   +     LE   +     + E          ++L+ L +L    
Sbjct: 204 KLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKF--DKSALEGLCNLTIEE 261

Query: 625 -RLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFC 683
            RL  L+  ++D   L + L    +  F +                      I+ +  F 
Sbjct: 262 FRLAYLDYYLDDIIDLFNCL--TNVSSFSLV------------SV------TIERVKDFS 301

Query: 684 IVMALE-LNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQH 742
                + L  +N      + Q P +    +SL RL            +A +   L  L+ 
Sbjct: 302 YNFGWQHLELVNC----KFGQFPTL--KLKSLKRLTFTSNK----GGNAFSEVDLPSLEF 351

Query: 743 LEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLY-----PGMHTSEWPA 797
           L+          +S N          F    +    G   L+ L          +S +  
Sbjct: 352 LD----------LSRNG-------LSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLG 394

Query: 798 LKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFP 857
           L+ L       +    +         ++  +F     L NL  L +S     +     F 
Sbjct: 395 LEQLEH-----LDFQHS----NLKQMSEFSVFLS---LRNLIYLDISHTHTRVAFNGIFN 442

Query: 858 QHLFGSLKQLRVGDDDLA-CFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLA 916
                SL+ L++  +     F  D+     NL FL LS C  E +             L+
Sbjct: 443 G--LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTA------FNSLS 494

Query: 917 LIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQ-NLLSLLPSSSVS--FRNLT 973
            ++ LN+   N+   L         F ++ L  L+VL    N +       +     +L 
Sbjct: 495 SLQVLNM-SHNNFFSL-------DTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLA 546

Query: 974 RL 975
            L
Sbjct: 547 FL 548

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 64.4 bits (157), Expect = 1e-10
 Identities = 30/145 (20%), Positives = 57/145 (39%), Gaps = 21/145 (14%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDL 571
             L  L +   ++T     IP+  F  + KL+ + L    + S+PS    ++  LR LDL
Sbjct: 112 ANLNTLELFDNRLT----TIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDL 167

Query: 572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEI 631
            +  +L +I        + L  L +  C+++              +  L  L +L  L++
Sbjct: 168 GELKRLSYISEGAFEGLSNLRYLNLAMCNLR-------------EIPNLTPLIKLDELDL 214

Query: 632 DVEDDSILPDGLFT--KKLERFDIS 654
                S +  G F     L++  + 
Sbjct: 215 SGNHLSAIRPGSFQGLMHLQKLWMI 239

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 54.8 bits (132), Expect = 1e-07
 Identities = 50/243 (20%), Positives = 81/243 (33%), Gaps = 49/243 (20%)

Query: 835  LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS 894
            L +LE L LS   I  I    F   L  +L  L + D+ L   P         L+ L+L 
Sbjct: 87   LRHLEILQLSRNHIRTIEIGAF-NGL-ANLNTLELFDNRLTTIPNGAFVYLSKLKELWLR 144

Query: 895  DCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFI----FQHLQIL 950
            +                   +  I      R+  L++L   + K L +I    F+ L  L
Sbjct: 145  NN-----------------PIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNL 187

Query: 951  RVLH-CQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKA---KSLERLVSLRIFGC 1006
            R L+     L  +P    +   L +L+        N L++ +    + L  L  L +   
Sbjct: 188  RYLNLAMCNLREIP----NLTPLIKLDELDLSG--NHLSAIRPGSFQGLMHLQKLWMIQS 241

Query: 1007 PAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDS--LTSFSSGNYAFKLPSLQDLWVI 1064
                   I   +  A       F  L +L   +L    LT      +   L  L+ + + 
Sbjct: 242  Q------IQVIERNA-------FDNLQSLVEINLAHNNLTLLPHDLFT-PLHHLERIHLH 287

Query: 1065 GCP 1067
              P
Sbjct: 288  HNP 290

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 50.5 bits (121), Expect = 2e-06
 Identities = 40/264 (15%), Positives = 85/264 (32%), Gaps = 57/264 (21%)

Query: 531 NIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
            I  N FK ++ L ++ L+R  + ++       L  L  L+L D  +L  I        +
Sbjct: 78  IIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDN-RLTTIPNGAFVYLS 136

Query: 590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDD-SILPDGLFTK-- 646
           +L+EL++ +  I            +        +  L  L++      S + +G F    
Sbjct: 137 KLKELWLRNNPI-----------ESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLS 185

Query: 647 KLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIW-HYNQL- 704
            L   +++                    N++ I     ++ L+       E+    N L 
Sbjct: 186 NLRYLNLA------------MC------NLREIPNLTPLIKLD-------ELDLSGNHLS 220

Query: 705 ---PAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTD 761
              P        L +L +    +++ I   +   +L+ L  + +     L  +       
Sbjct: 221 AIRPGSFQGLMHLQKLWMIQS-QIQVI-ERNAFDNLQSLVEINLAHNN-LTLL------- 270

Query: 762 QVTAYFVFPRVTTLKLDGLPELRC 785
               +     +  + L   P   C
Sbjct: 271 PHDLFTPLHHLERIHLHHNP-WNC 293

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 49.7 bits (119), Expect = 3e-06
 Identities = 45/218 (20%), Positives = 81/218 (37%), Gaps = 45/218 (20%)

Query: 854  DDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHA- 912
             + P  +  + + L + ++ +    ++  +   +LE L LS         +   +E  A 
Sbjct: 56   REVPDGISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRN-------HIRTIEIGAF 108

Query: 913  RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQ-NLLSLLPSSSVSFRN 971
              LA +  L L   N L  +           F +L  L+ L  + N +  +PS   +F  
Sbjct: 109  NGLANLNTLELFD-NRLTTIPNG-------AFVYLSKLKELWLRNNPIESIPSY--AFNR 158

Query: 972  LTRLETFACKKL----MNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEI 1027
            +  L       L    +  L+     + E L +LR         + ++      NL+E  
Sbjct: 159  IPSLRR-----LDLGELKRLSYISEGAFEGLSNLR--------YLNLAM----CNLREIP 201

Query: 1028 VFSKLSALSLFDLDS--LTSFSSGNYAFK-LPSLQDLW 1062
              + L  L   DL    L++   G  +F+ L  LQ LW
Sbjct: 202  NLTPLIKLDELDLSGNHLSAIRPG--SFQGLMHLQKLW 237

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 42.8 bits (101), Expect = 5e-04
 Identities = 69/360 (19%), Positives = 115/360 (31%), Gaps = 121/360 (33%)

Query: 542 KLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSI 601
           +   V   R  L  +P  I   T  R+L+L +  Q++ I  N       LE L +    I
Sbjct: 44  QFSKVICVRKNLREVPDGI--STNTRLLNLHEN-QIQIIKVNSFKHLRHLEILQLSRNHI 100

Query: 602 KWEVRKGNSERSNASLDE--LMHLQRLTTLEIDVEDDSILPDGLFT--KKLERFDISIGD 657
           +             +++      L  L TLE+     + +P+G F    KL+   +    
Sbjct: 101 R-------------TIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLR--- 144

Query: 658 GSFDSTKIIGNDWFQTFNIQSI--YIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLT 715
                     N       I+SI  Y F                   N++P       SL 
Sbjct: 145 ---------NN------PIESIPSYAF-------------------NRIP-------SLR 163

Query: 716 RLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTL 775
           RL +    +L YI S    + L  L++L           ++     ++            
Sbjct: 164 RLDLGELKRLSYI-SEGAFEGLSNLRYL----------NLAMCNLREIPN---------- 202

Query: 776 KLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKIL 835
            L  L +L  L                        LS N                    L
Sbjct: 203 -LTPLIKLDELD-----------------------LSGN----HLSAIRPGSFQG----L 230

Query: 836 PNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSD 895
            +L+ L +    I +I ++ F  +L  SL ++ +  ++L   P DL    H+LE ++L  
Sbjct: 231 MHLQKLWMIQSQIQVIERNAF-DNL-QSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHH 288

>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 = 63.1 bits (154), Expect = 3e-10
 Identities = 73/544 (13%), Positives = 158/544 (29%), Gaps = 108/544 (19%)

Query: 542  KLRVVDLTRVRLF-SLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCS 600
            ++  + L        +P +IGQLT+L +L L    +            +           
Sbjct: 82   RVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSD------ 135

Query: 601  IKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERF---DISIGD 657
                  +    R +     + +  R    ++  +  +  P     KK  R    D  IG 
Sbjct: 136  -----EQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQ 190

Query: 658  GSFDSTKI---IGNDWF-QTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQS 713
             S + T +   +      + F + +       +       N +    Y          + 
Sbjct: 191  LSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKD 250

Query: 714  LTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVT 773
            LT + V+ C  L  +   + +++L ++Q +           ++ NR              
Sbjct: 251  LTDVEVYNCPNLTKL--PTFLKALPEMQLI----------NVACNR-------------- 284

Query: 774  TLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQF-GVPAQQPLFSFK 832
                    +L+        ++ P  + +       I +  N         P +  L    
Sbjct: 285  ---GISGEQLKDD--WQALADAPVGEKIQ-----IIYIGYN----NLKTFPVETSLQK-- 328

Query: 833  KILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRV---GDDDLACFPLDLLERFHNLE 889
              +  L  L      +   L        FGS  +L       + +   P +       +E
Sbjct: 329  --MKKLGMLECLYNQLEGKLPA------FGSEIKLASLNLAYNQITEIPANFCGFTEQVE 380

Query: 890  FLYLSDCSYEVVFSNEGYLET-----HARKLALIKRLNLTRLNHLQQLWKHDSKELDFIF 944
             L  +             L+       A+ ++++  ++ +  N +  +   +   LD   
Sbjct: 381  NLSFAHNK----------LKYIPNIFDAKSVSVMSAIDFSY-NEIGSVDGKNFDPLDPTP 429

Query: 945  QHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRI 1003
                 +  ++   N +S  P     F   + L +       N+LT     SL+   +   
Sbjct: 430  FKGINVSSINLSNNQISKFPKE--LFSTGSPLSSINLMG--NMLTEIPKNSLKDE-NENF 484

Query: 1004 FGCPAMTEVIISDEDETAN----LKEEIVFSKLSALSLFDLDS--LTSFSSGNYAFKLPS 1057
                 +T + +       N    L ++   + L  L   DL     + F +        +
Sbjct: 485  KNTYLLTSIDLRF-----NKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQ--PLNSST 537

Query: 1058 LQDL 1061
            L+  
Sbjct: 538  LKGF 541

>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 = 62.4 bits (152), Expect = 5e-10
 Identities = 65/537 (12%), Positives = 155/537 (28%), Gaps = 127/537 (23%)

Query: 491  LKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTR 550
             K+   +    + +     E +   L    I       + +I  +      K   +    
Sbjct: 137  QKQKMRMHYQKTFVDYDPRE-DFSDLIKDCI--NSDPQQKSIKKSSRI-TLKDTQIGQLS 192

Query: 551  VRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNS 610
              +  +  ++ +LTKLR   + +       V   +      E                  
Sbjct: 193  NNITFVSKAVMRLTKLRQFYMGNS----PFVAENICEAWENENSEYAQ----------QY 238

Query: 611  ERSNASLDELMHLQRLTTLEI-DVEDDSILPDGLFT-KKLERFDISIGDGSFDSTKIIGN 668
            +  +   D   +L+ LT +E+ +  + + LP  L    +++  +++             N
Sbjct: 239  KTEDLKWD---NLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVA------------CN 283

Query: 669  DWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYI 728
                                    I+ +++    Q  A  P  + +  + +     LK  
Sbjct: 284  ----------------------RGISGEQLKDDWQALADAPVGEKIQIIYIGYN-NLKTF 320

Query: 729  FSASTIQSLEQLQHL------------EIRLCKSLQEI-ISENRTDQVTAYFVFPRVTTL 775
               +++Q +++L  L                   L  + ++ N+                
Sbjct: 321  PVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQ---------------- 364

Query: 776  KLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQF-GVPAQQPLFSFKKI 834
             +  +P           +     + +       ++ + N    +   +P    +F  K  
Sbjct: 365  -ITEIPA----------NFCGFTEQVE-----NLSFAHN----KLKYIP---NIFDAKS- 400

Query: 835  LPNLEGLALSGKDITMILQDDF---PQHLFG--SLKQLRVGDDDLACFPLDLLERFHNLE 889
            +  +  +  S  +I  +   +F       F   ++  + + ++ ++ FP +L      L 
Sbjct: 401  VSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLS 460

Query: 890  FLYLSDCSYEVVFSNEGYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQ 948
             + L       +  N    E    +   L+  ++L   N L +L        DF    L 
Sbjct: 461  SINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRF-NKLTKL------SDDFRATTLP 513

Query: 949  ILRVLH-CQNLLSLLPSSSVSFRNLTRLETFACKKL-MNLLTSSKAKSLERLVSLRI 1003
             L  +    N  S  P+  ++   L        +    N       + +    SL  
Sbjct: 514  YLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQ 570

>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 = 49.7 bits (119), Expect = 5e-06
 Identities = 50/415 (12%), Positives = 109/415 (26%), Gaps = 100/415 (24%)

Query: 497 ISLLNSSIHEVSLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFS 555
              L      ++      +++ ++I    +      +  +  K MKKL +++    +L  
Sbjct: 288 GEQLKDDWQALADAPVGEKIQIIYIGYNNLK--TFPVETSLQK-MKKLGMLECLYNQLEG 344

Query: 556 LPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNA 615
              + G   KL  L+L    Q+  I  N      ++E L      +K             
Sbjct: 345 KLPAFGSEIKLASLNLAYN-QITEIPANFCGFTEQVENLSFAHNKLK----------YIP 393

Query: 616 SLDELMHLQRLTTL--------EIDVEDDSILPDGLFT-KKLERFDISIGDGSFDSTKII 666
           ++ +   +  ++ +         +D ++   L    F    +   ++S       + +I 
Sbjct: 394 NIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLS-------NNQIS 446

Query: 667 GN--DWFQTF-NIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCD 723
               + F T   + SI +         N +                    LT + +    
Sbjct: 447 KFPKELFSTGSPLSSINLMG-------NMLTEIPKNSLKDENENFKNTYLLTSIDLRFN- 498

Query: 724 KLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPEL 783
           KL  +       +L  L  +           +S N                      P  
Sbjct: 499 KLTKLSDDFRATTLPYLVGI----------DLSYNS-----------------FSKFP-- 529

Query: 784 RCLYPGMHTSEWPALKNLVACNCDKITLSQN---DENDQFG-VPAQQPLFSFKKILPNLE 839
                    ++      L         +        N      P            P+L 
Sbjct: 530 ---------TQPLNSSTLK-----GFGIRNQRDAQGNRTLREWPE-----GITL-CPSLT 569

Query: 840 GLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS 894
            L +   DI  +      + +  ++  L + D+      L  +  +       L 
Sbjct: 570 QLQIGSNDIRKV-----NEKITPNISVLDIKDNPNISIDLSYVCPYIEAGMYMLF 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 = 45.8 bits (109), Expect = 7e-05
 Identities = 50/392 (12%), Positives = 112/392 (28%), Gaps = 88/392 (22%)

Query: 532 IPDNFFKGMKKLRVVDLTRVRLFSLP---------SSIGQLTKLRMLDLTDCLQLK-FIV 581
           +P      + +++++++   R  S           +      K++++ +     LK F V
Sbjct: 265 LPTFLKA-LPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYN-NLKTFPV 322

Query: 582 PNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI--L 639
              L    +L  L      +               L       +L +L  ++  + I  +
Sbjct: 323 ETSLQKMKKLGMLECLYNQL------------EGKLPAFGSEIKLASL--NLAYNQITEI 368

Query: 640 PDGLF--TKKLERFDISIGDGSFDSTKIIGN------DWFQTFNIQSIYIFCIVMALELN 691
           P      T+++E    +             N      + F   ++  +           N
Sbjct: 369 PANFCGFTEQVENLSFA------------HNKLKYIPNIFDAKSVSVMSAID----FSYN 412

Query: 692 AINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSL 751
            I   +  +++ L        +++ + +    ++          +   L  + +     L
Sbjct: 413 EIGSVDGKNFDPLDPTPFKGINVSSINLSNN-QISKF-PKELFSTGSPLSSINLMGNM-L 469

Query: 752 QEIISENRTDQVTAYFVFPRVTTL-----KLDGLPELRCLYPGMHTSEWPALKNLVACNC 806
            EI   +  D+   +     +T++     KL  L            +  P L  +     
Sbjct: 470 TEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLS------DDFRATTLPYLVGID---- 519

Query: 807 DKITLSQNDENDQF-GVPAQQPLFSFKK--ILPNLEGLALSGKDITMILQDDFPQHLFGS 863
               LS N     F   P Q    +                G        +        S
Sbjct: 520 ----LSYN----SFSKFPTQ--PLNSSTLKGFGIRNQRDAQGNRTLREWPEGITL--CPS 567

Query: 864 LKQLRVGDDDLACFPLDLLERFHNLEFLYLSD 895
           L QL++G +D+      +     N+  L + D
Sbjct: 568 LTQLQIGSNDIRKVNEKITP---NISVLDIKD 596

>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 = 61.7 bits (150), Expect = 6e-10
 Identities = 33/145 (22%), Positives = 55/145 (37%), Gaps = 21/145 (14%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDL 571
             L  L +    +T     IP   F+ + KLR + L    + S+PS    ++  L  LDL
Sbjct: 123 ASLNTLELFDNWLT----VIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDL 178

Query: 572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEI 631
            +  +L++I          L+ L +G C+IK              +  L  L  L  LE+
Sbjct: 179 GELKKLEYISEGAFEGLFNLKYLNLGMCNIK-------------DMPNLTPLVGLEELEM 225

Query: 632 DVEDDSILPDGLFT--KKLERFDIS 654
                  +  G F     L++  + 
Sbjct: 226 SGNHFPEIRPGSFHGLSSLKKLWVM 250

>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 = 53.2 bits (128), Expect = 3e-07
 Identities = 52/248 (20%), Positives = 85/248 (34%), Gaps = 45/248 (18%)

Query: 834  ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYL 893
            I  N   L L   +I MI  D F +HL   L+ L++G + +    +       +L  L L
Sbjct: 73   IPSNTRYLNLMENNIQMIQADTF-RHL-HHLEVLQLGRNSIRQIEVGAFNGLASLNTLEL 130

Query: 894  SDCSYEVV----FSNEGYLET---HARKLALIKRLNLTRLNHLQQLWKHDSKELDFI--- 943
             D    V+    F     L         +  I      R+  L +L   + K+L++I   
Sbjct: 131  FDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEG 190

Query: 944  -FQHLQILRVLHCQ-NLLSLLPSSSVSFRNLTRLETFACKKL---MNLLTSSKA---KSL 995
             F+ L  L+ L+     +  +P    +   L  LE      L    N     +      L
Sbjct: 191  AFEGLFNLKYLNLGMCNIKDMP----NLTPLVGLEE-----LEMSGNHFPEIRPGSFHGL 241

Query: 996  ERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDS--LTSFSSGNYAF 1053
              L  L +          +S  +  A       F  L++L   +L    L+S     +  
Sbjct: 242  SSLKKLWVMNSQ------VSLIERNA-------FDGLASLVELNLAHNNLSSLPHDLFT- 287

Query: 1054 KLPSLQDL 1061
             L  L +L
Sbjct: 288  PLRYLVEL 295

>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 = 43/236 (18%), Positives = 82/236 (34%), Gaps = 50/236 (21%)

Query: 836  PNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSD 895
                 +  + + ++ +     PQ +  + + L + ++++     D     H+LE L L  
Sbjct: 54   NQFSKVVCTRRGLSEV-----PQGIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGR 108

Query: 896  CSYEVVFSNEGYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH 954
                    +   +E  A   LA +  L L   N L  +           F++L  LR L 
Sbjct: 109  N-------SIRQIEVGAFNGLASLNTLELFD-NWLTVIPSG-------AFEYLSKLRELW 153

Query: 955  CQ-NLLSLLPSSSVSFRNLTRLETFACKKL----MNLLTSSKAKSLERLVSLRIFGCPAM 1009
             + N +  +PS   +F  +  L       L    +  L      + E L +L+       
Sbjct: 154  LRNNPIESIPSY--AFNRVPSLMR-----LDLGELKKLEYISEGAFEGLFNLK------- 199

Query: 1010 TEVIISDEDETANLKEEIVFSKLSALSLFDLDS--LTSFSSGNYAFK-LPSLQDLW 1062
              + +       N+K+    + L  L   ++          G  +F  L SL+ LW
Sbjct: 200  -YLNLGM----CNIKDMPNLTPLVGLEELEMSGNHFPEIRPG--SFHGLSSLKKLW 248

>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 = 44/264 (16%), Positives = 78/264 (29%), Gaps = 57/264 (21%)

Query: 531 NIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
            I  + F+ +  L V+ L R  +  +       L  L  L+L D   L  I        +
Sbjct: 89  MIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDN-WLTVIPSGAFEYLS 147

Query: 590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDD-SILPDGLFT--K 646
           +L EL++ +  I            +        +  L  L++        + +G F    
Sbjct: 148 KLRELWLRNNPI-----------ESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLF 196

Query: 647 KLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMAL-ELNAINVDEIWHYNQLP 705
            L+  ++                     NI+ +     ++ L EL           N  P
Sbjct: 197 NLKYLNLG------------MC------NIKDMPNLTPLVGLEELEM-------SGNHFP 231

Query: 706 AMVP-CFQ---SLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTD 761
            + P  F    SL +L V    ++  I   +    L  L  L +     L  +       
Sbjct: 232 EIRPGSFHGLSSLKKLWVMNS-QVSLI-ERNAFDGLASLVELNLAHNN-LSSL------- 281

Query: 762 QVTAYFVFPRVTTLKLDGLPELRC 785
               +     +  L L   P   C
Sbjct: 282 PHDLFTPLRYLVELHLHHNP-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 = 45.5 bits (108), Expect = 8e-05
 Identities = 71/360 (19%), Positives = 113/360 (31%), Gaps = 121/360 (33%)

Query: 542 KLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSI 601
           +   V  TR  L  +P  I   +  R L+L +   ++ I  +       LE L +G  SI
Sbjct: 55  QFSKVVCTRRGLSEVPQGI--PSNTRYLNLMEN-NIQMIQADTFRHLHHLEVLQLGRNSI 111

Query: 602 KWEVRKGNSERSNASLDE--LMHLQRLTTLEIDVEDDSILPDGLFT--KKLERFDISIGD 657
           +              ++      L  L TLE+     +++P G F    KL    +    
Sbjct: 112 R-------------QIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLR--- 155

Query: 658 GSFDSTKIIGNDWFQTFNIQSI--YIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLT 715
                     N       I+SI  Y F                   N++P       SL 
Sbjct: 156 ---------NN------PIESIPSYAF-------------------NRVP-------SLM 174

Query: 716 RLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTL 775
           RL +    KL+YI S    + L  L++L           +       +            
Sbjct: 175 RLDLGELKKLEYI-SEGAFEGLFNLKYL----------NLGMCNIKDMPN---------- 213

Query: 776 KLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKIL 835
            L  L  L  L                        +S N     F         SF   L
Sbjct: 214 -LTPLVGLEELE-----------------------MSGN----HFPEI---RPGSFHG-L 241

Query: 836 PNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSD 895
            +L+ L +    +++I ++ F   L  SL +L +  ++L+  P DL      L  L+L  
Sbjct: 242 SSLKKLWVMNSQVSLIERNAF-DGL-ASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHH 299

>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 = 61.4 bits (149), Expect = 1e-09
 Identities = 76/542 (14%), Positives = 147/542 (27%), Gaps = 117/542 (21%)

Query: 532  IPDNFFKGMKKLRVVDLTRVRLFSLPSS-IGQLTKLRMLDLTDCLQLKFIVPNILSSFTR 590
            +P +  +    L   ++++  +  L +S I  L+KLR+L ++   +++++  ++      
Sbjct: 15   VPKDLSQKTTIL---NISQNYISELWTSDILSLSKLRILIISHN-RIQYLDISVFKFNQE 70

Query: 591  LEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLER 650
            LE L +    +              S         L  L++       LP          
Sbjct: 71   LEYLDLSHNKLV-----------KISCH---PTVNLKHLDLSFNAFDALPIC-------- 108

Query: 651  FDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPC 710
                     F +             ++ + +                      L      
Sbjct: 109  -------KEFGNMS----------QLKFLGL------------------STTHLEKSSVL 133

Query: 711  -FQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVF 769
                L    V       Y       +  E LQ       +SL  +   N+          
Sbjct: 134  PIAHLNISKVLLVLGETYGEK----EDPEGLQDFNT---ESLHIVFPTNKEFHFILDVSV 186

Query: 770  PRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLF 829
              V  L+L  +  +               K         +TL+  +      +   Q ++
Sbjct: 187  KTVANLELSNIKCV-LEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVW 245

Query: 830  SFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQL---RVGDDDLACFPLDLLERFH 886
                    +   ++S   +   L      +   SLK L   +V  D        + E F 
Sbjct: 246  -----HTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFS 300

Query: 887  NLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQH 946
            N+     +     +V            K++    L+ +  N L                H
Sbjct: 301  NMNIKNFTVSGTRMVHMLC------PSKISPFLHLDFSN-NLLTDTVFE-------NCGH 346

Query: 947  LQILRVLHCQ-NLLSLLPSSSVSFRNLTRLETFAC--KKLMNLLTSSKAKSLERLVSLRI 1003
            L  L  L  Q N L  L   +     +  L+        +            + L+SL +
Sbjct: 347  LTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNM 406

Query: 1004 FGCPAMTEVIISDEDETANLKEEIVFSKL-SALSLFDLDS--LTSFSSGNYAFKLPSLQD 1060
                              N+  + +F  L   + + DL S  + S        KL +LQ+
Sbjct: 407  SS----------------NILTDTIFRCLPPRIKVLDLHSNKIKSIPKQ--VVKLEALQE 448

Query: 1061 LW 1062
            L 
Sbjct: 449  LN 450

>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 = 56.0 bits (135), Expect = 4e-08
 Identities = 66/496 (13%), Positives = 139/496 (28%), Gaps = 74/496 (14%)

Query: 513  CPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDL 571
              +L  L I   +I      +  + FK  ++L  +DL+  +L  +         L+ LDL
Sbjct: 44   LSKLRILIISHNRIQ----YLDISVFKFNQELEYLDLSHNKLVKISC--HPTVNLKHLDL 97

Query: 572  TDCLQLKFI-VPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLE 630
                    + +     + ++L+ L + +  ++            +S+  + HL     L 
Sbjct: 98   -SFNAFDALPICKEFGNMSQLKFLGLSTTHLE-----------KSSVLPIAHLNISKVL- 144

Query: 631  IDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALEL 690
                        L   +              +T+ +   +        I    +     L
Sbjct: 145  ------------LVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANL 192

Query: 691  NAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKS 750
               N+  +   N+    +     L               +         ++ L++    +
Sbjct: 193  ELSNIKCVLEDNKCSYFLSILAKLQTNPKL----SNLTLNNIETTWNSFIRILQLVWHTT 248

Query: 751  LQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKIT 810
            +      N   Q    F     +   L  L   + +       +    +     N    T
Sbjct: 249  VWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFT 308

Query: 811  LSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVG 870
            +S            +         +     L  S   +T  + ++        L+ L + 
Sbjct: 309  VSGT----------RMVHMLCPSKISPFLHLDFSNNLLTDTVFENC--GHLTELETLILQ 356

Query: 871  DDDLACFPL--DLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNH 928
             + L       ++  +  +L+ L +S  S                        + +    
Sbjct: 357  MNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKG----------------DCSWTKS 400

Query: 929  LQQLWKHDSKELDFIFQHL-QILRVLHCQ-NLLSLLPSSSVSFRNLTRLETFACKKLMNL 986
            L  L    +   D IF+ L   ++VL    N +  +P   V    L  L   +     N 
Sbjct: 401  LLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVAS-----NQ 455

Query: 987  LTSSKAKSLERLVSLR 1002
            L S      +RL SL+
Sbjct: 456  LKSVPDGIFDRLTSLQ 471

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 59.3 bits (144), Expect = 3e-09
 Identities = 71/415 (17%), Positives = 127/415 (30%), Gaps = 116/415 (27%)

Query: 525 ITFAELNIPDNF-FKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVP 582
           I     ++   F    +   ++V      +  LP+++     ++ +L+L D  Q++ I  
Sbjct: 28  IDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDT 86

Query: 583 NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDE--LMHLQRLTTLEIDVEDDSILP 640
              +    +++LYMG  +I+              L      ++  LT L ++  D S LP
Sbjct: 87  YAFAYAHTIQKLYMGFNAIR-------------YLPPHVFQNVPLLTVLVLERNDLSSLP 133

Query: 641 DGLFTK--KLERFDIS------IGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNA 692
            G+F    KL    +S      I D +F +T           ++Q++ +           
Sbjct: 134 RGIFHNTPKLTTLSMSNNNLERIEDDTFQATT----------SLQNLQL----------- 172

Query: 693 INVDEIWHYNQLPAMVP-CFQSLTRLIVWGCDKLKYIFSASTIQSLE----QLQHLEIRL 747
                    N+L  +      SL    V     L  +     ++ L+     +  +   +
Sbjct: 173 -------SSNRLTHVDLSLIPSLFHANVSYN-LLSTLAIPIAVEELDASHNSINVVRGPV 224

Query: 748 CKSLQEI-ISENRTDQVTAYFVFPRVTTLKL-------------DGLPELRCLY------ 787
              L  + +  N          +P +  + L               +  L  LY      
Sbjct: 225 NVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRL 284

Query: 788 ---PGMHTSEWPALKNLVACNCDKITLSQND----ENDQFGVPAQQPLFSFKKILPNLEG 840
                      P LK L         LS N     E +Q                  LE 
Sbjct: 285 VALNLY-GQPIPTLKVL--------DLSHNHLLHVERNQPQ-------------FDRLEN 322

Query: 841 LALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSD 895
           L L    I  +           +LK L +  +D  C  L  L  F N+    + D
Sbjct: 323 LYLDHNSIVTL-----KLSTHHTLKNLTLSHNDWDCNSLRAL--FRNVARPAVDD 370

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 55.1 bits (133), Expect = 7e-08
 Identities = 24/117 (20%), Positives = 49/117 (41%), Gaps = 7/117 (5%)

Query: 487 DGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRV 545
            G    +   + L ++++ + +     P L  + +   ++      I  + F  M++L  
Sbjct: 221 RGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELE----KIMYHPFVKMQRLER 276

Query: 546 VDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIK 602
           + ++  RL +L      +  L++LDL+    L  +       F RLE LY+   SI 
Sbjct: 277 LYISNNRLVALNLYGQPIPTLKVLDLSHN-HLLHV-ERNQPQFDRLENLYLDHNSIV 331

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 43.1 bits (102), Expect = 4e-04
 Identities = 44/305 (14%), Positives = 95/305 (31%), Gaps = 65/305 (21%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQ-LTKLRMLDL 571
           P L  L ++   ++    ++P   F    KL  + ++   L  +     Q  T L+ L L
Sbjct: 117 PLLTVLVLERNDLS----SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQL 172

Query: 572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEI 631
           +   +L  +     S    L    +    +              +L   + ++ L     
Sbjct: 173 SSN-RLTHVDL---SLIPSLFHANVSYNLLS-------------TLAIPIAVEEL----- 210

Query: 632 DVEDDSI--LPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTF-----------NIQS 678
           D   +SI  +   +   +L    +           +    W   +            ++ 
Sbjct: 211 DASHNSINVVRGPVNV-ELTILKLQ-------HNNLTDTAWLLNYPGLVEVDLSYNELEK 262

Query: 679 IYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCD--KLKYI----FSAS 732
           I     V    L  + +      N+L A+    Q +  L V       L ++        
Sbjct: 263 IMYHPFVKMQRLERLYI----SNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFD 318

Query: 733 TIQSLE----QLQHLEIRLCKSLQEI-ISENRTDQVTAYFVFPRVTTLKLDGLPE-LRCL 786
            +++L      +  L++    +L+ + +S N  D  +   +F  V    +D   +  +  
Sbjct: 319 RLENLYLDHNSIVTLKLSTHHTLKNLTLSHNDWDCNSLRALFRNVARPAVDDADQHCKID 378

Query: 787 YPGMH 791
           Y   H
Sbjct: 379 YQLEH 383

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 42.0 bits (99), Expect = 9e-04
 Identities = 42/186 (22%), Positives = 71/186 (38%), Gaps = 26/186 (13%)

Query: 823  PAQQPLFSFKKILPNLEGLALSGKDITMILQDDF--PQHL-FGSLKQLRVGDDDLACFPL 879
            P Q         L            I M  QD +   + +   + K +   +  +   P 
Sbjct: 5    PRQPEYKCIDSNLQYD--CVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPA 62

Query: 880  DLLERFHNLEFLYLSDCSYEVVFSNEGYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSK 938
             LL+ F  +E L L+D   E        ++T+A      I++L +   N ++ L  H   
Sbjct: 63   ALLDSFRQVELLNLNDLQIEE-------IDTYAFAYAHTIQKLYMGF-NAIRYLPPH--- 111

Query: 939  ELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLER 997
                +FQ++ +L VL   +N LS LP     F N  +L T +     N L   +  + + 
Sbjct: 112  ----VFQNVPLLTVLVLERNDLSSLPRG--IFHNTPKLTTLSMSN--NNLERIEDDTFQA 163

Query: 998  LVSLRI 1003
              SL+ 
Sbjct: 164  TTSLQN 169

>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 = 58.8 bits (142), Expect = 7e-09
 Identities = 79/598 (13%), Positives = 165/598 (27%), Gaps = 157/598 (26%)

Query: 497  ISLLNSSIHEVSLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFS 555
            I +    ++    +      + +      +      +P       +++ +++L  +++  
Sbjct: 34   IDMQTQDVYFGFEDITLNNQKIVTFKNSTMR----KLPAALLDSFRQVELLNLNDLQIEE 89

Query: 556  LPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSN 614
            + +        ++ L +     ++++ P++  +   L  L +    +             
Sbjct: 90   IDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTVLVLERNDL------------- 135

Query: 615  ASLDELMHLQRLTTLEIDVEDDSILPDGLFTK--KLERFDIS------IGDGSFDSTKII 666
                                  S LP G+F    KL    +S      I D +F +T   
Sbjct: 136  ----------------------SSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATT-- 171

Query: 667  GNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVP--CFQSLTRLIVWGCDK 724
                    ++Q++ +                    N+L   V      SL    V     
Sbjct: 172  --------SLQNLQL------------------SSNRL-THVDLSLIPSLFHANVSYN-L 203

Query: 725  LKYIFSASTIQSLE----QLQHLEIRLCKSLQEI-ISENRTDQVTAYFVFPRVTTLKLD- 778
            L  +     ++ L+     +  +   +   L  + +  N          +P +  + L  
Sbjct: 204  LSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSY 263

Query: 779  ------------GLPELRCLY---------PGMHTSEWPALKNLVACNCDKITLSQND-- 815
                         +  L  LY                 P LK L         LS N   
Sbjct: 264  NELEKIMYHPFVKMQRLERLYISNNRLVALNLY-GQPIPTLKVL--------DLSHNHLL 314

Query: 816  --ENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDD 873
              E +Q                  LE L L    I  +           +LK L +  +D
Sbjct: 315  HVERNQPQ-------------FDRLENLYLDHNSIVTL-----KLSTHHTLKNLTLSHND 356

Query: 874  LACFPLDLLERFHNLEFLYLSD----CSYEVVFSNEGYLETHARKLA--LIKRLNLTRLN 927
              C  L  L  F N+    + D    C  +    +    +   +     L++ + LT + 
Sbjct: 357  WDCNSLRAL--FRNVARPAVDDADQHCKIDYQLEHGLCCKESDKPYLDRLLQYIALTSVV 414

Query: 928  HLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLL 987
               Q  +      D       I  V    + ++      +        E    +  +  L
Sbjct: 415  EKVQRAQGRCSATD------TINSVQSLSHYITQQGGVPLQGNEQLEAEVNELRAEVQQL 468

Query: 988  TSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEI--VFSKLSALSLFDLDSL 1043
            T+ + +  + L  L       +    +  +D  A   + +  VF+ L     F L   
Sbjct: 469  TNEQIQQEQLLQGLHAEIDTNLRRYRLP-KDGLARSSDNLNKVFTHLKERQAFKLRET 525

>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 = 54.2 bits (130), Expect = 2e-07
 Identities = 24/117 (20%), Positives = 49/117 (41%), Gaps = 7/117 (5%)

Query: 487 DGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRV 545
            G    +   + L ++++ + +     P L  + +   ++      I  + F  M++L  
Sbjct: 227 RGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELE----KIMYHPFVKMQRLER 282

Query: 546 VDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIK 602
           + ++  RL +L      +  L++LDL+    L  +       F RLE LY+   SI 
Sbjct: 283 LYISNNRLVALNLYGQPIPTLKVLDLSHN-HLLHV-ERNQPQFDRLENLYLDHNSIV 337

>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 = 57.8 bits (140), Expect = 1e-08
 Identities = 54/243 (22%), Positives = 90/243 (37%), Gaps = 36/243 (14%)

Query: 835  LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS 894
            L NL  L +S   I ++L   F Q L  +LK L VGD+DL           ++LE L L 
Sbjct: 103  LSNLTKLDISENKIVILLDYMF-QDL-YNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLE 160

Query: 895  DCSYEVV----FSNEGYLET---HARKLALIKRLNLTRLNHLQQLWKHDSKELDFI---F 944
             C+   +     S+   L         +  I+  +  RL  L+ L       LD +    
Sbjct: 161  KCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNC 220

Query: 945  QHLQILRVLHC-QNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRI 1003
             +   L  L      L+ +P    + R+L  L         N +++ +   L  L+ L+ 
Sbjct: 221  LYGLNLTSLSITHCNLTAVPYL--AVRHLVYLRFLNLSY--NPISTIEGSMLHELLRLQ- 275

Query: 1004 FGCPAMTEVIISDEDETANLK--EEIVFSKLSALSLFDLDS--LTSFSSGNYAFK-LPSL 1058
                   E+ +        L   E   F  L+ L + ++    LT+       F  + +L
Sbjct: 276  -------EIQLVG----GQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEES--VFHSVGNL 322

Query: 1059 QDL 1061
            + L
Sbjct: 323  ETL 325

>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 = 56.6 bits (137), Expect = 3e-08
 Identities = 73/366 (19%), Positives = 121/366 (33%), Gaps = 88/366 (24%)

Query: 544 RVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKW 603
           R V   R R  ++P  I   T+ R+LDL    ++K +  +  +SF  LEEL +    +  
Sbjct: 14  RAVLCHRKRFVAVPEGI--PTETRLLDLGKN-RIKTLNQDEFASFPHLEELELNENIV-- 68

Query: 604 EVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFT--KKLERFDIS------I 655
                    S        +L  L TL +      ++P G+FT    L + DIS      +
Sbjct: 69  ---------SAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVIL 119

Query: 656 GDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVP-CFQ-- 712
            D  F              N++S+ +                    N L  +    F   
Sbjct: 120 LDYMFQDLY----------NLKSLEV------------------GDNDLVYISHRAFSGL 151

Query: 713 -SLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAY-FVF- 769
            SL +L +  C  L  I     +  L  L  L           +     + +  Y F   
Sbjct: 152 NSLEQLTLEKC-NLTSI-PTEALSHLHGLIVLR----------LRHLNINAIRDYSFKRL 199

Query: 770 PRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLF 829
            R+  L++   P L  + P         L  L   N   ++++  +      VP      
Sbjct: 200 YRLKVLEISHWPYLDTMTPN-------CLYGL---NLTSLSITHCNLTA---VPYL---- 242

Query: 830 SFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLE 889
           + +  L  L  L LS   I+ I        L   L+++++    LA          + L 
Sbjct: 243 AVRH-LVYLRFLNLSYNPISTIEGSML-HEL-LRLQEIQLVGGQLAVVEPYAFRGLNYLR 299

Query: 890 FLYLSD 895
            L +S 
Sbjct: 300 VLNVSG 305

>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 = 55.5 bits (134), Expect = 7e-08
 Identities = 53/328 (16%), Positives = 104/328 (31%), Gaps = 80/328 (24%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDL 571
           P LE L ++   ++     +    F  +  LR + L   RL  +P  +   L+ L  LD+
Sbjct: 56  PHLEELELNENIVS----AVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDI 111

Query: 572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEI 631
           ++  ++  ++  +      L+ L +G   +              S      L  L  L +
Sbjct: 112 SEN-KIVILLDYMFQDLYNLKSLEVGDNDL-----------VYISHRAFSGLNSLEQLTL 159

Query: 632 DVEDDSILPDGLFT--KKLERFDIS------IGDGSFDS--------------TKIIGND 669
           +  + + +P    +    L    +       I D SF                   +  +
Sbjct: 160 EKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPN 219

Query: 670 WFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPC--FQSLTRLIVWGCD--KL 725
                N+ S+ I                   +  L   VP    + L  L         +
Sbjct: 220 CLYGLNLTSLSI------------------THCNL-TAVPYLAVRHLVYLRFLNLSYNPI 260

Query: 726 KYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRC 785
             I   S +  L +LQ +++   + L  +       +  A+     +  L + G  +L  
Sbjct: 261 STI-EGSMLHELLRLQEIQLVGGQ-LAVV-------EPYAFRGLNYLRVLNVSG-NQLTT 310

Query: 786 LYPGMHTSEWPALKNLV------ACNCD 807
           L   +  S    L+ L+      AC+C 
Sbjct: 311 LEESVFHS-VGNLETLILDSNPLACDCR 337

>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 = 48.6 bits (116), Expect = 8e-06
 Identities = 54/255 (21%), Positives = 89/255 (34%), Gaps = 53/255 (20%)

Query: 843  LSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVV- 901
               K    +     P+ +    + L +G + +     D    F +LE L L++     V 
Sbjct: 18   CHRKRFVAV-----PEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVE 72

Query: 902  ---FSNEGYLET---HARKLALIKRLNLTRLNHLQQLWKHD---SKELDFIFQHLQILRV 952
               F+N   L T    + +L LI     T L++L +L   +      LD++FQ L  L+ 
Sbjct: 73   PGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKS 132

Query: 953  LHCQ-NLLSLLPSSSVSFRNLTRLETFACKKLM---NLLTSSKAKSLERLVSLRIF---- 1004
            L    N L  +     +F  L  LE      L      LTS   ++L  L  L +     
Sbjct: 133  LEVGDNDLVYISHR--AFSGLNSLEQ-----LTLEKCNLTSIPTEALSHLHGLIVLRLRH 185

Query: 1005 ------------GCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLD----SLTSFSS 1048
                            +  + IS         + +  + L  L+L  L     +LT+   
Sbjct: 186  LNINAIRDYSFKRLYRLKVLEISH----WPYLDTMTPNCLYGLNLTSLSITHCNLTAVPY 241

Query: 1049 GNYAFK-LPSLQDLW 1062
               A + L  L+ L 
Sbjct: 242  L--AVRHLVYLRFLN 254

>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 = 57.2 bits (138), Expect = 2e-08
 Identities = 61/436 (13%), Positives = 126/436 (28%), Gaps = 84/436 (19%)

Query: 491 LKKCYAISLLNSSIHEVSLEFECPQLEFLHI-DPKITFAELNIPDNFFKGMKKLRVVDL- 548
           L  C   S     +  ++    C  L+ L + +  +     +   +F      L  +++ 
Sbjct: 137 LSSCEGFS--TDGLAAIAAT--CRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNIS 192

Query: 549 ---TRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEV 605
              + V   +L   + +   L+ L L   + L+ +   +L    +LEEL  G  +     
Sbjct: 193 CLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLAT-LLQRAPQLEELGTGGYT----- 246

Query: 606 RKGNSERSNASLDELMHLQRLTTLEI--DVEDDSILPDGLFTKKLERFDISIGDGSFDST 663
            +   +  +     L   + L  L    D     +        +L   ++S         
Sbjct: 247 AEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLS-------YA 299

Query: 664 KIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCD 723
            +   D  +           +    +L  + V +      L  +    + L  L V+  +
Sbjct: 300 TVQSYDLVK----------LLCQCPKLQRLWVLDYIEDAGLEVLASTCKDLRELRVFPSE 349

Query: 724 KLKYIFSAS-TIQSLEQLQHLEIRLCKSLQEIISENR--TDQVTAYFV--FPRVTTLKLD 778
                 + + T Q L  +       C  L+ ++   R  T+          P +T  +L 
Sbjct: 350 PFVMEPNVALTEQGLVSV----SMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLC 405

Query: 779 GLPELRCLYPGMH---------TSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLF 829
            +      Y  +                L+ L       +T               +   
Sbjct: 406 IIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGL--LTD--------------KVFE 449

Query: 830 SFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLR--------VGDDDLACFPLDL 881
                   +E L+++    +    D    H+      LR         GD  L    L  
Sbjct: 450 YIGTYAKKMEMLSVAFAGDS----DLGMHHVLSGCDSLRKLEIRDCPFGDKAL----LAN 501

Query: 882 LERFHNLEFLYLSDCS 897
             +   +  L++S CS
Sbjct: 502 ASKLETMRSLWMSSCS 517

>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 = 45.7 bits (108), Expect = 7e-05
 Identities = 49/326 (15%), Positives = 79/326 (24%), Gaps = 48/326 (14%)

Query: 704  LPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEI--RLCKSLQEI-ISENR- 759
               ++  F  +  + + G                     +E        L+EI +     
Sbjct: 58   PATVIRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVV 117

Query: 760  TDQVTAYFV--FPRVTTLKLDGLPELRCLYPGMHTSEWPALK--NLVACNCDKITLSQND 815
            TD         F     L L               +    LK  +L   + D ++     
Sbjct: 118  TDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSG---- 173

Query: 816  ENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLR------- 868
                        L  F     +L  L +S   +   +     + L      L+       
Sbjct: 174  ----------HWLSHFPDTYTSLVSLNISC--LASEVSFSALERLVTRCPNLKSLKLNRA 221

Query: 869  VGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNH 928
            V  + LA     LL+R   LE L     + EV       L                 L  
Sbjct: 222  VPLEKLAT----LLQRAPQLEELGTGGYTAEVRPDVYSGLSVALS--------GCKELRC 269

Query: 929  LQQLWKHDSKELDFIFQHLQILRVLH---CQNLLSLLPSSSVSFRNLTRLETFACKKLMN 985
            L   W      L  ++     L  L+          L         L RL       + +
Sbjct: 270  LSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWV--LDYIED 327

Query: 986  LLTSSKAKSLERLVSLRIFGCPAMTE 1011
                  A + + L  LR+F       
Sbjct: 328  AGLEVLASTCKDLRELRVFPSEPFVM 353

>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 = 44.9 bits (106), Expect = 1e-04
 Identities = 60/426 (14%), Positives = 122/426 (28%), Gaps = 94/426 (22%)

Query: 704  LPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEI-----------------R 746
            L  +   F++   L++  C+       A+   +   L+ L++                  
Sbjct: 122  LELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPD 181

Query: 747  LCKSLQEIISENRTDQVTAYFVF------PRVTTLKLDGLPELRCLYPGMHTSEWPALKN 800
               SL  +       +V+   +       P + +LKL+    L  L   +  +  P L+ 
Sbjct: 182  TYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRA--PQLEE 239

Query: 801  LVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGL-ALSG-KDITMILQDDFPQ 858
            L                                 L   + L  LSG  D        +  
Sbjct: 240  LGTGGYTAEVRPDVYS-------------GLSVALSGCKELRCLSGFWDAV----PAYLP 282

Query: 859  HLFGSLKQLR--------VGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLET 910
             ++    +L         V   DL    + LL +   L+ L++ D        + G LE 
Sbjct: 283  AVYSVCSRLTTLNLSYATVQSYDL----VKLLCQCPKLQRLWVLDY-----IEDAG-LEV 332

Query: 911  HARKLALIKRLNLTRLNHLQQLWKHD--SKELDFIFQHLQILRVL--HCQNL----LSLL 962
             A     ++ L +                + L  +      L  +   C+ +    L  +
Sbjct: 333  LASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAALITI 392

Query: 963  PSSSVSFR--NLTRLETFACKKLMNLLT----SSKAKSLERLVSLRIFGC---------- 1006
              +  +     L  +E  A   L          +  +  + L  L + G           
Sbjct: 393  ARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYIG 452

Query: 1007 ---PAMTEVIISDEDET-ANLKEEIVFSKLSALSLFDLDS--LTSFSSGNYAFKLPSLQD 1060
                 M  + ++   ++   +    V S   +L   ++        +    A KL +++ 
Sbjct: 453  TYAKKMEMLSVAFAGDSDLGMHH--VLSGCDSLRKLEIRDCPFGDKALLANASKLETMRS 510

Query: 1061 LWVIGC 1066
            LW+  C
Sbjct: 511  LWMSSC 516

>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 = 55.9 bits (135), Expect = 2e-08
 Identities = 31/139 (22%), Positives = 52/139 (37%), Gaps = 24/139 (17%)

Query: 537 FKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYM 596
              +  L  +DL+  +L SLP     L  L +LD++   +L  +    L     L+ELY+
Sbjct: 73  DGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYL 131

Query: 597 GSCSIKWEVRKGNSERSNASLDE--LMHLQRLTTLEIDVEDDSILPDGLFTK--KLERFD 652
               +K             +L    L    +L  L +   + + LP GL      L+   
Sbjct: 132 KGNELK-------------TLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLL 178

Query: 653 I------SIGDGSFDSTKI 665
           +      +I  G F S  +
Sbjct: 179 LQENSLYTIPKGFFGSHLL 197

>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 = 53.2 bits (128), Expect = 1e-07
 Identities = 45/239 (18%), Positives = 76/239 (31%), Gaps = 57/239 (23%)

Query: 835  LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS 894
            + +   +    +++T +     P  L      L + ++ L  F L  L  +  L  L L 
Sbjct: 9    VASHLEVNCDKRNLTAL-----PPDLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLD 63

Query: 895  DCSYEV--VFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRV 952
                    V             L ++  L+L+  N LQ L          + Q L  L V
Sbjct: 64   RAELTKLQVDG----------TLPVLGTLDLSH-NQLQSL--------PLLGQTLPALTV 104

Query: 953  LH-CQNLLSLLPSSSVSFRNLTRLETFACKKLM---NLLTSSKAKSLERLVSLRIFGCPA 1008
            L    N L+ LP  +   R L  L     ++L    N L +     L     L       
Sbjct: 105  LDVSFNRLTSLPLGA--LRGLGEL-----QELYLKGNELKTLPPGLLTPTPKL------- 150

Query: 1009 MTEVIISDEDETANLKEEI---VFSKLSALSLFDLDS--LTSFSSGNYAFKLPSLQDLW 1062
              ++ +++     N   E+   + + L  L    L    L +   G   F    L   +
Sbjct: 151  -EKLSLAN-----NNLTELPAGLLNGLENLDTLLLQENSLYTIPKG--FFGSHLLPFAF 201

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 56.4 bits (136), Expect = 3e-08
 Identities = 24/148 (16%), Positives = 47/148 (31%), Gaps = 17/148 (11%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDL 571
             L  L +    +      I    F  +  LR +DL+   L +L   +   L  L +L L
Sbjct: 64  TNLHSLLLSHNHLN----FISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLL 119

Query: 572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEI 631
                +  +  N      +L++LY+    I               + +   L +L  L++
Sbjct: 120 -YNNHIVVVDRNAFEDMAQLQKLYLSQNQISR-FPVE-------LIKDGNKLPKLMLLDL 170

Query: 632 DVEDDSILPDGLFT--KKLERFDISIGD 657
                  LP           +  + + +
Sbjct: 171 SSNKLKKLPLTDLQKLPAWVKNGLYLHN 198

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 44.8 bits (106), Expect = 1e-04
 Identities = 24/144 (16%), Positives = 41/144 (28%), Gaps = 28/144 (19%)

Query: 533 PDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFTRL 591
            +     +  L  + L+   L  + S     +  LR LDL+    L  +   + S    L
Sbjct: 56  AEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSN-HLHTLDEFLFSDLQAL 114

Query: 592 EELYMGSCSIKWEVRKGNSERSNASLDE--LMHLQRLTTLEIDVEDDSILPDGLFT---- 645
           E L + +  I               +D      + +L  L +     S  P  L      
Sbjct: 115 EVLLLYNNHIV-------------VVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNK 161

Query: 646 -KKLERFDI------SIGDGSFDS 662
             KL   D+       +       
Sbjct: 162 LPKLMLLDLSSNKLKKLPLTDLQK 185

>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 = 55.7 bits (135), Expect = 3e-08
 Identities = 48/236 (20%), Positives = 74/236 (31%), Gaps = 74/236 (31%)

Query: 532 IPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFI--------VPN 583
           +PD   +    L  + L R  L +LP+SI  L +LR L +  C +L  +           
Sbjct: 119 LPDTMQQ-FAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASG 177

Query: 584 ILSSFTRLEELYMGSCSIKWEVRKGNSERSNASL-DELMHLQRLTTLEIDVEDDSILPDG 642
                  L+ L +    I+             SL   + +LQ L +L+I     S L   
Sbjct: 178 EHQGLVNLQSLRLEWTGIR-------------SLPASIANLQNLKSLKIRNSPLSALGPA 224

Query: 643 LFT-KKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHY 701
           +    KLE  D+                                                
Sbjct: 225 IHHLPKLEELDLR---------------------------------------------GC 239

Query: 702 NQL---PAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEI 754
             L   P +      L RLI+  C  L  +     I  L QL+ L++R C +L  +
Sbjct: 240 TALRNYPPIFGGRAPLKRLILKDCSNLLTL--PLDIHRLTQLEKLDLRGCVNLSRL 293

>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 = 55.3 bits (134), Expect = 5e-08
 Identities = 34/240 (14%), Positives = 65/240 (27%), Gaps = 58/240 (24%)

Query: 532 IPDNFFKG-MKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTR 590
             D            ++L  V L   P    +L+ L+ + +     L  + P+ +  F  
Sbjct: 71  TADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAA-GLMEL-PDTMQQFAG 128

Query: 591 LEELYMGSCSIKWEVRKGNSERSNASL-DELMHLQRLTTLEIDVEDDSILPDGLFTKKLE 649
           LE L +    ++             +L   +  L RL  L   +             +L 
Sbjct: 129 LETLTLARNPLR-------------ALPASIASLNRLREL--SIRACP---------ELT 164

Query: 650 RFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINV--DEIW-------- 699
                +             +     N+QS+ +           I      I         
Sbjct: 165 ELPEPLASTD------ASGEHQGLVNLQSLRLEW-------TGIRSLPASIANLQNLKSL 211

Query: 700 --HYNQ---LPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEI 754
               +    L   +     L  L + GC  L+             L+ L ++ C +L  +
Sbjct: 212 KIRNSPLSALGPAIHHLPKLEELDLRGCTALRNY--PPIFGGRAPLKRLILKDCSNLLTL 269

>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 = 51.1 bits (123), Expect = 9e-07
 Identities = 17/72 (23%), Positives = 30/72 (41%), Gaps = 3/72 (4%)

Query: 532 IPDNFFKGMKKLRVVDLTRV-RLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTR 590
            P  F      L+ + L     L +LP  I +LT+L  LDL  C+ L  + P++++    
Sbjct: 245 YPPIFGG-RAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRL-PSLIAQLPA 302

Query: 591 LEELYMGSCSIK 602
              + +      
Sbjct: 303 NCIILVPPHLQA 314

>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 = 49.2 bits (118), Expect = 3e-06
 Identities = 34/228 (14%), Positives = 66/228 (28%), Gaps = 44/228 (19%)

Query: 537 FKGMKKLRVVDLTRVRLFSLPSSIGQLT--KLRMLDLTDCLQLKFIVPNILSSFTRLEEL 594
                  ++   T   L +    +   T      L+L     L    P+     + L+ +
Sbjct: 52  QANSNNPQIETRTGRALKATADLLEDATQPGRVALELRSV-PLPQF-PDQAFRLSHLQHM 109

Query: 595 YMGSCSIKWEVRKGNSERSNASL-DELMHLQRLTTLEIDVEDDSILPDGLFT-KKLERFD 652
            + +  +               L D +     L TL +       LP  + +  +L    
Sbjct: 110 TIDAAGLM-------------ELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELS 156

Query: 653 ISIGDGSFDSTKIIGNDWFQTF--NIQSIYIFCIVMALE-LNAINVDEIWHYNQ---LPA 706
           I                        + S         L  L ++ +     +     LPA
Sbjct: 157 IR------------ACPELTELPEPLASTDASGEHQGLVNLQSLRL----EWTGIRSLPA 200

Query: 707 MVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEI 754
            +   Q+L  L +     L  +     I  L +L+ L++R C +L+  
Sbjct: 201 SIANLQNLKSLKIRNS-PLSAL--GPAIHHLPKLEELDLRGCTALRNY 245

>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 = 44.9 bits (107), Expect = 8e-05
 Identities = 60/311 (19%), Positives = 100/311 (32%), Gaps = 51/311 (16%)

Query: 773  TTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFK 832
              L   G   LR  +  +  S+W    N             N  N Q      + L +  
Sbjct: 15   ENLYFQGSTALRPYHDVL--SQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATA 72

Query: 833  KIL-----PNLEGLALSGKDITMILQDDFPQHLFG--SLKQLRVGDDDLACFPLDLLERF 885
             +L     P    L L    +        P   F    L+ + +    L   P D +++F
Sbjct: 73   DLLEDATQPGRVALELRSVPLPQF-----PDQAFRLSHLQHMTIDAAGLMELP-DTMQQF 126

Query: 886  HNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQL----WKHDSKELD 941
              LE L L+      + ++   L     +L   + L++     L +L       D+    
Sbjct: 127  AGLETLTLARNPLRALPASIASL----NRL---RELSIRACPELTELPEPLASTDASGEH 179

Query: 942  FIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTS--SKAKSLERLV 999
                +LQ LR L     +  LP+S     NL  L++   +   + L++       L +L 
Sbjct: 180  QGLVNLQSLR-LEW-TGIRSLPAS---IANLQNLKSLKIRN--SPLSALGPAIHHLPKLE 232

Query: 1000 SLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSF--SSGNYAFKLPS 1057
             L + GC A+                    + L  L L D  +L +           L  
Sbjct: 233  ELDLRGCTALRNY----PPIFGGR------APLKRLILKDCSNLLTLPLDIHR----LTQ 278

Query: 1058 LQDLWVIGCPK 1068
            L+ L + GC  
Sbjct: 279  LEKLDLRGCVN 289

>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 = 54.0 bits (130), Expect = 1e-07
 Identities = 35/240 (14%), Positives = 80/240 (33%), Gaps = 39/240 (16%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI--GQLTKLRMLD 570
             LE L +    ++    N+  ++FK +  L  ++L      +L  +     LTKL++L 
Sbjct: 100 GSLEHLDLSYNYLS----NLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILR 155

Query: 571 LTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLE 630
           + +      I     +  T LEEL + +  +              SL     +Q ++ L 
Sbjct: 156 VGNMDTFTKIQRKDFAGLTFLEELEIDASDL--------QSYEPKSLK---SIQNVSHLI 204

Query: 631 IDVEDDSILPDGLFTK--KLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMAL 688
           + ++   +L +        +E  ++               D F    + +     ++   
Sbjct: 205 LHMKQHILLLEIFVDVTSSVECLELR----------DTDLDTFHFSELSTGETNSLIKKF 254

Query: 689 ELNAINVDEIWHYNQLPAMVPCFQSLTRLIV---WGCDKLKYIFSASTIQSLEQLQHLEI 745
               + +        L  ++     ++ L+        +LK +        L  LQ + +
Sbjct: 255 TFRNVKIT----DESLFQVMKLLNQISGLLELEFSRN-QLKSV-PDGIFDRLTSLQKIWL 308

>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 = 50.5 bits (121), Expect = 2e-06
 Identities = 41/243 (16%), Positives = 73/243 (30%), Gaps = 49/243 (20%)

Query: 835  LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS 894
              NL+ L L+   I  I +D F   L GSL+ L +  + L+       +   +L FL L 
Sbjct: 75   CVNLQALVLTSNGINTIEEDSF-SSL-GSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLL 132

Query: 895  DCSYEVV-----FSNEGYLETHA----RKLALIKRLNLTRLNHLQQLWKHDSKELDFI-- 943
               Y+ +     FS+   L+            I+R +   L  L++L    S  L     
Sbjct: 133  GNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASD-LQSYEP 191

Query: 944  --FQHLQILRVLHCQ-NLLSLLPSSSVSFRNLTRLETFACKKLMNL-LTSSKAKSLERLV 999
               + +Q +  L        LL    +     + +E     +L +  L +     L    
Sbjct: 192  KSLKSIQNVSHLILHMKQHILLLE--IFVDVTSSVECL---ELRDTDLDTFHFSELSTGE 246

Query: 1000 SLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQ 1059
            +                              K        +   + F       ++  L 
Sbjct: 247  TNS--------------------------LIKKFTFRNVKITDESLFQVMKLLNQISGLL 280

Query: 1060 DLW 1062
            +L 
Sbjct: 281  ELE 283

>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 = 45.9 bits (109), Expect = 4e-05
 Identities = 51/335 (15%), Positives = 105/335 (31%), Gaps = 76/335 (22%)

Query: 545 VVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWE 604
           +   +   L S+PS +     ++ LDL++  ++ +I  + L     L+ L + S  I   
Sbjct: 35  ICKGSSGSLNSIPSGL--TEAVKSLDLSNN-RITYISNSDLQRCVNLQALVLTSNGIN-- 89

Query: 605 VRKGNSERSNASLDE--LMHLQRLTTLEIDVEDDSILPDGLFTK--KLERFDISIGDGSF 660
                      +++E     L  L  L++     S L    F     L   ++       
Sbjct: 90  -----------TIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLL------ 132

Query: 661 DSTKIIGNDWFQTFNIQSIYIFCIVMALE-LNAINVDEIWHYNQLPAMVPCFQSLTRLIV 719
                 GN        +++    +   L  L  + V  +  + ++      F  LT L  
Sbjct: 133 ------GN------PYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKD--FAGLTFLEE 178

Query: 720 ---WGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLK 776
                   L+      +++S++ + HL          I+   +   +   F         
Sbjct: 179 LEIDAS-DLQSY-EPKSLKSIQNVSHL----------ILHMKQHILLLEIF--------- 217

Query: 777 LDGLPELRCLY---PGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKK 833
           +D    + CL      + T  +  L      +  K    +N +     +     L +   
Sbjct: 218 VDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLN--- 274

Query: 834 ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLR 868
            +  L  L  S   +  +     P  +F  L  L+
Sbjct: 275 QISGLLELEFSRNQLKSV-----PDGIFDRLTSLQ 304

>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 = 45.5 bits (108), Expect = 7e-05
 Identities = 41/215 (19%), Positives = 71/215 (33%), Gaps = 42/215 (19%)

Query: 857  PQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNE-GYLETHA-RK 914
            P  L  ++K L + ++ +       L+R  NL+ L L+        SN    +E  +   
Sbjct: 47   PSGLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLT--------SNGINTIEEDSFSS 98

Query: 915  LALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLT 973
            L  ++ L+L+  N+L  L           F+ L  L  L+   N    L  +S+ F +LT
Sbjct: 99   LGSLEHLDLSY-NYLSNL-------SSSWFKPLSSLTFLNLLGNPYKTLGETSL-FSHLT 149

Query: 974  RLETFACKKLMNLLTSSKAKSLERLVSLR---IFGCPAMTEVIISDEDETANLKEEIVFS 1030
            +L+       M+  T  + K    L  L    I     +               E     
Sbjct: 150  KLQILRVGN-MDTFTKIQRKDFAGLTFLEELEIDASD-LQSY------------EPKSLK 195

Query: 1031 KLSALSLFDLDS--LTSFSSGNYAF-KLPSLQDLW 1062
             +  +S   L                   S++ L 
Sbjct: 196  SIQNVSHLILHMKQHILLLEI--FVDVTSSVECLE 228

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 53.9 bits (130), Expect = 1e-07
 Identities = 38/252 (15%), Positives = 80/252 (31%), Gaps = 50/252 (19%)

Query: 835  LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS 894
            L  L+ L +S   +  I     P +L  SL +LR+ D+ +   P  +     N+  + + 
Sbjct: 101  LRKLQKLYISKNHLVEI-----PPNLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMG 155

Query: 895  DCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH 954
                E      G        L L   L ++    L  + K        + + L  L + H
Sbjct: 156  GNPLENSGFEPGAF----DGLKL-NYLRISE-AKLTGIPKD-------LPETLNELHLDH 202

Query: 955  CQNLLSLLPSSSVSFRNLTRLETFACKKLM-NLLTSSKAKSLERLVSLR----------- 1002
              N +  +          ++L       L  N +   +  SL  L +LR           
Sbjct: 203  --NKIQAIELE--DLLRYSKLYRL---GLGHNQIRMIENGSLSFLPTLRELHLDNNKLSR 255

Query: 1003 ----IFGCPAMTEVIISD-------EDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNY 1051
                +     +  V +          ++   +   +  +  + +SLF+ + +  +     
Sbjct: 256  VPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFN-NPVPYWEVQPA 314

Query: 1052 AFK-LPSLQDLW 1062
             F+ +     + 
Sbjct: 315  TFRCVTDRLAIQ 326

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 27/154 (17%), Positives = 54/154 (35%), Gaps = 25/154 (16%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLT 572
             L  L +   KI+     I +  F  ++KL+ + +++  L  +P      + L  L + 
Sbjct: 78  QHLYALVLVNNKIS----KIHEKAFSPLRKLQKLYISKNHLVEIPP--NLPSSLVELRIH 131

Query: 573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEID 632
           D  +++ +   + S    +  + MG   ++      NS     + D L    +L  L I 
Sbjct: 132 DN-RIRKVPKGVFSGLRNMNCIEMGGNPLE------NSGFEPGAFDGL----KLNYLRIS 180

Query: 633 VEDDSILPDGLFTKKLERFDIS------IGDGSF 660
               + +P  L    L    +       I     
Sbjct: 181 EAKLTGIPKDLPE-TLNELHLDHNKIQAIELEDL 213

>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 = 65/479 (13%), Positives = 136/479 (28%), Gaps = 66/479 (13%)

Query: 513 CPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDL 571
             +L  L +   +I      +  + F   + L  +D++  RL ++      +  LR LDL
Sbjct: 75  LSELRVLRLSHNRIRS----LDFHVFLFNQDLEYLDVSHNRLQNISC--CPMASLRHLDL 128

Query: 572 TDCLQLKFI-VPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLE 630
                   + V     + T+L  L + +   +              L  + HL  L+ + 
Sbjct: 129 -SFNDFDVLPVCKEFGNLTKLTFLGLSAAKFR-----------QLDLLPVAHLH-LSCIL 175

Query: 631 IDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALEL 690
           +D+     +  G           S+   +     ++ +     F++Q       +  L+L
Sbjct: 176 LDLVSYH-IKGGETE--------SLQIPNTTVLHLVFHPN-SLFSVQVNMSVNALGHLQL 225

Query: 691 NAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKS 750
           + I +++               +    +  G   L              ++  +    + 
Sbjct: 226 SNIKLNDENCQ--------RLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRP 277

Query: 751 LQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKIT 810
           ++ +   N T            +   L  L            S+          N   ++
Sbjct: 278 VEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLS 337

Query: 811 LSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVG 870
           +S                        +   L  +    T  +           L+ L + 
Sbjct: 338 ISD----------TPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCST--LKRLQTLILQ 385

Query: 871 DDDLACFPLDLLERFHNLEFLYLSDCSY----EVVFSNEGYLETHARKLAL----IKRLN 922
            + L  F   +     N+  L   D S        +            L L    +    
Sbjct: 386 RNGLKNFF-KVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSV 444

Query: 923 LTRL-NHLQQLWKHDSK--ELDFIFQHLQILRVLHCQ-NLLSLLPSSSVSFRNLTRLET 977
              L   ++ L  H+++   +     HLQ L+ L+   N L  +P     F  LT L+ 
Sbjct: 445 FRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKSVPDG--VFDRLTSLQY 501

>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 = 52.9 bits (127), Expect = 2e-07
 Identities = 30/214 (14%), Positives = 77/214 (35%), Gaps = 12/214 (5%)

Query: 532 IPDNFFKGMKKLRVVDLTRVRLFSL--PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
           I    F G   L  +++++  +  +        L KL  + +     L +I P    +  
Sbjct: 45  IQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLP 104

Query: 590 RLEELYMGSCSIKWEVRKGNSERSNASLD-ELMHLQRLTTLEIDVEDDSILPDGLFTKKL 648
            L+ L + +  IK  +   +   S   +  ++     + T+E +      L        L
Sbjct: 105 NLQYLLISNTGIK-HLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVG--LSFESVILWL 161

Query: 649 ERFDI-SIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAM 707
            +  I  I + +F+ T++   +     N++ +       A     +++       ++ ++
Sbjct: 162 NKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDI----SRTRIHSL 217

Query: 708 VP-CFQSLTRLIVWGCDKLKYIFSASTIQSLEQL 740
                ++L +L       LK + +   + +L + 
Sbjct: 218 PSYGLENLKKLRARSTYNLKKLPTLEKLVALMEA 251

>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 = 47.5 bits (113), Expect = 1e-05
 Identities = 24/151 (15%), Positives = 49/151 (32%), Gaps = 23/151 (15%)

Query: 514 PQLEFLHID--PKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQ-LTKLRMLD 570
           P+L  + I+    +      I    F+ +  L+ + ++   +  LP        +  +LD
Sbjct: 79  PKLHEIRIEKANNLL----YINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLD 134

Query: 571 LTDCLQLKFIVPNILSSFT-RLEELYMGSCSIKWEVRKG-----NSER----SNASLDEL 620
           + D + +  I  N     +     L++    I+ E+          +      N +L+EL
Sbjct: 135 IQDNINIHTIERNSFVGLSFESVILWLNKNGIQ-EIHNSAFNGTQLDELNLSDNNNLEEL 193

Query: 621 -----MHLQRLTTLEIDVEDDSILPDGLFTK 646
                        L+I       LP      
Sbjct: 194 PNDVFHGASGPVILDISRTRIHSLPSYGLEN 224

>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 = 52.7 bits (127), Expect = 3e-07
 Identities = 42/215 (19%), Positives = 68/215 (31%), Gaps = 37/215 (17%)

Query: 855  DFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARK 914
              P  +  S  +L +  + L   P  + ++   L  L LS                    
Sbjct: 21   SVPTGIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSD----FG 76

Query: 915  LALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLT 973
               +K L+L+  N +  +  +        F  L+ L  L    + L  +   SV F +L 
Sbjct: 77   TTSLKYLDLSF-NGVITMSSN--------FLGLEQLEHLDFQHSNLKQMSEFSV-FLSLR 126

Query: 974  RLETFACKKL---MNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFS 1030
             L       L         +       L SL          + ++      N   + +F+
Sbjct: 127  NLIY-----LDISHTHTRVAFNGIFNGLSSLE--------VLKMAGNSFQENFLPD-IFT 172

Query: 1031 KLSALSLFDLDS--LTSFSSGNYAFK-LPSLQDLW 1062
            +L  L+  DL    L   S    AF  L SLQ L 
Sbjct: 173  ELRNLTFLDLSQCQLEQLSPT--AFNSLSSLQVLN 205

>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 = 50.8 bits (122), Expect = 1e-06
 Identities = 40/236 (16%), Positives = 77/236 (32%), Gaps = 41/236 (17%)

Query: 834  ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPL--DLLERFHNLEFL 891
            I  +   L L    +  +    F   L   L +L +  + L+             +L++L
Sbjct: 26   IPSSATRLELESNKLQSLPHGVF-DKL-TQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYL 83

Query: 892  YLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILR 951
             LS             + ++   L  ++ L+    ++L+Q+ +        +F  L+ L 
Sbjct: 84   DLSFNGVI-------TMSSNFLGLEQLEHLDFQH-SNLKQMSEFS------VFLSLRNLI 129

Query: 952  VLH-CQNLLSLLPSSSVSFRNLTRLET--FACKKLMNLLTSSKAKSLERLVSLRIFGCPA 1008
             L        +  +    F  L+ LE    A               L  L  L +  C  
Sbjct: 130  YLDISHTHTRVAFNG--IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ- 186

Query: 1009 MTEVIISDEDETANLKEEIVFSKLSALSLFDLDS--LTSFSSGNYAFK-LPSLQDL 1061
            + ++                F+ LS+L + ++      S  +    +K L SLQ L
Sbjct: 187  LEQL------------SPTAFNSLSSLQVLNMSHNNFFSLDTF--PYKCLNSLQVL 228

>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 = 50.0 bits (120), Expect = 2e-06
 Identities = 31/160 (19%), Positives = 54/160 (33%), Gaps = 23/160 (14%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLT 572
            QL  L +    ++F           G   L+ +DL+   + ++ S+   L +L  LD  
Sbjct: 52  TQLTKLSLSSNGLSF--KGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQ 109

Query: 573 DCLQLKFIVP-NILSSFTRLEELYMGSCSIKWEVRKG---------------NSERSNAS 616
               LK +   ++  S   L  L +     +     G               NS + N  
Sbjct: 110 HS-NLKQMSEFSVFLSLRNLIYLDISHTHTR-VAFNGIFNGLSSLEVLKMAGNSFQENFL 167

Query: 617 LDELMHLQRLTTLEIDVEDDSILPDGLFT--KKLERFDIS 654
            D    L+ LT L++       L    F     L+  ++S
Sbjct: 168 PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMS 207

>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 = 51.5 bits (124), Expect = 5e-07
 Identities = 30/143 (20%), Positives = 54/143 (37%), Gaps = 24/143 (16%)

Query: 531 NIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
           ++P   F+  + L ++ L    L  + ++    L  L  LDL+D  QL+ + P       
Sbjct: 46  HVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLG 105

Query: 590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI--LPDGLFTK- 646
           RL  L++  C +         E        L  LQ L      ++D+++  LPD  F   
Sbjct: 106 RLHTLHLDRCGL--------QELGPGLFRGLAALQYL-----YLQDNALQALPDDTFRDL 152

Query: 647 -KLERFDIS------IGDGSFDS 662
             L    +       + + +F  
Sbjct: 153 GNLTHLFLHGNRISSVPERAFRG 175

>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 = 50.8 bits (122), Expect = 1e-06
 Identities = 53/242 (21%), Positives = 84/242 (34%), Gaps = 53/242 (21%)

Query: 834  ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYL 893
            I    + + L G  I+ +    F      +L  L +  + LA            LE L L
Sbjct: 30   IPAASQRIFLHGNRISHVPAASF--RACRNLTILWLHSNVLARIDAAAFTGLALLEQLDL 87

Query: 894  SDCSYEVVFSNE--GYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQIL 950
            SD        N     ++      L  +  L+L R   LQ+L          +F+ L  L
Sbjct: 88   SD--------NAQLRSVDPATFHGLGRLHTLHLDR-CGLQELGPG-------LFRGLAAL 131

Query: 951  RVLHCQ-NLLSLLPSSSVSFRNLTRLETFACKKLM---NLLTSSKAKSLERLVSLRIFGC 1006
            + L+ Q N L  LP    +FR+L  L       L    N ++S   ++   L SL     
Sbjct: 132  QYLYLQDNALQALPDD--TFRDLGNLTH-----LFLHGNRISSVPERAFRGLHSLD---- 180

Query: 1007 PAMTEVIISDEDETANLKEEI---VFSKLSALSLFDLDS--LTSFSSGNYAFK-LPSLQD 1060
                 +++       N    +    F  L  L    L +  L++  +   A   L +LQ 
Sbjct: 181  ----RLLLHQ-----NRVAHVHPHAFRDLGRLMTLYLFANNLSALPTE--ALAPLRALQY 229

Query: 1061 LW 1062
            L 
Sbjct: 230  LR 231

>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 = 48.5 bits (116), Expect = 5e-06
 Identities = 42/223 (18%), Positives = 67/223 (30%), Gaps = 53/223 (23%)

Query: 854  DDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHAR 913
               P  +  + +++ +  + ++  P        NL  L+L                    
Sbjct: 24   QAVPVGIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSN----------------- 66

Query: 914  KLALIKRLNLTRLNHLQQLWKHDSKELDFI----FQHLQILRVLH-CQNLLSLLPSSSVS 968
             LA I     T L  L+QL   D+ +L  +    F  L  L  LH  +  L  L      
Sbjct: 67   VLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPG--L 124

Query: 969  FRNLTRLETFACKKL---MNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKE 1025
            FR L  L+      L    N L +    +   L +L          + +       N   
Sbjct: 125  FRGLAALQY-----LYLQDNALQALPDDTFRDLGNLT--------HLFLHG-----NRIS 166

Query: 1026 EI---VFSKLSALSLFDLDS--LTSFSSGNYAF-KLPSLQDLW 1062
             +    F  L +L    L    +        AF  L  L  L+
Sbjct: 167  SVPERAFRGLHSLDRLLLHQNRVAHVHPH--AFRDLGRLMTLY 207

>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 = 48.5 bits (116), Expect = 5e-06
 Identities = 18/99 (18%), Positives = 36/99 (36%), Gaps = 13/99 (13%)

Query: 513 CPQLEFLHID-PKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLD 570
              L  L +   +I+    ++P+  F+G+  L  + L + R+  +       L +L  L 
Sbjct: 152 LGNLTHLFLHGNRIS----SVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLY 207

Query: 571 LTDCLQLKFIVPNILSSFTRLEELYMG------SCSIKW 603
           L     L  +    L+    L+ L +        C  + 
Sbjct: 208 LFAN-NLSALPTEALAPLRALQYLRLNDNPWVCDCRARP 245

>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 = 52.6 bits (126), Expect = 5e-07
 Identities = 53/462 (11%), Positives = 127/462 (27%), Gaps = 84/462 (18%)

Query: 491 LKKCYAISLLNSSIHEVSLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDL- 548
           L KC   +     +  +     C +++ L ++    +  +        +    L V++  
Sbjct: 145 LDKCSGFT--TDGLLSIVTH--CRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFY 200

Query: 549 ----TRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWE 604
                ++    L +       L  + + D   L+ +      +   LEE   GS +    
Sbjct: 201 MTEFAKISPKDLETIARNCRSLVSVKVGDFEILELV--GFFKAAANLEEFCGGSLN---- 254

Query: 605 VRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPD-GLFTKKLERFDISIGDGSFDST 663
                          L+  ++L  L +     + +P    F  ++ + D+          
Sbjct: 255 ----EDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLL-------YA 303

Query: 664 KIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCD 723
            +   D              I     L  +    +     L  +    + L RL +    
Sbjct: 304 LLETEDHCT----------LIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGA 353

Query: 724 KLKYIFSASTIQSLEQLQHLEIRLCKSLQEI-ISENR-TDQVTAYFVF--PRVTTLKLDG 779
             + +     + S   L  L  + C+ L+ + +  +  T++           +   +L  
Sbjct: 354 DEQGMEDEEGLVSQRGLIAL-AQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLVL 412

Query: 780 LPELRCLYP-------GMHTSEWPALKNL-VACNCDKITLSQNDENDQFGVPAQQPLFSF 831
           L     +                  L+          +T    D            L   
Sbjct: 413 LDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLT----DLG----------LSYI 458

Query: 832 KKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLR--------VGDDDLACFPLDLLE 883
            +  PN+  + L     +    D+           L+          +  +A      + 
Sbjct: 459 GQYSPNVRWMLLGYVGES----DEGLMEFSRGCPNLQKLEMRGCCFSERAIAA----AVT 510

Query: 884 RFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTR 925
           +  +L +L++         + +  ++  AR    I+ +   R
Sbjct: 511 KLPSLRYLWVQGYR--ASMTGQDLMQ-MARPYWNIELIPSRR 549

>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 = 43.0 bits (101), Expect = 5e-04
 Identities = 55/414 (13%), Positives = 120/414 (28%), Gaps = 83/414 (20%)

Query: 710  CFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEI------ISENRTDQV 763
                L  L +  C         S +    +++ L +      ++       ++++ T   
Sbjct: 136  RADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLE 195

Query: 764  TAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKIT----------LSQ 813
               F       +    L  +             +L ++   + + +           L +
Sbjct: 196  VLNFYMTEFAKISPKDLETI--------ARNCRSLVSVKVGDFEILELVGFFKAAANLEE 247

Query: 814  NDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLR----- 868
                           +        L  L LS       +  +    LF    Q+R     
Sbjct: 248  FCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSY------MGPNEMPILFPFAAQIRKLDLL 301

Query: 869  ---VGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTR 925
               +  +D       L+++  NLE L   +        + G LE  A+    +KRL + R
Sbjct: 302  YALLETEDH----CTLIQKCPNLEVLETRNV-----IGDRG-LEVLAQYCKQLKRLRIER 351

Query: 926  LNHLQQLWKHDS----KELDFIFQHLQILRVL--HCQNL----LSLLPSSSVSFRNLTRL 975
                Q +   +     + L  + Q  Q L  +  +  ++    L  + +   +  +   +
Sbjct: 352  GADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLV 411

Query: 976  ETFACKKLMNLLT----SSKAKSLERLVSLRIF----------------GCPAMTEVIIS 1015
                 +++ +L       S     ++L     +                  P +  +++ 
Sbjct: 412  LLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLG 471

Query: 1016 DEDET-ANLKEEIVFSKLSALSLFDLD--SLTSFSSGNYAFKLPSLQDLWVIGC 1066
               E+   L E         L   ++     +  +      KLPSL+ LWV G 
Sbjct: 472  YVGESDEGLME--FSRGCPNLQKLEMRGCCFSERAIAAAVTKLPSLRYLWVQGY 523

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 50.7 bits (122), Expect = 9e-07
 Identities = 40/162 (24%), Positives = 70/162 (43%), Gaps = 30/162 (18%)

Query: 515 QLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLT 572
           +L  L+++  K+      +P   FK +K L  + +T  +L +LP  +  QL  L  L L 
Sbjct: 62  KLRLLYLNDNKLQ----TLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLD 117

Query: 573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELM--HLQRLTTLE 630
              QLK + P +  S T+L  L +G   ++             SL + +   L  L  L 
Sbjct: 118 RN-QLKSLPPRVFDSLTKLTYLSLGYNELQ-------------SLPKGVFDKLTSLKELR 163

Query: 631 IDVEDDSILPDGLFTK--KLERFDI------SIGDGSFDSTK 664
           +       +P+G F K  +L+   +       + +G+FDS +
Sbjct: 164 LYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLE 205

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 47.3 bits (113), Expect = 1e-05
 Identities = 35/160 (21%), Positives = 64/160 (40%), Gaps = 25/160 (15%)

Query: 531 NIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
           ++P   F  + KLR++ L   +L +LP+ I  +L  L  L +TD  +L+ +   +     
Sbjct: 51  SLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDN-KLQALPIGVFDQLV 109

Query: 590 RLEELYMGSCSIKWEVRKGNSERSNASLDE--LMHLQRLTTLEIDVEDDSILPDGLFTK- 646
            L EL +    +K             SL       L +LT L +   +   LP G+F K 
Sbjct: 110 NLAELRLDRNQLK-------------SLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKL 156

Query: 647 -KLERFDI------SIGDGSFDSTKIIGNDWFQTFNIQSI 679
             L+   +       + +G+FD    +         ++ +
Sbjct: 157 TSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRV 196

>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 = 50.0 bits (120), Expect = 1e-06
 Identities = 27/140 (19%), Positives = 56/140 (40%), Gaps = 8/140 (5%)

Query: 531 NIPDNFFKGMKKLRVVDLTR-VRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSF 588
            IP + F  +  +  + ++  V L  L S     L+K+  +++ +   L +I P+ L   
Sbjct: 45  TIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKEL 104

Query: 589 TRLEELYMGSCSIKWEVRKGNSERSNASLD--ELMHLQRLTTLEIDVEDDSILPDGLFTK 646
             L+ L + +  +K          S       E+     +T++ ++      L +   T 
Sbjct: 105 PLLKFLGIFNTGLK-MFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQG--LCNETLTL 161

Query: 647 KLERFDI-SIGDGSFDSTKI 665
           KL      S+   +F+ TK+
Sbjct: 162 KLYNNGFTSVQGYAFNGTKL 181

>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 = 50.1 bits (120), Expect = 3e-06
 Identities = 49/283 (17%), Positives = 80/283 (28%), Gaps = 58/283 (20%)

Query: 796  PALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDD 855
                + VA   +        E                  L  L  L      IT +    
Sbjct: 18   DNFASEVAAAFEMQATDTISEEQ----------------LATLTSLDCHNSSITDM--TG 59

Query: 856  FPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCS-YEVVFSNEGYLETHARK 914
              +     L +L    +++    L       NL +L         +  +    L      
Sbjct: 60   IEK--LTGLTKLICTSNNITTLDLSQN---TNLTYLACDSNKLTNLDVTPLTKLTY---- 110

Query: 915  LAL----IKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFR 970
            L      + +L++++   L  L    +   +    H   L  L C     +   + +   
Sbjct: 111  LNCDTNKLTKLDVSQNPLLTYLNCARNTLTEIDVSHNTQLTELDCHLNKKI---TKLDVT 167

Query: 971  NLTRLETFACKKLMNLLTS---SKAKSLERLV-------SLRIFGCPAMTEVIISDEDET 1020
              T+L T  C    N +T    S+ K L RL         L +     +T +  S     
Sbjct: 168  PQTQLTTLDCSF--NKITELDVSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSS---- 221

Query: 1021 ANLKEEIVFSKLSALSLFDLDS--LTSFSSGNYAFKLPSLQDL 1061
             N   EI  + L+ L+ FD     LT          L  L  L
Sbjct: 222  -NKLTEIDVTPLTQLTYFDCSVNPLTELDVST----LSKLTTL 259

>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 = 48.1 bits (115), Expect = 1e-05
 Identities = 57/362 (15%), Positives = 107/362 (29%), Gaps = 79/362 (21%)

Query: 713  SLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEI-ISENRTDQVTAYFVFPR 771
            ++T L +     L Y+   S      +L +L++     L  +    N+            
Sbjct: 75   NITTLDLSQNTNLTYLACDSN-----KLTNLDVTPLTKLTYLNCDTNK------------ 117

Query: 772  VTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSF 831
            +T L +   P L  L           L  +   +  ++T      N +       P    
Sbjct: 118  LTKLDVSQNPLLTYLN-----CARNTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQ--- 169

Query: 832  KKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFL 891
                  L  L  S   IT +   D  Q     L +L    +++    L+       L FL
Sbjct: 170  ----TQLTTLDCSFNKITEL---DVSQ--NKLLNRLNCDTNNITKLDLNQNI---QLTFL 217

Query: 892  YLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILR 951
              S                       +  +++T L  L       +   +     L  L 
Sbjct: 218  DCSSNK--------------------LTEIDVTPLTQLTYFDCSVNPLTELDVSTLSKLT 257

Query: 952  VLHCQ-NLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLE-------RLVSLRI 1003
             LHC    L  +  +      L   +   C+K+   L  +    L         +  L +
Sbjct: 258  TLHCIQTDLLEIDLT--HNTQLIYFQAEGCRKI-KELDVTHNTQLYLLDCQAAGITELDL 314

Query: 1004 FGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDS--LTSFSSGNYAFKLPSLQDL 1061
               P +  + +++         E+  S  + L      +  +  FSS     K+P+L + 
Sbjct: 315  SQNPKLVYLYLNN-----TELTELDVSHNTKLKSLSCVNAHIQDFSSVG---KIPALNNN 366

Query: 1062 WV 1063
            + 
Sbjct: 367  FE 368

>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 = 43.1 bits (102), Expect = 4e-04
 Identities = 71/505 (14%), Positives = 136/505 (26%), Gaps = 150/505 (29%)

Query: 486 PDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLR 544
           PD D      A +    +   +S E +   L  L      IT    ++     + +  L 
Sbjct: 16  PD-DNFASEVAAAFEMQATDTISEE-QLATLTSLDCHNSSIT----DMTG--IEKLTGLT 67

Query: 545 VVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWE 604
            +  T   + +L   + Q T L  L      +L  +    ++  T+L  L   +  +   
Sbjct: 68  KLICTSNNITTLD--LSQNTNLTYLACDSN-KLTNL---DVTPLTKLTYLNCDTNKL--- 118

Query: 605 VRKGNSERSNASLDELM------------HLQRLTTLEIDVEDDSILPDGLFTKKLERFD 652
                    N  L  L             H  +LT L+  +       D     +L   D
Sbjct: 119 --TKLDVSQNPLLTYLNCARNTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQLTTLD 176

Query: 653 ISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQ 712
            S         KI   D  Q   +  +                      N          
Sbjct: 177 CS-------FNKITELDVSQNKLLNRLNC------------------DTNN--------- 202

Query: 713 SLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEI-ISENRTDQVTAYFVFPR 771
            +T+L +    +L ++  +S      +L  +++     L     S N             
Sbjct: 203 -ITKLDLNQNIQLTFLDCSSN-----KLTEIDVTPLTQLTYFDCSVN------------P 244

Query: 772 VTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSF 831
           +T L +  L +L  L+              +  +  +I L+ N                 
Sbjct: 245 LTELDVSTLSKLTTLH-------------CIQTDLLEIDLTHN----------------- 274

Query: 832 KKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFL 891
                 L      G     I + D   +    L  L      +    L        L +L
Sbjct: 275 ----TQLIYFQAEG--CRKIKELDVTHNT--QLYLLDCQAAGITELDLSQN---PKLVYL 323

Query: 892 YLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSK--ELDFIFQHLQI 949
           YL++                      +  L+++    L+ L   ++   +   +   +  
Sbjct: 324 YLNNTE--------------------LTELDVSHNTKLKSLSCVNAHIQDFSSV-GKIPA 362

Query: 950 LRVLHCQ-NLLSLLPSSSVSFRNLT 973
           L            +P  +++  +LT
Sbjct: 363 LNNNFEAEGQTITMPKETLTNNSLT 387

>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 = 48.8 bits (117), Expect = 4e-06
 Identities = 34/155 (21%), Positives = 61/155 (39%), Gaps = 23/155 (14%)

Query: 531 NIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
           ++    F G+  L+ +      L SL +   G L  L+ L++   L   F +P   S+ T
Sbjct: 90  SLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLT 149

Query: 590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLT-TLEIDVEDDSILPDGLFTK-K 647
            LE L + S  I+  +           L  L  +  L  +L++ +   + +  G F + +
Sbjct: 150 NLEHLDLSSNKIQ-SIYCT-------DLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIR 201

Query: 648 LERFDI------SIGDGSFDSTKII------GNDW 670
           L+   +      S+ DG FD    +       N W
Sbjct: 202 LKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPW 236

>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 = 47.7 bits (114), Expect = 8e-06
 Identities = 26/165 (15%), Positives = 54/165 (32%), Gaps = 29/165 (17%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDL 571
           P+L+ L +   +I      I D  ++ +  L  + LT   + SL       L+ L+ L  
Sbjct: 52  PELQVLDLSRCEIQ----TIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA 107

Query: 572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEI 631
            +   L  +    +     L+EL +            N  +S    +   +L  L  L++
Sbjct: 108 VET-NLASLENFPIGHLKTLKELNVAH----------NLIQSFKLPEYFSNLTNLEHLDL 156

Query: 632 DVEDDSILPDGLFTK--KLERFDI----------SIGDGSFDSTK 664
                  +         ++   ++           I  G+F   +
Sbjct: 157 SSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIR 201

>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 = 44.2 bits (105), Expect = 1e-04
 Identities = 29/148 (19%), Positives = 50/148 (33%), Gaps = 26/148 (17%)

Query: 835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS 894
            P L+ L LS  +I  I +D   Q L   L  L +  + +    L       +L+ L   
Sbjct: 51  FPELQVLDLSRCEIQTI-EDGAYQSL-SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAV 108

Query: 895 DCSY----EVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQIL 950
           + +          +          L  +K LN+   N +Q        +L   F +L  L
Sbjct: 109 ETNLASLENFPIGH----------LKTLKELNVAH-NLIQSF------KLPEYFSNLTNL 151

Query: 951 RVLH-CQNLLSLLPSSSVSFRNLTRLET 977
             L    N +  +  +    R L ++  
Sbjct: 152 EHLDLSSNKIQSIYCT--DLRVLHQMPL 177

>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 = 44.2 bits (105), Expect = 1e-04
 Identities = 40/220 (18%), Positives = 69/220 (31%), Gaps = 49/220 (22%)

Query: 531 NIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
           ++    F    +L+V+DL+R  + ++       L+ L  L LT    ++ +     S  +
Sbjct: 42  HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLS 100

Query: 590 RLEELYMGSCSIKWEVRKGNSERSNASLDELM--HLQRLTTLEIDVEDDSILP-DGLFTK 646
            L++L     ++              SL+     HL+ L  L +             F+ 
Sbjct: 101 SLQKLVAVETNLA-------------SLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSN 147

Query: 647 --KLERFDI------SIGDGSFDS----TKIIGNDWFQTFNIQSI--YIFCIVMALELNA 692
              LE  D+      SI             +  +       +  I    F     + L  
Sbjct: 148 LTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF---KEIRLKE 204

Query: 693 INVDEIWHYNQLPAMVP--CFQSLTRLIV-------WGCD 723
           + +      NQL   VP   F  LT L         W C 
Sbjct: 205 LAL----DTNQL-KSVPDGIFDRLTSLQKIWLHTNPWDCS 239

>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 = 48.1 bits (115), Expect = 8e-06
 Identities = 25/150 (16%), Positives = 55/150 (36%), Gaps = 29/150 (19%)

Query: 835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS 894
           +  L  + ++  +IT I     PQ L  SL +L +  + +       L+  +NL  L LS
Sbjct: 170 MKKLSYIRIADTNITTI-----PQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLS 224

Query: 895 DCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSK--ELDFIFQHLQILRV 952
                               ++ +   +L    HL++L  +++K  ++       + ++V
Sbjct: 225 FN-----------------SISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQV 267

Query: 953 LH-CQNLLSLLPSSS----VSFRNLTRLET 977
           ++   N +S + S+                
Sbjct: 268 VYLHNNNISAIGSNDFCPPGYNTKKASYSG 297

>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 = 46.5 bits (111), Expect = 3e-05
 Identities = 17/89 (19%), Positives = 34/89 (38%), Gaps = 6/89 (6%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLT 572
            Q+  + +    +      I +  F+GMKKL  + +    + ++P  +     L  L L 
Sbjct: 145 NQMIVVELGTNPLK--SSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHLD 200

Query: 573 DCLQLKFIVPNILSSFTRLEELYMGSCSI 601
              ++  +    L     L +L +   SI
Sbjct: 201 GN-KITKVDAASLKGLNNLAKLGLSFNSI 228

>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 = 45.4 bits (108), Expect = 6e-05
 Identities = 26/157 (16%), Positives = 57/157 (36%), Gaps = 28/157 (17%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLT 572
             L  L +   KI+     I    F  + KL  + L++ +L  LP        L+ L + 
Sbjct: 76  KNLHTLILINNKIS----KISPGAFAPLVKLERLYLSKNQLKELPE--KMPKTLQELRVH 129

Query: 573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEID 632
           +  ++  +  ++ +   ++  + +G+  +K      +S   N +   +  L  +      
Sbjct: 130 EN-EITKVRKSVFNGLNQMIVVELGTNPLK------SSGIENGAFQGMKKLSYI-----R 177

Query: 633 VEDDSI--LPDGLFTKKLERFDIS------IGDGSFD 661
           + D +I  +P GL    L    +       +   S  
Sbjct: 178 IADTNITTIPQGLPP-SLTELHLDGNKITKVDAASLK 213

>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 = 48.2 bits (115), Expect = 1e-05
 Identities = 67/403 (16%), Positives = 120/403 (29%), Gaps = 93/403 (23%)

Query: 529 ELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDC-LQLKFIVPNILS 586
            L I +N F+G+  L ++ L   +   L +     L  L +L LT C L    +  N   
Sbjct: 67  GLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFK 126

Query: 587 SFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLE---IDVEDDSILPDGL 643
             T LE L +   +IK         +  +    +     L  L    +    +  L    
Sbjct: 127 PLTSLEMLVLRDNNIK-------KIQPASFFLNMRRFHVLD-LTFNKVKSICEEDL-LNF 177

Query: 644 FTKKLERFDI--------------SIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALE 689
             K      +                  G+      I          +         A+ 
Sbjct: 178 QGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIA 237

Query: 690 LNAINVDEIWHYNQLPAMVPC--FQSLTRLIVWGCDKLKYIFSASTIQSLE----QLQHL 743
              I    + +   + +      F+        G         AS +++ +    ++  L
Sbjct: 238 GTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKG-------LEASGVKTCDLSKSKIFAL 290

Query: 744 EIRLCKSLQE----IISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALK 799
              +     +     +++N  +++     F         GL  L  L             
Sbjct: 291 LKSVFSHFTDLEQLTLAQNEINKIDDN-AF--------WGLTHLLKLN------------ 329

Query: 800 NLVACNCDKITLSQNDENDQFG-VPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQ 858
                      LSQN      G + +      F+  L  LE L LS   I  +    F  
Sbjct: 330 -----------LSQN----FLGSIDS----RMFEN-LDKLEVLDLSYNHIRALGDQSF-L 368

Query: 859 HLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS----DCS 897
            L  +LK+L +  + L   P  + +R  +L+ ++L     DCS
Sbjct: 369 GL-PNLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCS 410

>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 = 47.8 bits (114), Expect = 2e-05
 Identities = 34/226 (15%), Positives = 77/226 (34%), Gaps = 19/226 (8%)

Query: 835  LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLS 894
            L +L+ L +  +   ++++++  + L  SL  L++  +              NLE L L+
Sbjct: 53   LQDLQFLKVEQQTPGLVIRNNTFRGL-SSLIILKLDYNQFLQLETGAFNGLANLEVLTLT 111

Query: 895  DCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH 954
             C+ +    +  +     + L  ++ L L   N+++++      +    F +++   VL 
Sbjct: 112  QCNLDGAVLSGNFF----KPLTSLEMLVLRD-NNIKKI------QPASFFLNMRRFHVLD 160

Query: 955  C-QNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVI 1013
               N +  +        N         +     L       L        F   ++T + 
Sbjct: 161  LTFNKVKSICEE--DLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLD 218

Query: 1014 ISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQ 1059
            +S        KE +      A++   + SL   +S N         
Sbjct: 219  LSG----NGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTN 260

>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 = 47.0 bits (112), Expect = 3e-05
 Identities = 66/397 (16%), Positives = 124/397 (31%), Gaps = 91/397 (22%)

Query: 700  HYNQLPAMVP--CFQSLTRLIVWGCD--KLKYIFSASTIQSLEQLQHLEIRLCKSLQEII 755
                   ++    F+ L+ LI+   D  +   +        L  L+ L +  C     ++
Sbjct: 62   EQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQL-ETGAFNGLANLEVLTLTQCNLDGAVL 120

Query: 756  SENRTDQVTAYFVFPRVTTLK-----------------LDGLPELRCLYPGMHTSEWP-- 796
            S N          F  +T+L+                    +     L   +  ++    
Sbjct: 121  SGN---------FFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLD--LTFNKVKSI 169

Query: 797  ---ALKNLVACNCDKITLSQNDEND-QFGVPAQQPLFSFKKILPNLEGLALSGKDITMIL 852
                L N    +   + LS     D        +   +  K   ++  L LSG      +
Sbjct: 170  CEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFK-NTSITTLDLSGNGFKESM 228

Query: 853  QDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHA 912
               F    F ++   ++    L+          H   F    + +++ + ++        
Sbjct: 229  AKRF----FDAIAGTKIQSLILSNSYNMGSSFGHT-NFKDPDNFTFKGLEASG------- 276

Query: 913  RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRN 971
                 +K  +L++ + +  L K        +F H   L  L   QN ++ +  ++  F  
Sbjct: 277  -----VKTCDLSK-SKIFALLKS-------VFSHFTDLEQLTLAQNEINKIDDNA--FWG 321

Query: 972  LTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEI---V 1028
            LT L      +  N L S  ++  E L  L          + +S      N    +    
Sbjct: 322  LTHLLKLNLSQ--NFLGSIDSRMFENLDKL--------EVLDLSY-----NHIRALGDQS 366

Query: 1029 FSKLSALSLFDLDS--LTSFSSGNYAF-KLPSLQDLW 1062
            F  L  L    LD+  L S   G   F +L SLQ +W
Sbjct: 367  FLGLPNLKELALDTNQLKSVPDG--IFDRLTSLQKIW 401

>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 = 46.3 bits (110), Expect = 5e-05
 Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 7/91 (7%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDL 571
             LE L +   +I      I DN F G+  L  ++L++  L S+ S +   L KL +LDL
Sbjct: 299 TDLEQLTLAQNEIN----KIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDL 354

Query: 572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIK 602
           +    ++ +          L+EL + +  +K
Sbjct: 355 SYN-HIRALGDQSFLGLPNLKELALDTNQLK 384

>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 = 45.9 bits (109), Expect = 5e-05
 Identities = 58/456 (12%), Positives = 115/456 (25%), Gaps = 115/456 (25%)

Query: 544 RVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKW 603
                    L  +P     +  +  L L     +  +     S    L+ L +   +   
Sbjct: 13  YNAICINRGLHQVPELPAHVNYVD-LSLN---SIAELNETSFSRLQDLQFLKVEQQTPGL 68

Query: 604 EVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTK--KLERFDIS------- 654
            +R         +      L  L  L++D      L  G F     LE   ++       
Sbjct: 69  VIRNN-------TFR---GLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGA 118

Query: 655 -IGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVP--CF 711
            +    F              +++ + +                    N +  + P   F
Sbjct: 119 VLSGNFFKPLT----------SLEMLVL------------------RDNNIKKIQPASFF 150

Query: 712 QSLTRLIV-------WGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVT 764
            ++ R  V                     + + +      +RL     + ++E       
Sbjct: 151 LNMRRFHVLDLTFNKVKSIC------EEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEK 204

Query: 765 AYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPA 824
                             +  L   +  + +                        F   A
Sbjct: 205 C---------GNPFKNTSITTLD--LSGNGFKESMAKRF----------------FDAIA 237

Query: 825 QQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLER 884
              + S         G +    +        F       +K   +    +      +   
Sbjct: 238 GTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSH 297

Query: 885 FHNLEFLYLSDCSYEVVFSNE-GYLETHA-RKLALIKRLNLTRLNHLQQLWKHDSKELDF 942
           F +LE L L+         NE   ++ +A   L  + +LNL++ N L  +          
Sbjct: 298 FTDLEQLTLAQ--------NEINKIDDNAFWGLTHLLKLNLSQ-NFLGSI-------DSR 341

Query: 943 IFQHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLET 977
           +F++L  L VL    N +  L     SF  L  L+ 
Sbjct: 342 MFENLDKLEVLDLSYNHIRALGDQ--SFLGLPNLKE 375

>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 = 45.1 bits (107), Expect = 1e-04
 Identities = 65/465 (13%), Positives = 127/465 (27%), Gaps = 110/465 (23%)

Query: 531 NIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
            +P +       +  VDL+   +  L   S  +L  L+ L +        I  N     +
Sbjct: 27  ELPAH-------VNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLS 79

Query: 590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLE 649
            L  L +              +    + + L +L+ LT               L    L+
Sbjct: 80  SLIILKLDYNQFL--------QLETGAFNGLANLEVLT---------------LTQCNLD 116

Query: 650 RFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVP 709
                +    F              +++ + +                    N +  + P
Sbjct: 117 --GAVLSGNFFKPLT----------SLEMLVL------------------RDNNIKKIQP 146

Query: 710 --CFQSLTRLIV-------WGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRT 760
              F ++ R  V                     + + +      +RL     + ++E   
Sbjct: 147 ASFFLNMRRFHVLDLTFNKVKSIC------EEDLLNFQGKHFTLLRLSSITLQDMNEYWL 200

Query: 761 DQVT--AYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDEND 818
                   F    +TTL L G    +              K       +   +  +  + 
Sbjct: 201 GWEKCGNPFKNTSITTLDLSGNG-FKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHT 259

Query: 819 QFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRV---GDDDLA 875
            F  P        +     ++   LS   I  +      + +F     L       +++ 
Sbjct: 260 NFKDPDNFTFKGLEA--SGVKTCDLSKSKIFAL-----LKSVFSHFTDLEQLTLAQNEIN 312

Query: 876 CFPLDLLERFHNLEFLYLSDCSYEVVFSNE-GYLETHA-RKLALIKRLNLTRLNHLQQLW 933
               +      +L  L LS         N  G +++     L  ++ L+L+  NH++ L 
Sbjct: 313 KIDDNAFWGLTHLLKLNLS--------QNFLGSIDSRMFENLDKLEVLDLSY-NHIRALG 363

Query: 934 KHDSKELDFIFQHLQILRVLH-CQNLLSLLPSSSVSFRNLTRLET 977
                     F  L  L+ L    N L  +P     F  LT L+ 
Sbjct: 364 DQ-------SFLGLPNLKELALDTNQLKSVPDG--IFDRLTSLQK 399

>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 = 46.4 bits (111), Expect = 3e-05
 Identities = 19/110 (17%), Positives = 39/110 (35%), Gaps = 22/110 (20%)

Query: 529 ELNIPDN------FFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVP 582
           EL + ++          + K+  ++L      S  S +  +T L  L +T+  ++K + P
Sbjct: 114 ELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTES-KVKDVTP 172

Query: 583 NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEID 632
             +++ T L  L +    I+              +  L  L  L      
Sbjct: 173 --IANLTDLYSLSLNYNQIE-------------DISPLASLTSLHYFTAY 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 = 42.1 bits (100), Expect = 7e-04
 Identities = 61/416 (14%), Positives = 132/416 (31%), Gaps = 117/416 (28%)

Query: 497 ISLLNSSIHEVSLEFECPQLEFLHI-DPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS 555
           ++ L + I+++  + +  +     +    +T    ++     + ++ +  + +   ++ S
Sbjct: 5   LATLPAPINQIFPDADLAEGIRAVLQKASVT----DVVT--QEELESITKLVVAGEKVAS 58

Query: 556 LPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNA 615
           +   I  LT L  L+L    Q+  I P  LS+  +L  LY+G+  I              
Sbjct: 59  IQG-IEYLTNLEYLNLNGN-QITDISP--LSNLVKLTNLYIGTNKIT------------- 101

Query: 616 SLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFN 675
            +  L +L  L  L ++ ++ S +       K+   ++                      
Sbjct: 102 DISALQNLTNLRELYLNEDNISDISPLANLTKMYSLNLG--------------------- 140

Query: 676 IQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCD--KLKYIFSAST 733
                                     N   + +    ++T L        K+K +   + 
Sbjct: 141 -------------------------ANHNLSDLSPLSNMTGLNYLTVTESKVKDV---TP 172

Query: 734 IQSLEQLQHLE-----------IRLCKSLQEI-ISENRTDQVTAYFVFPRVTTLK-LDGL 780
           I +L  L  L            +    SL       N+            +T +  +  +
Sbjct: 173 IANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQ------------ITDITPVANM 220

Query: 781 PELRCLY-PGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLE 839
             L  L       ++   L NL       + +  N  +D         + + K  L  L+
Sbjct: 221 TRLNSLKIGNNKITDLSPLANLS--QLTWLEIGTNQISD---------INAVKD-LTKLK 268

Query: 840 GLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSD 895
            L +    I+ I       +L   L  L + ++ L    ++++    NL  L+LS 
Sbjct: 269 MLNVGSNQISDI--SVL-NNL-SQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQ 320

>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 = 46.2 bits (110), Expect = 3e-05
 Identities = 32/161 (19%), Positives = 59/161 (36%), Gaps = 34/161 (21%)

Query: 489 DALKKCYAISLLNSSIHEVSLEFECPQLEFLHI-DPKIT----------FAELNIPDN-- 535
            AL     I+   S++ +   + +   +  L      +T             L + DN  
Sbjct: 16  PALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQI 75

Query: 536 ----FFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL 591
                 K + K+  ++L+   L ++ S+I  L  ++ LDLT   Q+  + P  L+  + L
Sbjct: 76  TDLAPLKNLTKITELELSGNPLKNV-SAIAGLQSIKTLDLTST-QITDVTP--LAGLSNL 131

Query: 592 EELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEID 632
           + LY+    I              ++  L  L  L  L I 
Sbjct: 132 QVLYLDLNQIT-------------NISPLAGLTNLQYLSIG 159

>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 = 45.7 bits (109), Expect = 6e-05
 Identities = 34/165 (20%), Positives = 58/165 (35%), Gaps = 25/165 (15%)

Query: 491 LKKCYAISLLNSSIHEVSLEFECPQLEFLHI-DPKITFAELNIPDNFFKGMKKLRVVDLT 549
           L +   +      I  +        L  ++  + ++T    +I     K + KL  + + 
Sbjct: 45  LDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLT----DIT--PLKNLTKLVDILMN 98

Query: 550 RVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGN 609
             ++  +   +  LT L  L L +  Q+  I P  L + T L  L + S +I        
Sbjct: 99  NNQIADITP-LANLTNLTGLTLFNN-QITDIDP--LKNLTNLNRLELSSNTIS------- 147

Query: 610 SERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDIS 654
                  +  L  L  L  L    +   + P    T  LER DIS
Sbjct: 148 ------DISALSGLTSLQQLSFGNQVTDLKPLANLT-TLERLDIS 185

>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 = 46.1 bits (110), Expect = 7e-05
 Identities = 16/96 (16%), Positives = 31/96 (32%), Gaps = 9/96 (9%)

Query: 510 EFECPQLEFLHIDPKITFAELN--IPDNFFKGMKKLRVVDLTRVRLF-SLPSSIGQLTKL 566
                 L++L +       +    IPD        L  +DL+    + ++P   G  + L
Sbjct: 265 PLPLKSLQYLSLA----ENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLL 320

Query: 567 RMLDLTDCLQLK-FIVPNILSSFTRLEELYMGSCSI 601
             L L+        +  + L     L+ L +     
Sbjct: 321 ESLALSSN-NFSGELPMDTLLKMRGLKVLDLSFNEF 355

>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 = 43.7 bits (104), Expect = 3e-04
 Identities = 22/124 (17%), Positives = 40/124 (32%), Gaps = 24/124 (19%)

Query: 500 LNSSIHEVSLEFECPQLEFLH---------IDPKITFA-------ELNIPDNFFKG---- 539
           L+    +VS   +   LE L                 +        L I  N   G    
Sbjct: 138 LDFPG-KVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDV 196

Query: 540 --MKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMG 597
                L  +D++     +    +G  + L+ LD++   +L       +S+ T L+ L + 
Sbjct: 197 SRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGN-KLSGDFSRAISTCTELKLLNIS 255

Query: 598 SCSI 601
           S   
Sbjct: 256 SNQF 259

>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 = 43.4 bits (103), Expect = 5e-04
 Identities = 22/140 (15%), Positives = 47/140 (33%), Gaps = 19/140 (13%)

Query: 501 NSSIHEVSLEFECPQLEFLHIDPKIT----FAELNIPDNFFKG-------MKKLRVVDLT 549
           +  +  + L  +   + F  +   +        L + ++   G          L  +DL+
Sbjct: 49  DDKVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLS 108

Query: 550 RVRL---FSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVR 606
           R  L    +  +S+G  + L+ L+++          +       LE L + + SI     
Sbjct: 109 RNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSI----- 163

Query: 607 KGNSERSNASLDELMHLQRL 626
            G +       D    L+ L
Sbjct: 164 SGANVVGWVLSDGCGELKHL 183

>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 = 44.7 bits (106), Expect = 8e-05
 Identities = 35/145 (24%), Positives = 62/145 (42%), Gaps = 25/145 (17%)

Query: 531 NIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFT 589
            + D  F+G+ KL  ++L   +L +L + +   LT+L  L L +  QL  +   +    T
Sbjct: 49  TLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANN-QLASLPLGVFDHLT 107

Query: 590 RLEELYMGSCSIKWEVRKGNSERSNASLDELM--HLQRLTTLEIDVEDDSILPDGLFTK- 646
           +L++LY+G   +K             SL   +   L +L  L ++      +P G F K 
Sbjct: 108 QLDKLYLGGNQLK-------------SLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKL 154

Query: 647 -KLERFDI------SIGDGSFDSTK 664
             L+   +      S+  G+FD   
Sbjct: 155 TNLQTLSLSTNQLQSVPHGAFDRLG 179

>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 = 44.3 bits (105), Expect = 8e-05
 Identities = 23/114 (20%), Positives = 39/114 (34%), Gaps = 13/114 (11%)

Query: 532 IPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQLKFIVPNILSSFTR 590
           IP   F   KKLR +DL+  ++  L       L  L  L L    ++  +  ++      
Sbjct: 47  IPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN-KITELPKSLFEGLFS 105

Query: 591 LEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLF 644
           L+ L + +  I   +R         +      L  L  L +       +  G F
Sbjct: 106 LQLLLLNANKIN-CLRVD-------AFQ---DLHNLNLLSLYDNKLQTIAKGTF 148

>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 = 45.1 bits (106), Expect = 1e-04
 Identities = 32/161 (19%), Positives = 57/161 (35%), Gaps = 34/161 (21%)

Query: 489 DALKKCYAISLLNSSIHEVSLEFECPQLEFLHI-DPKITFAE----------LNIPDN-- 535
           DA  +    +L   S+ +   + E   ++ +   +  I   +          L +  N  
Sbjct: 18  DAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKL 77

Query: 536 ----FFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL 591
                   +K L  + L   ++  L SS+  L KL+ L L     +  I    L    +L
Sbjct: 78  TDIKPLTNLKNLGWLFLDENKIKDL-SSLKDLKKLKSLSLEHN-GISDING--LVHLPQL 133

Query: 592 EELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEID 632
           E LY+G+  I               +  L  L +L TL ++
Sbjct: 134 ESLYLGNNKIT-------------DITVLSRLTKLDTLSLE 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 = 44.6 bits (106), Expect = 1e-04
 Identities = 67/480 (13%), Positives = 134/480 (27%), Gaps = 140/480 (29%)

Query: 533 PDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILS------ 586
           P N       L+        L  +P     +              +   P          
Sbjct: 5   PRNV--SNTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAV 62

Query: 587 ------SFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILP 640
                    +  EL + +  +              SL EL     L +L       + LP
Sbjct: 63  SRLRDCLDRQAHELELNNLGLS-------------SLPEL--PPHLESLVASCNSLTELP 107

Query: 641 DGLFT-KKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAI-NVDEI 698
           +   + K L   + ++         +          ++ + +         N +  + E+
Sbjct: 108 ELPQSLKSLLVDNNNL-------KALSDL----PPLLEYLGVSN-------NQLEKLPEL 149

Query: 699 WH----------YNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIR-- 746
            +           N L  +     SL  +      +L+ +     +Q+L  L  +     
Sbjct: 150 QNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNN-QLEEL---PELQNLPFLTAIYADNN 205

Query: 747 -------LCKSLQE-IISENRTDQVTAYFVFPRVTTLKLDG-----LPELRCLYPGMHTS 793
                  L  SL+  +   N  +++      P +TT+  D      LP+L          
Sbjct: 206 SLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDL---------- 255

Query: 794 EWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQ 853
                      + + + +  N                  ++  +L  L +S    + +  
Sbjct: 256 ---------PPSLEALNVRDNYLT------------DLPELPQSLTFLDVSENIFSGL-- 292

Query: 854 DDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHAR 913
                 L  +L  L    +++        +   +LE L +S+     + +    LE    
Sbjct: 293 ----SELPPNLYYLNASSNEIRSLC----DLPPSLEELNVSNNKLIELPALPPRLE---- 340

Query: 914 KLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLT 973
                 RL  +  NHL         E+  + Q+L+ L V +  N L   P    S  +L 
Sbjct: 341 ------RLIASF-NHL--------AEVPELPQNLKQLHVEY--NPLREFPDIPESVEDLR 383

>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 = 42.3 bits (100), Expect = 7e-04
 Identities = 35/164 (21%), Positives = 56/164 (34%), Gaps = 42/164 (25%)

Query: 508 SLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS------- 559
           SL    P LE L      +T     +P+     +K L V +     L  LP         
Sbjct: 85  SLPELPPHLESLVASCNSLT----ELPELPQS-LKSLLVDNNNLKALSDLPPLLEYLGVS 139

Query: 560 ---------IGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNS 610
                    +   + L+++D+ +   LK + P++  S   LE +  G+  ++        
Sbjct: 140 NNQLEKLPELQNSSFLKIIDVDNN-SLKKL-PDLPPS---LEFIAAGNNQLE-------- 186

Query: 611 ERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDIS 654
                 L EL +L  LT +  D      LPD      LE     
Sbjct: 187 -----ELPELQNLPFLTAIYADNNSLKKLPDLPL--SLESIVAG 223

>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 = 42.3 bits (100), Expect = 8e-04
 Identities = 77/441 (17%), Positives = 131/441 (29%), Gaps = 146/441 (33%)

Query: 541 KKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCS 600
             L  + ++  +L  LP  +   + L+++D+ +   LK + P++  S   LE +  G+  
Sbjct: 131 PLLEYLGVSNNQLEKLPE-LQNSSFLKIIDVDNN-SLKKL-PDLPPS---LEFIAAGNNQ 184

Query: 601 IKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSF 660
           ++              L EL +L  LT +  D      LPD      LE           
Sbjct: 185 LE-------------ELPELQNLPFLTAIYADNNSLKKLPDLPL--SLESIVAG------ 223

Query: 661 DSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVW 720
                                                    N L   +P  Q+L  L   
Sbjct: 224 ----------------------------------------NNIL-EELPELQNLPFLTTI 242

Query: 721 GCD--KLKYIFSASTIQSLEQLQHLEIRL------CKSLQEI-ISENRTDQVTAYFVFPR 771
             D   LK +       SLE L   +  L       +SL  + +SEN    ++   + P 
Sbjct: 243 YADNNLLKTLPD--LPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSE--LPPN 298

Query: 772 VTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSF 831
           +  L      E+R L         P+L+ L         +S N             L   
Sbjct: 299 LYYLNASSN-EIRSL-----CDLPPSLEEL--------NVSNN------------KLIEL 332

Query: 832 KKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFP------------- 878
             + P LE L  S   +  +     P+    +LKQL V  + L  FP             
Sbjct: 333 PALPPRLERLIASFNHLAEV-----PELP-QNLKQLHVEYNPLREFPDIPESVEDLRMNS 386

Query: 879 --LDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHD 936
              ++ E   NL+ L++              L         ++ L +     +       
Sbjct: 387 HLAEVPELPQNLKQLHVETN----------PLREFPDIPESVEDLRMNS-ERVVDP---- 431

Query: 937 SKELDFIFQHLQILRVLHCQN 957
               +F  +    L     ++
Sbjct: 432 ---YEFAHETTDKLEDDVFEH 449

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 43.2 bits (101), Expect = 1e-04
 Identities = 12/89 (13%), Positives = 34/89 (38%), Gaps = 11/89 (12%)

Query: 40  ANLENLKAEMEKLKAERTSIQRRVSEAKEKGEEIEEKVEKWLVSANGIIDQAAKFVED-E 98
           A  + L  E E ++  R   + +    +E     +   ++W        ++A K +E+  
Sbjct: 75  AQADRLTQEPESIRKWR---EEQRKRLQELDAASKVMEQEW-------REKAKKDLEEWN 124

Query: 99  ESTNKRCLKGLCPNLKTRYQLSKKAETEV 127
           +  +++  K    N        ++ + ++
Sbjct: 125 QRQSEQVEKNKINNRIADKAFYQQPDADI 153

>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 = 42.3 bits (100), Expect = 3e-04
 Identities = 22/138 (15%), Positives = 47/138 (34%), Gaps = 21/138 (15%)

Query: 497 ISLLNSSIHEVSLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRL-F 554
           +++ N      +       LE L I    +T  ++        G+  L ++D++      
Sbjct: 71  LTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIP----NLSGLTSLTLLDISHSAHDD 126

Query: 555 SLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSN 614
           S+ + I  L K+  +DL+    +  I+P  L +   L+ L +    +             
Sbjct: 127 SILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNIQFDGVH------------ 172

Query: 615 ASLDELMHLQRLTTLEID 632
                +    +L  L   
Sbjct: 173 -DYRGIEDFPKLNQLYAF 189

>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 = 43.2 bits (101), Expect = 3e-04
 Identities = 16/99 (16%), Positives = 40/99 (40%), Gaps = 15/99 (15%)

Query: 514 PQLEFLHID--PKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQ-LTKLRMLD 570
             L  L+I+    +     ++     +G+ +LR + + +  L  +         +L  L+
Sbjct: 31  ENLTELYIENQQHLQ----HLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLN 86

Query: 571 LTDCLQLKFIVPNILSSFTRLEELYMGS------CSIKW 603
           L+    L+ +    +   + L+EL +        C+++W
Sbjct: 87  LSFN-ALESLSWKTVQGLS-LQELVLSGNPLHCSCALRW 123

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 41.9 bits (99), Expect = 7e-04
 Identities = 17/128 (13%), Positives = 41/128 (32%), Gaps = 20/128 (15%)

Query: 531 NIPDNFFKGMKKLRVVDLTRVRLFSLP--SSIGQLTKLRMLDLTDCLQLKFIVPNILSSF 588
            + D       +++ +DL    + ++           L  L+L     +  +   +   F
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQV--VF 190

Query: 589 TRLEELYMGSCSIKWEVRKGNSERSNASLD-ELMHLQRLTTLEIDVEDDSILPDGLFT-K 646
            +L+ L + S  +               +  E      +T + +      ++   L   +
Sbjct: 191 AKLKTLDLSSNKLA-------------FMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQ 237

Query: 647 KLERFDIS 654
            LE FD+ 
Sbjct: 238 NLEHFDLR 245

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 41.2 bits (97), Expect = 8e-04
 Identities = 18/85 (21%), Positives = 36/85 (42%), Gaps = 7/85 (8%)

Query: 514 PQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDL 571
           PQL  ++    KIT    +I +  F+G   +  + LT  RL ++   +   L  L+ L L
Sbjct: 57  PQLRKINFSNNKIT----DIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLML 112

Query: 572 TDCLQLKFIVPNILSSFTRLEELYM 596
               ++  +  +     + +  L +
Sbjct: 113 RSN-RITCVGNDSFIGLSSVRLLSL 136

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	1085
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	100.0
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	100.0
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	100.0
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	100.0
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.98
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.97
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.97
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.97
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.97
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.97
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.96
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.96
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.96
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.96
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.96
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.96
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.96
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.95
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.95
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.94
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.94
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.94
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.94
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.93
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.93
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.92
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.92
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.92
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.91
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.91
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.91
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.91
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.9
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.9
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.9
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.89
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.88
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.85
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.85
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.85
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.84
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.83
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.83
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.82
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.81
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.8
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.79
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.79
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.79
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.79
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.79
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.79
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.79
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.79
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.79
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.79
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.77
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.77
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.77
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.76
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.76
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.74
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.73
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.72
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.69
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.68
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.68
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.67
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.66
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.65
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.62
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.61
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.61
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.6
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.6
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.59
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.59
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.58
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.58
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.57
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.56
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.56
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.56
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.56
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.56
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.55
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.5
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.48
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.48
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.47
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.47
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.46
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.46
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.45
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.44
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.43
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.4
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.4
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.39
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.39
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.38
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.38
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.37
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.37
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.35
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.35
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.34
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.34
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.33
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.32
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.31
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.31
2fna_A	357	Conserved hypothetical protein; structural genomic	99.3
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.29
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.26
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.24
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.24
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.23
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.21
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.21
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.19
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.19
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.18
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.18
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.16
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.15
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.15
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.12
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.09
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.08
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.06
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.06
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.05
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.05
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.99
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.98
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.97
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.97
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.96
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.95
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.94
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.92
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.91
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.85
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.84
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.71
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.67
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.64
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.61
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.55
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.52
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.5
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.45
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.39
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.39
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.38
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.28
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.21
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.17
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.11
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.11
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.08
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.0
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.93
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.91
3pvs_A	447	Replication-associated recombination protein A; ma	97.91
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.89
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.87
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.86
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.86
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.84
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.72
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.69
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.66
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.64
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.64
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.64
3bos_A	242	Putative DNA replication factor; P-loop containing	97.63
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.6
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.6
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.54
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.54
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.53
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.53
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.53
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.5
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.47
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.47
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.46
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.4
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.39
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.35
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.34
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.33
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.29
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.27
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.26
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.23
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.21
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.19
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.14
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.1
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.01
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.01
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.96
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.95
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.94
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.84
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.79
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.58
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.54
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.44
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.42
3co5_A	143	Putative two-component system transcriptional RES	96.42
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.3
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.26
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.25
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.12
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.08
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.07
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.01
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.97
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	95.94
3io5_A	333	Recombination and repair protein; storage dimer, i	95.91
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.84
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.73
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.72
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.7
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.58
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.54
2qgz_A	308	Helicase loader, putative primosome component; str	95.52
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.41
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.41
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.32
1xp8_A	366	RECA protein, recombinase A; recombination, radior	95.16
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.09
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.07
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.03
1u94_A	356	RECA protein, recombinase A; homologous recombinat	95.03
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	94.97
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	94.93
3ice_A	422	Transcription termination factor RHO; transcriptio	94.89
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	94.82
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	94.82
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.77
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	94.75
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.73
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	94.64
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.59
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	94.59
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	94.17
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.13
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.13
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.09
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.08
2r44_A	331	Uncharacterized protein; putative ATPase, structur	94.07
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.06
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	94.01
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	94.0
2xxa_A	433	Signal recognition particle protein; protein trans	93.98
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	93.97
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	93.92
3fwy_A	314	Light-independent protochlorophyllide reductase I	93.85
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	93.77
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	93.76
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	93.75
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	93.72
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	93.67
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	93.64
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	93.63
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	93.61
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	93.6
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	93.48
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	93.45
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	93.44
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	93.44
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.41
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	93.39
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	93.37
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	93.36
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	93.34
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	93.3
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	93.24
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	93.22
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	93.21
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	93.16
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	93.09
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	93.04
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.0
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	92.99
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	92.98
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	92.96
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	92.95
1via_A	175	Shikimate kinase; structural genomics, transferase	92.91
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	92.9
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	92.89
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	92.89
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	92.88
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	92.87
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	92.79
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	92.77
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	92.77
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	92.69
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	92.68
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	92.65
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	92.65
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	92.64
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	92.61
3l0o_A	427	Transcription termination factor RHO; helicase, RH	92.58
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	92.55
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	92.52
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	92.45
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	92.45
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	92.41
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	92.39
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	92.34
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	92.34
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	92.31
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	92.29
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	92.24
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	92.24
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	92.22
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	92.2
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	92.2
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	92.2
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	92.17
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	92.16
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	92.15
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	92.12
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	92.12
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	92.08
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	92.01
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	92.0
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	91.91
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	91.89
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	91.88
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	91.87
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	91.86
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	91.8
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	91.74
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	91.73
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	91.71
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	91.7
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	91.63
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	91.53
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	91.53
2vli_A	183	Antibiotic resistance protein; transferase, tunica	91.47
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	91.46
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	91.44
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	91.39
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	91.39
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	91.39
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	91.36
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	91.34
3end_A	307	Light-independent protochlorophyllide reductase ir	91.32
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	91.28
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	91.28
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	91.25
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	91.25
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	91.19
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	91.15
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	91.06
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	91.05
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	90.97
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	90.96
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	90.94
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	90.93
1tue_A	212	Replication protein E1; helicase, replication, E1E	90.91
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	90.89
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	90.82
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	90.75
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	90.74
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	90.72
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	90.69
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	90.65
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	90.64
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	90.63
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	90.6
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	90.59
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	90.45
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	90.44
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	90.32
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	90.25
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	90.23
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	90.18
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	90.15
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	90.0
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	89.99
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	89.99
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	89.92
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	89.9
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	89.88
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	89.78
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	89.62
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	89.6
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	89.6
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	89.58
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	89.55
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	89.54
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	89.54
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	89.48
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	89.46
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	89.46
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	89.46
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	89.42
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	89.41
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	89.38
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	89.34
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	89.33
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	89.31
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	89.31
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	89.24
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	89.22
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	89.1
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	89.09
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	89.04
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	89.03
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	89.03
2r6a_A	454	DNAB helicase, replicative helicase; replication,	88.84
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	88.84
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	88.83
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	88.82
2og2_A	359	Putative signal recognition particle receptor; nuc	88.8
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	88.78
1b0u_A	262	Histidine permease; ABC transporter, transport pro	88.78
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	88.77
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	88.77
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	88.71
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	88.63
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	88.48
2wji_A	165	Ferrous iron transport protein B homolog; membrane	88.48
1ji0_A	240	ABC transporter; ATP binding protein, structural g	88.45
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	88.45
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	88.44
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	88.41
1sgw_A	214	Putative ABC transporter; structural genomics, P p	88.4
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	88.36
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	88.32
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	88.27
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	88.25
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	88.21
1g6h_A	257	High-affinity branched-chain amino acid transport	88.17
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	88.15
2ged_A	193	SR-beta, signal recognition particle receptor beta	88.04
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	88.03
2eyu_A	261	Twitching motility protein PILT; pilus retraction	87.99
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	87.97
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	87.96
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	87.94
2ghi_A	260	Transport protein; multidrug resistance protein, M	87.93
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	87.91
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	87.83
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	87.83
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	87.82
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	87.76
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	87.74
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	87.72
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	87.61
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	87.44
3cwq_A	209	Para family chromosome partitioning protein; alpha	87.43
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	87.38
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	87.3
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	87.26
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	87.2
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	87.13
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	87.11
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	87.05
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	87.05
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	87.04
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	87.03
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	86.91
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	86.8
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	86.76
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	86.71
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	86.71
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	86.68
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	86.62
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	86.61
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	86.6
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	86.59
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	86.57
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	86.38
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	86.32
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	86.29
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	86.29
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	86.24
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	86.24
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	86.23
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	86.19
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	86.11
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	86.07

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=2.2e-41  Score=400.02  Aligned_cols=288  Identities=13%  Similarity=0.096  Sum_probs=222.2

Q ss_pred             cchHHHHHHHHHHhcc---CCceEEEEEcCCCCcHHHHHHHHHH--HHhhccCCCEEEEEEeCCCc--CHHHHHHHHHHH
Q 037935          164 ESRVSTLKSIQNALTD---VNVSIIGVYGMGGIGKTTLVKEFAR--QAREKKLFDRVVFSEVSQTP--DIKKIQGEIAEK  236 (1085)
Q Consensus       164 ~gr~~~~~~l~~~l~~---~~~~vi~I~G~~G~GKTtLa~~v~~--~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~~  236 (1085)
                      +||+.++++|.++|..   .+.++|+|+||||+||||||+++|+  +.+++.+|+.++||++++.+  ++..+++.|+.+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            5999999999999973   3689999999999999999999998  56777899999999999885  899999999999


Q ss_pred             hCCCCC--------CchHHHHHHHHHHHHHcCC-cEEEEEeCCCCcccccccccccCCCCCCcEEEe-------------
Q 037935          237 LGLELS--------DEAEYRRASRLYERLKNEN-KILVILDNIWKYLDLDTIGIPFGNDHEGYNFLI-------------  294 (1085)
Q Consensus       237 l~~~~~--------~~~~~~~~~~~~~~l~~~~-~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv-------------  294 (1085)
                      ++....        ..+.......+.+.+. ++ ||||||||||+.+++ .+    + ...||+|||             
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~-~~kr~LlVLDdv~~~~~~-~~----~-~~~gs~ilvTTR~~~v~~~~~~  283 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALI-DRPNTLFVFDDVVQEETI-RW----A-QELRLRCLVTTRDVEISNAASQ  283 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHT-TSTTEEEEEEEECCHHHH-HH----H-HHTTCEEEEEESBGGGGGGCCS
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHc-CCCcEEEEEECCCCchhh-cc----c-ccCCCEEEEEcCCHHHHHHcCC
Confidence            986521        1122233456666664 65 999999999998754 11    1 115677766             


Q ss_pred             -------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHhcCCHHHHHHHHHHhcCCCCCCC
Q 037935          295 -------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNF  367 (1085)
Q Consensus       295 -------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~~~~~~  367 (1085)
                             ++|+.++||+||..+++.....+.+.+++++|+++|+|+||||+++|+.++.++ .+|...+..   .. +..
T Consensus       284 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w~~~~~l~~---~l-~~~  358 (549)
T 2a5y_B          284 TCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNN---KL-ESR  358 (549)
T ss_dssp             CEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHH---HH-HHH
T ss_pred             CCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccch-HHHHHHhHH---Hh-hcc
Confidence                   899999999999999975544467788999999999999999999999988664 233333322   11 100


Q ss_pred             CCCcccchhhHHHHHhcCChHHHHHHHH-----------hccccCCCCCHHHHHHHHhhc--CCCCCC---chHHHHHHH
Q 037935          368 EGVPAETYSSIELSFKYLKGEQLKKIFL-----------LCSLIGNSFYLIDLLRYSMGL--GLFHGV---NKMEDARNK  431 (1085)
Q Consensus       368 ~~~~~~~~~~l~~sy~~L~~~~~k~cf~-----------~~s~fp~~i~~~~li~~w~~~--g~~~~~---~~~~~~~~~  431 (1085)
                        ...++..++.+||++||+ ++|.||+           |||+||++....  +++|+|+  ||+...   .+.+++++ 
T Consensus       359 --~~~~i~~~l~~Sy~~L~~-~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~-  432 (549)
T 2a5y_B          359 --GLVGVECITPYSYKSLAM-ALQRCVEVLSDEDRSALAFAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVAD-  432 (549)
T ss_dssp             --CSSTTCCCSSSSSSSHHH-HHHHHHHTSCHHHHHHTTGGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHH-
T ss_pred             --cHHHHHHHHhcccccccH-HHHHHHhccchhhhhHhhheeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHH-
Confidence              134688999999999997 7999999           999999984433  8999999  999643   34555554 


Q ss_pred             HHHHHHHHhHcccceecC--CcceEEEcHHHHHHHHHHhhccc
Q 037935          432 LYALVHELRDCCLLLEGD--RNETFYMHDVVCDVAVSIACRDQ  472 (1085)
Q Consensus       432 ~~~~~~~L~~~~ll~~~~--~~~~~~mHdl~~~~~~~~~~~e~  472 (1085)
                         ++++|+++||++...  ...+|+|||++|+||++++.+++
T Consensus       433 ---~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          433 ---RLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             ---HHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             ---HHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence               489999999998753  45689999999999999887654

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=100.00  E-value=1.5e-33  Score=346.93  Aligned_cols=539  Identities=16%  Similarity=0.123  Sum_probs=317.6

Q ss_pred             ecCccccCCCccccccceEEEeeccCccccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC
Q 037935          478 RNDAVWEWPDGDALKKCYAISLLNSSIHEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS  555 (1085)
Q Consensus       478 ~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~  555 (1085)
                      .+..+...|. ..+.++++|++++|.+..++..  ..+++|++|++++|.   +..+++..|.++++|++|+|++|.++.
T Consensus        12 s~~~L~~ip~-~~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~---l~~~~~~~~~~l~~L~~L~L~~n~l~~   87 (680)
T 1ziw_A           12 SHLKLTQVPD-DLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNT---ISKLEPELCQKLPMLKVLNLQHNELSQ   87 (680)
T ss_dssp             CSSCCSSCCS-CSCTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSC---CCCCCTTHHHHCTTCCEEECCSSCCCC
T ss_pred             CCCCcccccc-ccCCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCc---cCccCHHHHhcccCcCEEECCCCccCc
Confidence            3444444443 4567899999999999988763  388999999999987   677777789999999999999999999


Q ss_pred             Cch-hhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEec
Q 037935          556 LPS-SIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVE  634 (1085)
Q Consensus       556 lp~-~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  634 (1085)
                      +|. .|+++++|++|++++| .+..+|+..|+++++|++|++++|.+.           ...+..+.++++|++|++++|
T Consensus        88 l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~-----------~~~~~~~~~l~~L~~L~L~~n  155 (680)
T 1ziw_A           88 LSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSHNGLS-----------STKLGTQVQLENLQELLLSNN  155 (680)
T ss_dssp             CCTTTTTTCTTCSEEECCSS-CCCCCCSCTTTTCTTCCEEECCSSCCS-----------CCCCCSSSCCTTCCEEECCSS
T ss_pred             cChhhhccCCCCCEEECCCC-ccCccChhHccccCCCCEEECCCCccc-----------ccCchhhcccccCCEEEccCC
Confidence            986 6999999999999999 899998777899999999999999884           333445778999999999999


Q ss_pred             cCCCCCCcc----cccccceeeEEecCCCcccccccccccccccccccceeehhh-------------hhhccccccccc
Q 037935          635 DDSILPDGL----FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIV-------------MALELNAINVDE  697 (1085)
Q Consensus       635 ~~~~~~~~~----~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~-------------~~~~L~~l~L~~  697 (1085)
                      .+..++...    ..++|+.|+++.+.-....    ...+....++..+.+....             ....|+.+++..
T Consensus       156 ~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~----~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~  231 (680)
T 1ziw_A          156 KIQALKSEELDIFANSSLKKLELSSNQIKEFS----PGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSN  231 (680)
T ss_dssp             CCCCBCHHHHGGGTTCEESEEECTTCCCCCBC----TTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTT
T ss_pred             cccccCHHHhhccccccccEEECCCCcccccC----hhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccC
Confidence            988776542    4578888888654211000    0011111222222211110             012344555555


Q ss_pred             ccccCCCCCccccccc--ccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEE
Q 037935          698 IWHYNQLPAMVPCFQS--LTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTL  775 (1085)
Q Consensus       698 ~~~~~~~p~~~~~l~~--L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L  775 (1085)
                      +...+..|.++..++.  |+.|++++|.. ..++ +..++.+++|++|++++|.. ..+...       ....+++|+.|
T Consensus       232 n~l~~~~~~~~~~l~~~~L~~L~Ls~n~l-~~~~-~~~~~~l~~L~~L~L~~n~l-~~~~~~-------~~~~l~~L~~L  301 (680)
T 1ziw_A          232 SQLSTTSNTTFLGLKWTNLTMLDLSYNNL-NVVG-NDSFAWLPQLEYFFLEYNNI-QHLFSH-------SLHGLFNVRYL  301 (680)
T ss_dssp             SCCCEECTTTTGGGGGSCCCEEECTTSCC-CEEC-TTTTTTCTTCCEEECCSCCB-SEECTT-------TTTTCTTCCEE
T ss_pred             CcccccChhHhhccCcCCCCEEECCCCCc-CccC-cccccCcccccEeeCCCCcc-CccChh-------hhcCCCCccEE
Confidence            4444445555555543  66666666543 2322 23456666666666666642 111110       01134555555


Q ss_pred             ecCCCCccc-----ccc--CCCcccCCCcccceeeccCCCcccccCCCCCC-------CCCC----CCCCcccc-cccCC
Q 037935          776 KLDGLPELR-----CLY--PGMHTSEWPALKNLVACNCDKITLSQNDENDQ-------FGVP----AQQPLFSF-KKILP  836 (1085)
Q Consensus       776 ~l~~~~~l~-----~~~--~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~-------~~~~----~~~~l~~~-~~~l~  836 (1085)
                      +++++..-.     .++  .......+++|++|++.++..-...+......       ...+    ...+...+ ....+
T Consensus       302 ~L~~~~~~~~~~~~~lp~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~~~~~  381 (680)
T 1ziw_A          302 NLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHS  381 (680)
T ss_dssp             ECTTCBCCC------CCEECTTTTTTCTTCCEEECCSCCBCCCCTTTTTTCTTCCEEECTTCBSCCCEECTTTTGGGTTS
T ss_pred             eccchhhhcccccccccccChhhcccCCCCCEEECCCCccCCCChhHhccccCCcEEECCCCchhhhhcchhhhcccccC
Confidence            554321000     000  00012234444444444442111111000000       0000    00000000 00124


Q ss_pred             ccceeeeccCCceeeecccCCcCccCCceEEEecCCcccc-cchhHHhhccccceEEeecccccEEEecCCccccccccc
Q 037935          837 NLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLAC-FPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKL  915 (1085)
Q Consensus       837 ~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~-~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l  915 (1085)
                      +|+.|++++|.++.+.+..+..  +++|+.|++++|.++. ++...+..+++|+.|++++|.+..+.      ...+..+
T Consensus       382 ~L~~L~L~~n~l~~~~~~~~~~--l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~------~~~~~~~  453 (680)
T 1ziw_A          382 PLHILNLTKNKISKIESDAFSW--LGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLT------RNSFALV  453 (680)
T ss_dssp             CCCEEECTTSCCCEECTTTTTT--CTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECC------TTTTTTC
T ss_pred             cCceEECCCCCCCeEChhhhhC--CCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeC------hhhhhcC
Confidence            6666666666666665555544  5667777777666653 44455566667777777776655442      2234456


Q ss_pred             cccceeccCCccccc---ccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccch---
Q 037935          916 ALIKRLNLTRLNHLQ---QLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTS---  989 (1085)
Q Consensus       916 ~~L~~L~l~~c~~L~---~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~---  989 (1085)
                      ++|+.|+++++. ++   .++..     ...+++|+.|++++| ++..+++..+..+++|++|++++| +++.+...   
T Consensus       454 ~~L~~L~l~~n~-l~~~~~~p~~-----~~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~  525 (680)
T 1ziw_A          454 PSLQRLMLRRVA-LKNVDSSPSP-----FQPLRNLTILDLSNN-NIANINDDMLEGLEKLEILDLQHN-NLARLWKHANP  525 (680)
T ss_dssp             TTCCEEECTTSC-CBCTTCSSCT-----TTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCGGGGSTTST
T ss_pred             cccccchhcccc-ccccccCCcc-----cccCCCCCEEECCCC-CCCcCChhhhccccccCEEeCCCC-Cccccchhhcc
Confidence            667777776632 22   22211     124677777777776 566666666777777888888764 35544211   


Q ss_pred             ----hhhhhcccccEEEEcCCcccccccccccccccccccceeeccccccccccccccceecCCCccccCCCcCceeecc
Q 037935          990 ----SKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIG 1065 (1085)
Q Consensus       990 ----~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~ 1065 (1085)
                          ..+..+++|++|++++|. ++.++..         ....+++|+.|+++++ .++.++.+.+ ..+++|+.|++++
T Consensus       526 ~~~~~~~~~l~~L~~L~L~~N~-l~~i~~~---------~~~~l~~L~~L~Ls~N-~l~~l~~~~~-~~l~~L~~L~L~~  593 (680)
T 1ziw_A          526 GGPIYFLKGLSHLHILNLESNG-FDEIPVE---------VFKDLFELKIIDLGLN-NLNTLPASVF-NNQVSLKSLNLQK  593 (680)
T ss_dssp             TSCCCTTTTCTTCCEEECCSSC-CCCCCTT---------TTTTCTTCCEEECCSS-CCCCCCTTTT-TTCTTCCEEECTT
T ss_pred             CCcchhhcCCCCCCEEECCCCC-CCCCCHH---------HcccccCcceeECCCC-CCCcCCHhHh-CCCCCCCEEECCC
Confidence                124667778888887753 5554321         1122677888888764 5777777643 5678888888888


Q ss_pred             CCCcccccCC
Q 037935         1066 CPKMKLFTKG 1075 (1085)
Q Consensus      1066 C~~l~~lp~~ 1075 (1085)
                      | ++..+|..
T Consensus       594 N-~l~~~~~~  602 (680)
T 1ziw_A          594 N-LITSVEKK  602 (680)
T ss_dssp             S-CCCBCCHH
T ss_pred             C-cCCccChh
Confidence            6 67776654

>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*

Probab=100.00  E-value=2.4e-34  Score=349.14  Aligned_cols=508  Identities=15%  Similarity=0.095  Sum_probs=344.1

Q ss_pred             ecCccccCCCccccccceEEEeeccCccccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC
Q 037935          478 RNDAVWEWPDGDALKKCYAISLLNSSIHEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS  555 (1085)
Q Consensus       478 ~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~  555 (1085)
                      .+..+...|. ..+.++++|++++|.+..++..  ..+++|++|++++|.   +..+++..|.++++|++|+|++|.++.
T Consensus        19 ~~~~l~~ip~-~~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~---l~~i~~~~~~~l~~L~~L~Ls~n~l~~   94 (606)
T 3vq2_A           19 MDQKLSKVPD-DIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCE---IETIEDKAWHGLHHLSNLILTGNPIQS   94 (606)
T ss_dssp             TTSCCSSCCT-TSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC---CCEECTTTTTTCTTCCEEECTTCCCCC
T ss_pred             cCCCcccCCC-CCCCCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCc---ccccCHHHhhchhhcCEeECCCCcccc
Confidence            3444555554 4568899999999999988762  389999999999997   677877789999999999999999999


Q ss_pred             C-chhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEec
Q 037935          556 L-PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVE  634 (1085)
Q Consensus       556 l-p~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  634 (1085)
                      + |..|+++++|++|++++| .++.+++..++++++|++|++++|.+.          ....+..++++++|++|++++|
T Consensus        95 ~~p~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~----------~~~lp~~~~~l~~L~~L~Ls~n  163 (606)
T 3vq2_A           95 FSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAHNFIH----------SCKLPAYFSNLTNLVHVDLSYN  163 (606)
T ss_dssp             CCTTSSTTCTTCCEEECTTS-CCCCSSSSCCTTCTTCCEEECCSSCCC----------CCCCCGGGGTCTTCCEEECCSS
T ss_pred             cChhhcCCcccCCEEEccCC-ccccccccccCCCCCCCEEeCCCCccc----------ceechHhHhhcCCCCEEEccCC
Confidence            7 788999999999999999 999888666799999999999999883          1134677899999999999999


Q ss_pred             cCCCCCCc-c-cccccc----eeeEEecCCCcccccccccccccccccccceeehhh-----------hhhccccccccc
Q 037935          635 DDSILPDG-L-FTKKLE----RFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIV-----------MALELNAINVDE  697 (1085)
Q Consensus       635 ~~~~~~~~-~-~l~~L~----~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~-----------~~~~L~~l~L~~  697 (1085)
                      .+..++.. + .+.+|+    .++++.+.     ...+........+++.+.+....           .+..|+.+.+..
T Consensus       164 ~l~~~~~~~~~~l~~L~~~l~~L~l~~n~-----l~~~~~~~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~l~l~~  238 (606)
T 3vq2_A          164 YIQTITVNDLQFLRENPQVNLSLDMSLNP-----IDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLIL  238 (606)
T ss_dssp             CCCEECTTTTHHHHHCTTCCCEEECTTCC-----CCEECTTTTTTCEEEEEEEESCCSCHHHHHHHHHTTTTCEEEEEEE
T ss_pred             cceecChhhhhhhhccccccceeeccCCC-----cceeCcccccCceeeeeeccCCccchhHHHHHhccccccccccccc
Confidence            98877654 3 455554    46554322     12222222222345555444321           112222222211


Q ss_pred             ccc--cCC-------CCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCccccccccc
Q 037935          698 IWH--YNQ-------LPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFV  768 (1085)
Q Consensus       698 ~~~--~~~-------~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~  768 (1085)
                      ...  ...       .+..+..+ .++.+.+..++.+....+.  +..+++|+.|++++|.. ..++         ....
T Consensus       239 ~~~~~~~~l~~~~~~~~~~l~~l-~l~~l~l~~~~~~~~~~~~--~~~l~~L~~L~l~~~~~-~~l~---------~l~~  305 (606)
T 3vq2_A          239 GEFKDERNLEIFEPSIMEGLCDV-TIDEFRLTYTNDFSDDIVK--FHCLANVSAMSLAGVSI-KYLE---------DVPK  305 (606)
T ss_dssp             ECCTTSCCCSCCCGGGGTTGGGS-EEEEEEECCCTTCCGGGGS--CGGGTTCSEEEEESCCC-CCCC---------CCCT
T ss_pred             cccccCCcccccChHHhhhhhhc-cHhheeccccccccccccc--cccCCCCCEEEecCccc-hhhh---------hccc
Confidence            100  000       01111122 4666677555555554332  77888888888888762 2222         1224


Q ss_pred             CCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCc
Q 037935          769 FPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDI  848 (1085)
Q Consensus       769 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l  848 (1085)
                      +++|+.|+++++.- ..++ .  . .+++|++|.+.+|..+...+                  ...+++|++|++++|.+
T Consensus       306 ~~~L~~L~l~~n~l-~~lp-~--~-~l~~L~~L~l~~n~~~~~~~------------------~~~l~~L~~L~ls~n~l  362 (606)
T 3vq2_A          306 HFKWQSLSIIRCQL-KQFP-T--L-DLPFLKSLTLTMNKGSISFK------------------KVALPSLSYLDLSRNAL  362 (606)
T ss_dssp             TCCCSEEEEESCCC-SSCC-C--C-CCSSCCEEEEESCSSCEECC------------------CCCCTTCCEEECCSSCE
T ss_pred             cccCCEEEcccccC-cccc-c--C-CCCccceeeccCCcCccchh------------------hccCCCCCEEECcCCcc
Confidence            67888888888754 4443 2  2 67888888888886554332                  23478888888888887


Q ss_pred             eeee--cccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCc
Q 037935          849 TMIL--QDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRL  926 (1085)
Q Consensus       849 ~~~~--~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c  926 (1085)
                      +...  +..+..  +++|++|++++|.++.+| ..+..+++|+.|++++|.+....+     ...+..+++|+.|++++|
T Consensus       363 ~~~~~~~~~~~~--~~~L~~L~L~~n~l~~~~-~~~~~l~~L~~L~l~~n~l~~~~~-----~~~~~~l~~L~~L~l~~n  434 (606)
T 3vq2_A          363 SFSGCCSYSDLG--TNSLRHLDLSFNGAIIMS-ANFMGLEELQHLDFQHSTLKRVTE-----FSAFLSLEKLLYLDISYT  434 (606)
T ss_dssp             EEEEECCHHHHC--CSCCCEEECCSCSEEEEC-CCCTTCTTCCEEECTTSEEESTTT-----TTTTTTCTTCCEEECTTS
T ss_pred             CCCcchhhhhcc--CCcccEeECCCCccccch-hhccCCCCCCeeECCCCccCCccC-----hhhhhccccCCEEECcCC
Confidence            7663  333333  688888888888888877 556788888888888888665432     124556788888888885


Q ss_pred             ccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCC
Q 037935          927 NHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGC 1006 (1085)
Q Consensus       927 ~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c 1006 (1085)
                      . +.......+    ..+++|+.|++++|.-.....|..+..+++|++|++++| +++.. .+..+..+++|++|++++|
T Consensus       435 ~-l~~~~~~~~----~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n-~l~~~-~~~~~~~l~~L~~L~Ls~N  507 (606)
T 3vq2_A          435 N-TKIDFDGIF----LGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKC-QLEQI-SWGVFDTLHRLQLLNMSHN  507 (606)
T ss_dssp             C-CEECCTTTT----TTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS-CCCEE-CTTTTTTCTTCCEEECCSS
T ss_pred             C-CCccchhhh----cCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCC-cCCcc-ChhhhcccccCCEEECCCC
Confidence            4 433322221    246888888888884333245667888888999999886 46655 3455677888999999887


Q ss_pred             cccccccccccccccccccceeeccccccccccccccceecCCCccccCC-CcCceeeccCCCc
Q 037935         1007 PAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLP-SLQDLWVIGCPKM 1069 (1085)
Q Consensus      1007 ~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l~-~L~~L~i~~C~~l 1069 (1085)
                      . ++.+.+.         ....+++|+.|++++|+ ++++|..  ...++ +|++|++.+||-.
T Consensus       508 ~-l~~~~~~---------~~~~l~~L~~L~l~~N~-l~~~p~~--~~~l~~~L~~l~l~~N~~~  558 (606)
T 3vq2_A          508 N-LLFLDSS---------HYNQLYSLSTLDCSFNR-IETSKGI--LQHFPKSLAFFNLTNNSVA  558 (606)
T ss_dssp             C-CSCEEGG---------GTTTCTTCCEEECTTSC-CCCEESC--GGGSCTTCCEEECCSCCCC
T ss_pred             c-CCCcCHH---------HccCCCcCCEEECCCCc-CcccCHh--HhhhcccCcEEEccCCCcc
Confidence            4 5554331         12236888888888874 7788876  45676 5899998886543

>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*

Probab=100.00  E-value=8.1e-34  Score=351.79  Aligned_cols=529  Identities=14%  Similarity=0.052  Sum_probs=279.1

Q ss_pred             cccceEEEeeccCccc-ccc--c-CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hh---hhc
Q 037935          491 LKKCYAISLLNSSIHE-VSL--E-FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SS---IGQ  562 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~-l~~--~-~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~---i~~  562 (1085)
                      ..++++|++++|.+.. +|.  . ..+++|++|++++|..  ...+|..++.++++|++|++++|.++..+ ..   +++
T Consensus        99 l~~L~~L~Ls~n~l~~~~~~~~~l~~l~~L~~L~Ls~n~l--~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~  176 (768)
T 3rgz_A           99 SASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTL--DFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDG  176 (768)
T ss_dssp             CTTCCEEECCSSEEEEEGGGGGGGGGCTTCCEEECCSSEE--ECCSSCCSCCCCTTCSEEECCSSCCEEETHHHHHHTTC
T ss_pred             CCCCCEEECCCCcCCCcCCChHHHhCCCCCCEEECcCCcc--CCcCCHHHhccCCCCCEEECCCCccCCcCChhhhhhcc
Confidence            4466777777666542 333  2 2566777777766652  23334433456666666666666665532 22   455


Q ss_pred             cccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCC-CCC
Q 037935          563 LTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI-LPD  641 (1085)
Q Consensus       563 L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~-~~~  641 (1085)
                      +++|++|++++| .+....+  ++++++|++|++++|.+..           ..+. ++++++|++|++++|.+.. +|.
T Consensus       177 l~~L~~L~Ls~n-~l~~~~~--~~~l~~L~~L~Ls~n~l~~-----------~~~~-l~~l~~L~~L~Ls~n~l~~~~~~  241 (768)
T 3rgz_A          177 CGELKHLAISGN-KISGDVD--VSRCVNLEFLDVSSNNFST-----------GIPF-LGDCSALQHLDISGNKLSGDFSR  241 (768)
T ss_dssp             CTTCCEEECCSS-EEESCCB--CTTCTTCCEEECCSSCCCS-----------CCCB-CTTCCSCCEEECCSSCCCSCHHH
T ss_pred             CCCCCEEECCCC-cccccCC--cccCCcCCEEECcCCcCCC-----------CCcc-cccCCCCCEEECcCCcCCCcccH
Confidence            666666666665 4444333  2555555666655555421           1111 4444555555555544432 222


Q ss_pred             cc-cccccceeeEEecCCCcccccccccccccccccccceeeh----------hhh-hhcccccccccccccCCCCCccc
Q 037935          642 GL-FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFC----------IVM-ALELNAINVDEIWHYNQLPAMVP  709 (1085)
Q Consensus       642 ~~-~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~----------~~~-~~~L~~l~L~~~~~~~~~p~~~~  709 (1085)
                      .+ .+++|+.|+++.+.-..    .+.. . ...+++.+.+..          +.. ...|+.+++..+...+..|.++.
T Consensus       242 ~l~~l~~L~~L~Ls~n~l~~----~~~~-~-~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~~~  315 (768)
T 3rgz_A          242 AISTCTELKLLNISSNQFVG----PIPP-L-PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFG  315 (768)
T ss_dssp             HTTTCSSCCEEECCSSCCEE----SCCC-C-CCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGGGG
T ss_pred             HHhcCCCCCEEECCCCcccC----ccCc-c-ccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchHHh
Confidence            22 34444444443321000    0000 0 111111111111          111 14455666666665556677777


Q ss_pred             ccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCC-cccEEecCCCCccccccC
Q 037935          710 CFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFP-RVTTLKLDGLPELRCLYP  788 (1085)
Q Consensus       710 ~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~-~L~~L~l~~~~~l~~~~~  788 (1085)
                      .+++|++|++++|.....+ |...++.+++|++|++++|.....++...        ..++ +|+.|+++++.--...+.
T Consensus       316 ~l~~L~~L~L~~n~l~~~i-p~~~l~~l~~L~~L~Ls~n~l~~~~p~~l--------~~l~~~L~~L~Ls~N~l~~~~~~  386 (768)
T 3rgz_A          316 SCSLLESLALSSNNFSGEL-PMDTLLKMRGLKVLDLSFNEFSGELPESL--------TNLSASLLTLDLSSNNFSGPILP  386 (768)
T ss_dssp             GCTTCCEEECCSSEEEEEC-CHHHHTTCTTCCEEECCSSEEEECCCTTH--------HHHTTTCSEEECCSSEEEEECCT
T ss_pred             cCCCccEEECCCCcccCcC-CHHHHhcCCCCCEEeCcCCccCccccHHH--------HhhhcCCcEEEccCCCcCCCcCh
Confidence            7777777777776544344 33446677777777777765221111100        0122 455555544321111111


Q ss_pred             CCcccCCCcccceeeccCCCcccccCCCCC-------CCCCCC-CCCcccccccCCccceeeeccCCceeeecccCCcCc
Q 037935          789 GMHTSEWPALKNLVACNCDKITLSQNDEND-------QFGVPA-QQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHL  860 (1085)
Q Consensus       789 ~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~-------~~~~~~-~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~  860 (1085)
                      ......+++|++|.+.+|......|.....       ....+. .......+..+++|+.|++++|.+.+..+..+..  
T Consensus       387 ~~~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~--  464 (768)
T 3rgz_A          387 NLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMY--  464 (768)
T ss_dssp             TTTCSTTCCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGG--
T ss_pred             hhhhcccCCccEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcC--
Confidence            111111334444444444222111100000       000000 0011122355677777777777776655555544  


Q ss_pred             cCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchh
Q 037935          861 FGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKEL  940 (1085)
Q Consensus       861 ~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~  940 (1085)
                      +++|++|++++|.++...+..+..+++|+.|++++|.++...      +..+..+++|+.|++++|.-...++..     
T Consensus       465 l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~------p~~~~~l~~L~~L~L~~N~l~~~~p~~-----  533 (768)
T 3rgz_A          465 VKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEI------PKWIGRLENLAILKLSNNSFSGNIPAE-----  533 (768)
T ss_dssp             CTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCC------CGGGGGCTTCCEEECCSSCCEEECCGG-----
T ss_pred             CCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcC------ChHHhcCCCCCEEECCCCcccCcCCHH-----
Confidence            677888888877777555556677788888888888766443      234566778888888885433344431     


Q ss_pred             hhHhhhhceeeeecccccccc-----------------------------------------------------------
Q 037935          941 DFIFQHLQILRVLHCQNLLSL-----------------------------------------------------------  961 (1085)
Q Consensus       941 ~~~l~~L~~L~i~~c~~l~~~-----------------------------------------------------------  961 (1085)
                      ...+++|+.|++++|+-...+                                                           
T Consensus       534 l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  613 (768)
T 3rgz_A          534 LGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPC  613 (768)
T ss_dssp             GGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCS
T ss_pred             HcCCCCCCEEECCCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhcccccccc
Confidence            235678888888877322111                                                           


Q ss_pred             ----------CCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccccccccccceeecc
Q 037935          962 ----------LPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSK 1031 (1085)
Q Consensus       962 ----------~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~ 1031 (1085)
                                .|..+..+++|+.|++++| ++... .+..+..+++|+.|++++|. ++..++         .....+++
T Consensus       614 ~l~~~~~~g~~~~~~~~l~~L~~LdLs~N-~l~g~-ip~~l~~l~~L~~L~Ls~N~-l~g~ip---------~~l~~L~~  681 (768)
T 3rgz_A          614 NITSRVYGGHTSPTFDNNGSMMFLDMSYN-MLSGY-IPKEIGSMPYLFILNLGHND-ISGSIP---------DEVGDLRG  681 (768)
T ss_dssp             CTTSCEEEEECCCSCSSSBCCCEEECCSS-CCBSC-CCGGGGGCTTCCEEECCSSC-CCSCCC---------GGGGGCTT
T ss_pred             ccccceecccCchhhhccccccEEECcCC-ccccc-CCHHHhccccCCEEeCcCCc-cCCCCC---------hHHhCCCC
Confidence                      1122344567888888775 45543 23456778888888888865 432222         12334788


Q ss_pred             ccccccccccccceecCCCccccCCCcCceeeccCCCcccccCCCcC
Q 037935         1032 LSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTKGELS 1078 (1085)
Q Consensus      1032 L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~l~~lp~~~~~ 1078 (1085)
                      |+.|+++++.--..+|..  ..++++|++|++++|+---.+|.++..
T Consensus       682 L~~LdLs~N~l~g~ip~~--l~~l~~L~~L~ls~N~l~g~iP~~~~~  726 (768)
T 3rgz_A          682 LNILDLSSNKLDGRIPQA--MSALTMLTEIDLSNNNLSGPIPEMGQF  726 (768)
T ss_dssp             CCEEECCSSCCEECCCGG--GGGCCCCSEEECCSSEEEEECCSSSSG
T ss_pred             CCEEECCCCcccCcCChH--HhCCCCCCEEECcCCcccccCCCchhh
Confidence            999999987655567765  578899999999998766677776543

>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*

Probab=100.00  E-value=2.6e-33  Score=340.08  Aligned_cols=513  Identities=18%  Similarity=0.155  Sum_probs=335.6

Q ss_pred             ccccCCCccccccceEEEeeccCcccccc-c-CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-c
Q 037935          481 AVWEWPDGDALKKCYAISLLNSSIHEVSL-E-FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-P  557 (1085)
Q Consensus       481 ~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~-~-~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p  557 (1085)
                      .+...| ...+..+++|++++|.+..++. . ..+++|++|++++|.   +..+.+..|.++++|++|+|++|.++.+ |
T Consensus        23 ~l~~iP-~~l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~---i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~   98 (606)
T 3t6q_A           23 GLNEIP-GTLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQ---IYWIHEDTFQSQHRLDTLVLTANPLIFMAE   98 (606)
T ss_dssp             CCSSCC-TTSCTTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCC---CCEECTTTTTTCTTCCEEECTTCCCSEECT
T ss_pred             CcccCc-CCCCCcCcEEEccCCccCcCChhHhccCccceEEECCCCc---cceeChhhccCccccCeeeCCCCcccccCh
Confidence            344444 3456689999999999988853 3 388999999999987   6667667799999999999999999875 6


Q ss_pred             hhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          558 SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       558 ~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      ..++++++|++|++++| .++.+++..++++++|++|++++|.+...           .+..+..+++|++|++++|.+.
T Consensus        99 ~~~~~l~~L~~L~L~~n-~i~~l~~~~~~~l~~L~~L~L~~n~l~~~-----------~~~~~~~l~~L~~L~L~~n~l~  166 (606)
T 3t6q_A           99 TALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLESLYLGSNHISSI-----------KLPKGFPTEKLKVLDFQNNAIH  166 (606)
T ss_dssp             TTTSSCTTCCEEECTTS-CCSCGGGSCCTTCTTCCEEECCSSCCCCC-----------CCCTTCCCTTCCEEECCSSCCC
T ss_pred             hhhcccccccEeecccc-CcccCCcchhccCCcccEEECCCCccccc-----------CcccccCCcccCEEEcccCccc
Confidence            78999999999999999 89888655579999999999999988421           2233445899999999999888


Q ss_pred             CCCCcc--cccccceeeEEecCCCcccccccccccccccccccceeehhhh----hhccccccccccccc--------CC
Q 037935          638 ILPDGL--FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVM----ALELNAINVDEIWHY--------NQ  703 (1085)
Q Consensus       638 ~~~~~~--~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~----~~~L~~l~L~~~~~~--------~~  703 (1085)
                      .++...  .+++|+.+.+....   +....+.........++.+.+.....    ...+..+.+...+..        ..
T Consensus       167 ~~~~~~~~~l~~L~~l~L~l~~---n~l~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i  243 (606)
T 3t6q_A          167 YLSKEDMSSLQQATNLSLNLNG---NDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDI  243 (606)
T ss_dssp             EECHHHHHTTTTCCSEEEECTT---CCCCEECTTTTTTCEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCC
T ss_pred             ccChhhhhhhcccceeEEecCC---CccCccChhHhhhccccccccCCchhHHHHhhhccccchhheechhhcccccccc
Confidence            775543  67778743332211   11122222333334555555443221    111221111111110        11


Q ss_pred             CCCcccccc--cccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCC
Q 037935          704 LPAMVPCFQ--SLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLP  781 (1085)
Q Consensus       704 ~p~~~~~l~--~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~  781 (1085)
                      .+..+..+.  +|+.|++++|. +..++ ...++.+++|++|++++|. +..++..        ...+++|++|+++++.
T Consensus       244 ~~~~~~~l~~~~L~~L~l~~n~-l~~~~-~~~~~~l~~L~~L~l~~n~-l~~lp~~--------l~~l~~L~~L~l~~n~  312 (606)
T 3t6q_A          244 SPAVFEGLCEMSVESINLQKHY-FFNIS-SNTFHCFSGLQELDLTATH-LSELPSG--------LVGLSTLKKLVLSANK  312 (606)
T ss_dssp             CGGGGGGGGGSEEEEEECTTCC-CSSCC-TTTTTTCTTCSEEECTTSC-CSCCCSS--------CCSCTTCCEEECTTCC
T ss_pred             ChhHhchhhcCceeEEEeecCc-cCccC-HHHhccccCCCEEeccCCc-cCCCChh--------hcccccCCEEECccCC
Confidence            112222232  68888888864 44442 3457888888888888886 3333221        1247888888888753


Q ss_pred             ccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeee--cccCCcC
Q 037935          782 ELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMIL--QDDFPQH  859 (1085)
Q Consensus       782 ~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~--~~~~~~~  859 (1085)
                       +....+ .....+++|+.|.+.+|......+.               ..+..+++|++|++++|.++...  +..+.. 
T Consensus       313 -l~~~~~-~~~~~l~~L~~L~l~~n~~~~~~~~---------------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~-  374 (606)
T 3t6q_A          313 -FENLCQ-ISASNFPSLTHLSIKGNTKRLELGT---------------GCLENLENLRELDLSHDDIETSDCCNLQLRN-  374 (606)
T ss_dssp             -CSBGGG-GCGGGCTTCSEEECCSCSSCCBCCS---------------STTTTCTTCCEEECCSSCCCEEEESTTTTTT-
T ss_pred             -cCcCch-hhhhccCcCCEEECCCCCcccccch---------------hhhhccCcCCEEECCCCccccccCcchhccc-
Confidence             333222 1245678888888888754433221               11345788888888888877765  334444 


Q ss_pred             ccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCch
Q 037935          860 LFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKE  939 (1085)
Q Consensus       860 ~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~  939 (1085)
                       +++|++|++++|.++.+++..+..+++|+.|++++|.+....+     ...+..+++|+.|++++| .++......+  
T Consensus       375 -l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-----~~~~~~l~~L~~L~l~~n-~l~~~~~~~~--  445 (606)
T 3t6q_A          375 -LSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDA-----QSPFQNLHLLKVLNLSHS-LLDISSEQLF--  445 (606)
T ss_dssp             -CTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTT-----CCTTTTCTTCCEEECTTC-CCBTTCTTTT--
T ss_pred             -CCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCccc-----chhhhCcccCCEEECCCC-ccCCcCHHHH--
Confidence             7888888888888888877778888888888888888665422     123556788888888884 4444433222  


Q ss_pred             hhhHhhhhceeeeeccccccc---cCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccc
Q 037935          940 LDFIFQHLQILRVLHCQNLLS---LLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISD 1016 (1085)
Q Consensus       940 ~~~~l~~L~~L~i~~c~~l~~---~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~ 1016 (1085)
                        ..+++|+.|++++|. +..   ..+..+..+++|++|++++| ++..+ .+..+..+++|++|++++|. ++...+. 
T Consensus       446 --~~l~~L~~L~L~~n~-l~~~~~~~~~~~~~l~~L~~L~Ls~n-~l~~~-~~~~~~~l~~L~~L~Ls~N~-l~~~~~~-  518 (606)
T 3t6q_A          446 --DGLPALQHLNLQGNH-FPKGNIQKTNSLQTLGRLEILVLSFC-DLSSI-DQHAFTSLKMMNHVDLSHNR-LTSSSIE-  518 (606)
T ss_dssp             --TTCTTCCEEECTTCB-CGGGEECSSCGGGGCTTCCEEECTTS-CCCEE-CTTTTTTCTTCCEEECCSSC-CCGGGGG-
T ss_pred             --hCCCCCCEEECCCCC-CCccccccchhhccCCCccEEECCCC-ccCcc-ChhhhccccCCCEEECCCCc-cCcCChh-
Confidence              247888888888884 332   12345777888888888886 46655 34556778888888888864 5444321 


Q ss_pred             cccccccccceeeccccccccccccccceecCCCccccCCCcCceeeccCCC
Q 037935         1017 EDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPK 1068 (1085)
Q Consensus      1017 ~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~ 1068 (1085)
                              ....+++| .|+++++. ++.++... ...+++|++|++++||-
T Consensus       519 --------~l~~l~~L-~L~L~~N~-l~~~~~~~-~~~l~~L~~L~l~~N~~  559 (606)
T 3t6q_A          519 --------ALSHLKGI-YLNLASNH-ISIILPSL-LPILSQQRTINLRQNPL  559 (606)
T ss_dssp             --------GGTTCCSC-EEECCSSC-CCCCCGGG-HHHHHTSSEEECTTCCE
T ss_pred             --------HhCccccc-EEECcCCc-ccccCHhh-cccCCCCCEEeCCCCCc
Confidence                    11225667 77877763 55555443 35678888888888764

>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*

Probab=100.00  E-value=1.4e-32  Score=333.72  Aligned_cols=492  Identities=16%  Similarity=0.122  Sum_probs=353.4

Q ss_pred             ceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEecc
Q 037935          494 CYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLT  572 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls  572 (1085)
                      -+.++.+++.++.+|..+. +++++|++++|.   +..++...|.++++|++|++++|.++.+ |..|+++++|++|+|+
T Consensus        13 ~~~~~c~~~~l~~ip~~~~-~~l~~L~Ls~n~---l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls   88 (606)
T 3vq2_A           13 NITYQCMDQKLSKVPDDIP-SSTKNIDLSFNP---LKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILT   88 (606)
T ss_dssp             TTEEECTTSCCSSCCTTSC-TTCCEEECTTSC---CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECT
T ss_pred             CCceEccCCCcccCCCCCC-CCcCEEECCCCC---cCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECC
Confidence            3568888889999998664 899999999998   6788887899999999999999999987 5689999999999999


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCC--CCCcc-cccccc
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI--LPDGL-FTKKLE  649 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~--~~~~~-~l~~L~  649 (1085)
                      +| .++.+++..|+++++|++|++++|.+...           .+..++++++|++|++++|.+..  +|..+ .+++|+
T Consensus        89 ~n-~l~~~~p~~~~~l~~L~~L~L~~n~l~~~-----------~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~  156 (606)
T 3vq2_A           89 GN-PIQSFSPGSFSGLTSLENLVAVETKLASL-----------ESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLV  156 (606)
T ss_dssp             TC-CCCCCCTTSSTTCTTCCEEECTTSCCCCS-----------SSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCC
T ss_pred             CC-cccccChhhcCCcccCCEEEccCCccccc-----------cccccCCCCCCCEEeCCCCcccceechHhHhhcCCCC
Confidence            99 89998666679999999999999998422           22448899999999999999874  56666 789999


Q ss_pred             eeeEEecCCCcccccccccccccccccccceeehhhhhhccc----ccccccccccCCCCCcccccccccEEEEcCCCCC
Q 037935          650 RFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELN----AINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKL  725 (1085)
Q Consensus       650 ~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~----~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l  725 (1085)
                      .|+++.+.                  +.......+..+..|+    .+++..+......+..+.. .+|+.|++++|...
T Consensus       157 ~L~Ls~n~------------------l~~~~~~~~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~~-~~L~~L~L~~n~~~  217 (606)
T 3vq2_A          157 HVDLSYNY------------------IQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQG-IKLHELTLRGNFNS  217 (606)
T ss_dssp             EEECCSSC------------------CCEECTTTTHHHHHCTTCCCEEECTTCCCCEECTTTTTT-CEEEEEEEESCCSC
T ss_pred             EEEccCCc------------------ceecChhhhhhhhccccccceeeccCCCcceeCcccccC-ceeeeeeccCCccc
Confidence            99986432                  1111122223333332    4555555444333333433 38999999988654


Q ss_pred             ccccchhhHhhcccccEEEeccccchH--HHh---------------------cc-CCcccccccccCCcccEEecCCCC
Q 037935          726 KYIFSASTIQSLEQLQHLEIRLCKSLQ--EII---------------------SE-NRTDQVTAYFVFPRVTTLKLDGLP  781 (1085)
Q Consensus       726 ~~l~~~~~l~~l~~L~~L~l~~~~~l~--~i~---------------------~~-~~~~~~~~~~~~~~L~~L~l~~~~  781 (1085)
                      ... .+..++.+++|+.+.+.....-.  .+.                     .. ...+.......+++|+.|+++++.
T Consensus       218 ~~~-~~~~~~~l~~L~~l~l~~~~~~~~~~l~~~~~~~~~~l~~l~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~  296 (606)
T 3vq2_A          218 SNI-MKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVS  296 (606)
T ss_dssp             HHH-HHHHHHTTTTCEEEEEEEECCTTSCCCSCCCGGGGTTGGGSEEEEEEECCCTTCCGGGGSCGGGTTCSEEEEESCC
T ss_pred             hhH-HHHHhccccccccccccccccccCCcccccChHHhhhhhhccHhheeccccccccccccccccCCCCCEEEecCcc
Confidence            333 24567888888887764221000  000                     00 000011113356788888888754


Q ss_pred             ccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCcc
Q 037935          782 ELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLF  861 (1085)
Q Consensus       782 ~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~  861 (1085)
                       +..+.   ....+++|++|.+.+|.. ..+|                .+  .+++|++|++++|......  .+.  .+
T Consensus       297 -~~~l~---~l~~~~~L~~L~l~~n~l-~~lp----------------~~--~l~~L~~L~l~~n~~~~~~--~~~--~l  349 (606)
T 3vq2_A          297 -IKYLE---DVPKHFKWQSLSIIRCQL-KQFP----------------TL--DLPFLKSLTLTMNKGSISF--KKV--AL  349 (606)
T ss_dssp             -CCCCC---CCCTTCCCSEEEEESCCC-SSCC----------------CC--CCSSCCEEEEESCSSCEEC--CCC--CC
T ss_pred             -chhhh---hccccccCCEEEcccccC-cccc----------------cC--CCCccceeeccCCcCccch--hhc--cC
Confidence             33332   245577889999988865 4443                11  4899999999999633322  233  38


Q ss_pred             CCceEEEecCCcccccc--hhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCccccccccc-CCCc
Q 037935          862 GSLKQLRVGDDDLACFP--LDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWK-HDSK  938 (1085)
Q Consensus       862 ~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~-~~~~  938 (1085)
                      ++|++|++++|.++..+  +..+..+++|+.|++++|.+..++       ..+..+++|+.|+++++ .+..+.. ..+ 
T Consensus       350 ~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~-------~~~~~l~~L~~L~l~~n-~l~~~~~~~~~-  420 (606)
T 3vq2_A          350 PSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMS-------ANFMGLEELQHLDFQHS-TLKRVTEFSAF-  420 (606)
T ss_dssp             TTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCSEEEEC-------CCCTTCTTCCEEECTTS-EEESTTTTTTT-
T ss_pred             CCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCccccch-------hhccCCCCCCeeECCCC-ccCCccChhhh-
Confidence            99999999999998874  466789999999999999987764       34566889999999995 4444432 222 


Q ss_pred             hhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccc
Q 037935          939 ELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDED 1018 (1085)
Q Consensus       939 ~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~ 1018 (1085)
                         ..+++|+.|++++| .+....|..+..+++|++|++++|. +.....+..+..+++|++|++++|. ++.++..   
T Consensus       421 ---~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~---  491 (606)
T 3vq2_A          421 ---LSLEKLLYLDISYT-NTKIDFDGIFLGLTSLNTLKMAGNS-FKDNTLSNVFANTTNLTFLDLSKCQ-LEQISWG---  491 (606)
T ss_dssp             ---TTCTTCCEEECTTS-CCEECCTTTTTTCTTCCEEECTTCE-EGGGEECSCCTTCTTCCEEECTTSC-CCEECTT---
T ss_pred             ---hccccCCEEECcCC-CCCccchhhhcCCCCCCEEECCCCc-CCCcchHHhhccCCCCCEEECCCCc-CCccChh---
Confidence               25799999999999 5666677778999999999999864 5542234557889999999999985 5555331   


Q ss_pred             cccccccceeeccccccccccccccceecCCCccccCCCcCceeeccCCCcccccCC
Q 037935         1019 ETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTKG 1075 (1085)
Q Consensus      1019 ~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~l~~lp~~ 1075 (1085)
                            ....+++|+.|++++|+ ++.+.... ...+++|++|++++| ++..+|.+
T Consensus       492 ------~~~~l~~L~~L~Ls~N~-l~~~~~~~-~~~l~~L~~L~l~~N-~l~~~p~~  539 (606)
T 3vq2_A          492 ------VFDTLHRLQLLNMSHNN-LLFLDSSH-YNQLYSLSTLDCSFN-RIETSKGI  539 (606)
T ss_dssp             ------TTTTCTTCCEEECCSSC-CSCEEGGG-TTTCTTCCEEECTTS-CCCCEESC
T ss_pred             ------hhcccccCCEEECCCCc-CCCcCHHH-ccCCCcCCEEECCCC-cCcccCHh
Confidence                  12237999999999985 55553322 467899999999998 48899986

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=1.3e-33  Score=332.92  Aligned_cols=261  Identities=16%  Similarity=0.162  Sum_probs=207.4

Q ss_pred             ccchHHHHHHHHHHhcc-CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCE-EEEEEeCCCcCHHHHHHHHHHHhCC-
Q 037935          163 FESRVSTLKSIQNALTD-VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDR-VVFSEVSQTPDIKKIQGEIAEKLGL-  239 (1085)
Q Consensus       163 ~~gr~~~~~~l~~~l~~-~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~~~l~~-  239 (1085)
                      .+||+.++++|.++|.+ +..++|+|+||||+||||||+++|++.+++.+|+. ++|+++++.++...++..+++.++. 
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i  209 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI  209 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhc
Confidence            49999999999999874 56899999999999999999999998777778986 9999999999998888888775421 


Q ss_pred             --C----CCC---c-hHH-HHHHHHHHHH--HcCCcEEEEEeCCCCcccccccccccCCCCCCcEEEe------------
Q 037935          240 --E----LSD---E-AEY-RRASRLYERL--KNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLI------------  294 (1085)
Q Consensus       240 --~----~~~---~-~~~-~~~~~~~~~l--~~~~~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv------------  294 (1085)
                        .    ...   . ... .....+.+.+  ..++|+||||||||+.+.|+.+    +   .||+|||            
T Consensus       210 ~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f----~---pGSRILVTTRd~~Va~~l~  282 (1221)
T 1vt4_I          210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF----N---LSCKILLTTRFKQVTDFLS  282 (1221)
T ss_dssp             CSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHH----H---SSCCEEEECSCSHHHHHHH
T ss_pred             CcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhh----C---CCeEEEEeccChHHHHhcC
Confidence              1    110   0 111 1223333333  1489999999999998888764    2   6888888            


Q ss_pred             -------c------CCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHhcC--CHHHHHHHHHHh
Q 037935          295 -------G------NLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNK--SLHEWKNALREL  359 (1085)
Q Consensus       295 -------~------~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~~~--~~~~w~~~~~~l  359 (1085)
                             +      +|+.+|||+||..+.+..     ..++..+|   |+|+||||+++|+.|+++  +..+|+..    
T Consensus       283 g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~-----~eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~----  350 (1221)
T 1vt4_I          283 AATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-----PQDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHV----  350 (1221)
T ss_dssp             HHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC-----TTTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHC----
T ss_pred             CCeEEEecCccccCCcCHHHHHHHHHHHcCCC-----HHHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcC----
Confidence                   3      899999999999986432     23334444   999999999999999966  78888752    


Q ss_pred             cCCCCCCCCCCcccchhhHHHHHhcCChHHH-HHHHHhccccCCC--CCHHHHHHHHhhcCCCCCCchHHHHHHHHHHHH
Q 037935          360 QTPSVVNFEGVPAETYSSIELSFKYLKGEQL-KKIFLLCSLIGNS--FYLIDLLRYSMGLGLFHGVNKMEDARNKLYALV  436 (1085)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~-k~cf~~~s~fp~~--i~~~~li~~w~~~g~~~~~~~~~~~~~~~~~~~  436 (1085)
                                ....+..++.+||+.||+ +. |.||+|||+||++  |+.+.++.+|+++|.       ++    ..+++
T Consensus       351 ----------~~~~I~aaLelSYd~Lp~-eelK~cFL~LAIFPed~~I~~elLa~LW~aeGe-------ed----Ae~~L  408 (1221)
T 1vt4_I          351 ----------NCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK-------SD----VMVVV  408 (1221)
T ss_dssp             ----------SCHHHHHHHHHHHHHSCT-THHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCS-------HH----HHHHH
T ss_pred             ----------ChhHHHHHHHHHHHhCCH-HHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCH-------HH----HHHHH
Confidence                      135789999999999998 67 9999999999986  888999999999871       12    33468


Q ss_pred             HHHhHcccceecCCcceEEEcHHHHHHH
Q 037935          437 HELRDCCLLLEGDRNETFYMHDVVCDVA  464 (1085)
Q Consensus       437 ~~L~~~~ll~~~~~~~~~~mHdl~~~~~  464 (1085)
                      ++|+++||++..+...+|+|||++++++
T Consensus       409 ~eLvdRSLLq~d~~~~rYrMHDLllELr  436 (1221)
T 1vt4_I          409 NKLHKYSLVEKQPKESTISIPSIYLELK  436 (1221)
T ss_dssp             HHHHTSSSSSBCSSSSEEBCCCHHHHHH
T ss_pred             HHHHhhCCEEEeCCCCEEEehHHHHHHh
Confidence            9999999999865677899999999965

>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*

Probab=100.00  E-value=1.3e-32  Score=333.97  Aligned_cols=488  Identities=17%  Similarity=0.146  Sum_probs=341.4

Q ss_pred             ccccceEEEeeccCccccc-cc-CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccc
Q 037935          490 ALKKCYAISLLNSSIHEVS-LE-FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKL  566 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~-~~-~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L  566 (1085)
                      ...++++|++++|.+..+. .. ..+++|++|++++|.   ...+++..|.++++|++|++++|.++.+ |..++++++|
T Consensus        55 ~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~---l~~~~~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L  131 (606)
T 3t6q_A           55 RLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANP---LIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTL  131 (606)
T ss_dssp             TCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCC---CSEECTTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTC
T ss_pred             cCccceEEECCCCccceeChhhccCccccCeeeCCCCc---ccccChhhhcccccccEeeccccCcccCCcchhccCCcc
Confidence            4568999999999998774 33 389999999999997   6677667799999999999999999997 5789999999


Q ss_pred             cEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCc--EEEEEeccCCCCCCcc-
Q 037935          567 RMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLT--TLEIDVEDDSILPDGL-  643 (1085)
Q Consensus       567 ~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~--~L~l~~~~~~~~~~~~-  643 (1085)
                      ++|++++| .+..++...+..+++|++|++++|.+           ....+..+..+++|+  .|++++|.+..++... 
T Consensus       132 ~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l-----------~~~~~~~~~~l~~L~~l~L~l~~n~l~~~~~~~~  199 (606)
T 3t6q_A          132 ESLYLGSN-HISSIKLPKGFPTEKLKVLDFQNNAI-----------HYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAF  199 (606)
T ss_dssp             CEEECCSS-CCCCCCCCTTCCCTTCCEEECCSSCC-----------CEECHHHHHTTTTCCSEEEECTTCCCCEECTTTT
T ss_pred             cEEECCCC-cccccCcccccCCcccCEEEcccCcc-----------cccChhhhhhhcccceeEEecCCCccCccChhHh
Confidence            99999999 88887432246699999999999998           344567789999999  8888899988777655 


Q ss_pred             cccccceeeEEecCCCccccccccc------ccccccccccceee--hhhhhh--cccccccccccccCCCCCccccccc
Q 037935          644 FTKKLERFDISIGDGSFDSTKIIGN------DWFQTFNIQSIYIF--CIVMAL--ELNAINVDEIWHYNQLPAMVPCFQS  713 (1085)
Q Consensus       644 ~l~~L~~L~l~~~~~~~~~~~~l~~------~~~~~~~l~~~~l~--~~~~~~--~L~~l~L~~~~~~~~~p~~~~~l~~  713 (1085)
                      ...+|+.|++..+.........+..      .+....++....+.  .+..+.  .|+.+++..+......|..+..+++
T Consensus       200 ~~~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n~l~~~~~~~~~~l~~  279 (606)
T 3t6q_A          200 DSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSG  279 (606)
T ss_dssp             TTCEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTCCCSSCCTTTTTTCTT
T ss_pred             hhccccccccCCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecCccCccCHHHhccccC
Confidence            6678888887544210000000000      00000011111111  111111  4566777776666666677888999


Q ss_pred             ccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCccc
Q 037935          714 LTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTS  793 (1085)
Q Consensus       714 L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~  793 (1085)
                      |++|++++|. +..+|+  .+..+++|++|++++|. +..+...       ....+++|++|+++++......... ...
T Consensus       280 L~~L~l~~n~-l~~lp~--~l~~l~~L~~L~l~~n~-l~~~~~~-------~~~~l~~L~~L~l~~n~~~~~~~~~-~~~  347 (606)
T 3t6q_A          280 LQELDLTATH-LSELPS--GLVGLSTLKKLVLSANK-FENLCQI-------SASNFPSLTHLSIKGNTKRLELGTG-CLE  347 (606)
T ss_dssp             CSEEECTTSC-CSCCCS--SCCSCTTCCEEECTTCC-CSBGGGG-------CGGGCTTCSEEECCSCSSCCBCCSS-TTT
T ss_pred             CCEEeccCCc-cCCCCh--hhcccccCCEEECccCC-cCcCchh-------hhhccCcCCEEECCCCCcccccchh-hhh
Confidence            9999999874 456543  47889999999999887 3222111       1235889999999987543333222 245


Q ss_pred             CCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCc
Q 037935          794 EWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDD  873 (1085)
Q Consensus       794 ~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~  873 (1085)
                      .+++|++|++.+|.......              ....+..+++|++|++++|.+....+..+..  +++|++|++++|.
T Consensus       348 ~l~~L~~L~l~~n~l~~~~~--------------~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~--l~~L~~L~l~~n~  411 (606)
T 3t6q_A          348 NLENLRELDLSHDDIETSDC--------------CNLQLRNLSHLQSLNLSYNEPLSLKTEAFKE--CPQLELLDLAFTR  411 (606)
T ss_dssp             TCTTCCEEECCSSCCCEEEE--------------STTTTTTCTTCCEEECCSCSCEEECTTTTTT--CTTCSEEECTTCC
T ss_pred             ccCcCCEEECCCCccccccC--------------cchhcccCCCCCEEECCCCcCCcCCHHHhcC--CccCCeEECCCCc
Confidence            67889999988875433210              0012345789999999999988887776665  7899999999888


Q ss_pred             ccccc-hhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeee
Q 037935          874 LACFP-LDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRV  952 (1085)
Q Consensus       874 l~~~~-~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i  952 (1085)
                      ++... ...+..+++|+.|++++|.+....      +..+..+++|+.|+++++ .++....... .....+++|+.|++
T Consensus       412 l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~------~~~~~~l~~L~~L~L~~n-~l~~~~~~~~-~~~~~l~~L~~L~L  483 (606)
T 3t6q_A          412 LKVKDAQSPFQNLHLLKVLNLSHSLLDISS------EQLFDGLPALQHLNLQGN-HFPKGNIQKT-NSLQTLGRLEILVL  483 (606)
T ss_dssp             EECCTTCCTTTTCTTCCEEECTTCCCBTTC------TTTTTTCTTCCEEECTTC-BCGGGEECSS-CGGGGCTTCCEEEC
T ss_pred             CCCcccchhhhCcccCCEEECCCCccCCcC------HHHHhCCCCCCEEECCCC-CCCccccccc-hhhccCCCccEEEC
Confidence            87654 344778899999999999876543      234566888999999885 3433111000 01235788999999


Q ss_pred             eccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccccccccccceeeccc
Q 037935          953 LHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKL 1032 (1085)
Q Consensus       953 ~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L 1032 (1085)
                      ++| .+..+.|..+..+++|++|++++| ++... .+..+..+++| .|++++|. ++.+++.         ....+++|
T Consensus       484 s~n-~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~-~~~~l~~l~~L-~L~L~~N~-l~~~~~~---------~~~~l~~L  549 (606)
T 3t6q_A          484 SFC-DLSSIDQHAFTSLKMMNHVDLSHN-RLTSS-SIEALSHLKGI-YLNLASNH-ISIILPS---------LLPILSQQ  549 (606)
T ss_dssp             TTS-CCCEECTTTTTTCTTCCEEECCSS-CCCGG-GGGGGTTCCSC-EEECCSSC-CCCCCGG---------GHHHHHTS
T ss_pred             CCC-ccCccChhhhccccCCCEEECCCC-ccCcC-ChhHhCccccc-EEECcCCc-ccccCHh---------hcccCCCC
Confidence            988 677777778888999999999885 46665 34567788888 99999864 5554331         12236888


Q ss_pred             cccccccccc
Q 037935         1033 SALSLFDLDS 1042 (1085)
Q Consensus      1033 ~~L~l~~c~~ 1042 (1085)
                      +.|+++++|-
T Consensus       550 ~~L~l~~N~~  559 (606)
T 3t6q_A          550 RTINLRQNPL  559 (606)
T ss_dssp             SEEECTTCCE
T ss_pred             CEEeCCCCCc
Confidence            8888888764

>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*

Probab=100.00  E-value=6.5e-33  Score=343.70  Aligned_cols=508  Identities=15%  Similarity=0.084  Sum_probs=266.0

Q ss_pred             cccceEEEeeccCcccccc-----cCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhcccc
Q 037935          491 LKKCYAISLLNSSIHEVSL-----EFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTK  565 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~-----~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~  565 (1085)
                      ..++++|++++|.+.....     ...+++|++|++.+|.   .....+  +.++++|++|++++|.+...++.++++++
T Consensus       150 l~~L~~L~Ls~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~---l~~~~~--~~~l~~L~~L~Ls~n~l~~~~~~l~~l~~  224 (768)
T 3rgz_A          150 LNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNK---ISGDVD--VSRCVNLEFLDVSSNNFSTGIPFLGDCSA  224 (768)
T ss_dssp             CTTCSEEECCSSCCEEETHHHHHHTTCCTTCCEEECCSSE---EESCCB--CTTCTTCCEEECCSSCCCSCCCBCTTCCS
T ss_pred             CCCCCEEECCCCccCCcCChhhhhhccCCCCCEEECCCCc---ccccCC--cccCCcCCEEECcCCcCCCCCcccccCCC
Confidence            4466777777766654432     2256667777766665   222222  35566666777766666653333666666


Q ss_pred             ccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC-CCCCcc-
Q 037935          566 LRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS-ILPDGL-  643 (1085)
Q Consensus       566 L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~-~~~~~~-  643 (1085)
                      |++|++++| .++...+..++++++|++|++++|.+...           .+.  ..+++|++|++++|.+. .+|..+ 
T Consensus       225 L~~L~Ls~n-~l~~~~~~~l~~l~~L~~L~Ls~n~l~~~-----------~~~--~~l~~L~~L~L~~n~l~~~ip~~~~  290 (768)
T 3rgz_A          225 LQHLDISGN-KLSGDFSRAISTCTELKLLNISSNQFVGP-----------IPP--LPLKSLQYLSLAENKFTGEIPDFLS  290 (768)
T ss_dssp             CCEEECCSS-CCCSCHHHHTTTCSSCCEEECCSSCCEES-----------CCC--CCCTTCCEEECCSSEEEESCCCCSC
T ss_pred             CCEEECcCC-cCCCcccHHHhcCCCCCEEECCCCcccCc-----------cCc--cccCCCCEEECcCCccCCccCHHHH
Confidence            777777666 55533333346666666666666665311           111  14556666666665554 444443 


Q ss_pred             c-ccccceeeEEecCCCcccccccccccccccccccceee-----------hhhhhhcccccccccccccCCCCCccccc
Q 037935          644 F-TKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIF-----------CIVMALELNAINVDEIWHYNQLPAMVPCF  711 (1085)
Q Consensus       644 ~-l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~-----------~~~~~~~L~~l~L~~~~~~~~~p~~~~~l  711 (1085)
                      . +++|+.|+++.+.-.    ..+...+....+++.+.+.           .+..+..|+.+++..+...+.+|.++..+
T Consensus       291 ~~~~~L~~L~Ls~n~l~----~~~p~~~~~l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l  366 (768)
T 3rgz_A          291 GACDTLTGLDLSGNHFY----GAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNL  366 (768)
T ss_dssp             TTCTTCSEEECCSSEEE----ECCCGGGGGCTTCCEEECCSSEEEEECCHHHHTTCTTCCEEECCSSEEEECCCTTHHHH
T ss_pred             hhcCcCCEEECcCCcCC----CccchHHhcCCCccEEECCCCcccCcCCHHHHhcCCCCCEEeCcCCccCccccHHHHhh
Confidence            2 255666655432100    0000011111111111111           12222334444444444444445544444


Q ss_pred             c-cccEEEEcCCCCCccccchhhHhh--cccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccC
Q 037935          712 Q-SLTRLIVWGCDKLKYIFSASTIQS--LEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYP  788 (1085)
Q Consensus       712 ~-~L~~L~L~~~~~l~~l~~~~~l~~--l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  788 (1085)
                      + +|+.|++++|.....+++.  +..  +++|++|++++|.....++.        ....+++|+.|+++++. +....+
T Consensus       367 ~~~L~~L~Ls~N~l~~~~~~~--~~~~~~~~L~~L~L~~n~l~~~~p~--------~l~~l~~L~~L~Ls~N~-l~~~~p  435 (768)
T 3rgz_A          367 SASLLTLDLSSNNFSGPILPN--LCQNPKNTLQELYLQNNGFTGKIPP--------TLSNCSELVSLHLSFNY-LSGTIP  435 (768)
T ss_dssp             TTTCSEEECCSSEEEEECCTT--TTCSTTCCCCEEECCSSEEEEECCG--------GGGGCTTCCEEECCSSE-EESCCC
T ss_pred             hcCCcEEEccCCCcCCCcChh--hhhcccCCccEEECCCCccccccCH--------HHhcCCCCCEEECcCCc-ccCccc
Confidence            4 5555555554333322221  222  44555555555442111111        11134555555555532 211111


Q ss_pred             CCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEE
Q 037935          789 GMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLR  868 (1085)
Q Consensus       789 ~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~  868 (1085)
                      . ....+++|+.|.+.+|......|                ..+..+++|++|++++|.+++..+..+..  +++|++|+
T Consensus       436 ~-~l~~l~~L~~L~L~~n~l~~~~p----------------~~~~~l~~L~~L~L~~N~l~~~~p~~l~~--l~~L~~L~  496 (768)
T 3rgz_A          436 S-SLGSLSKLRDLKLWLNMLEGEIP----------------QELMYVKTLETLILDFNDLTGEIPSGLSN--CTNLNWIS  496 (768)
T ss_dssp             G-GGGGCTTCCEEECCSSCCCSCCC----------------GGGGGCTTCCEEECCSSCCCSCCCGGGGG--CTTCCEEE
T ss_pred             H-HHhcCCCCCEEECCCCcccCcCC----------------HHHcCCCCceEEEecCCcccCcCCHHHhc--CCCCCEEE
Confidence            1 12334555555555554322222                12234555666666666555444444433  45566666


Q ss_pred             ecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCC-----------
Q 037935          869 VGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDS-----------  937 (1085)
Q Consensus       869 l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~-----------  937 (1085)
                      +++|.++...+..+..+++|+.|++++|.+.+..+      ..+..+++|+.|++++++-...+|....           
T Consensus       497 L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p------~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~  570 (768)
T 3rgz_A          497 LSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIP------AELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFI  570 (768)
T ss_dssp             CCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECC------GGGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTT
T ss_pred             ccCCccCCcCChHHhcCCCCCEEECCCCcccCcCC------HHHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhcc
Confidence            66555554333445555666666666665544322      2344455555555555332212211000           


Q ss_pred             ------------------------------------------------------chhhhHhhhhceeeeeccccccccCC
Q 037935          938 ------------------------------------------------------KELDFIFQHLQILRVLHCQNLLSLLP  963 (1085)
Q Consensus       938 ------------------------------------------------------~~~~~~l~~L~~L~i~~c~~l~~~~~  963 (1085)
                                                                            ......+++|+.|++++| ++....|
T Consensus       571 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N-~l~g~ip  649 (768)
T 3rgz_A          571 AGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYN-MLSGYIP  649 (768)
T ss_dssp             CSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSS-CCBSCCC
T ss_pred             ccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEECcCC-cccccCC
Confidence                                                                  000113578999999998 6777778


Q ss_pred             CCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccccccccccceeecccccccccccccc
Q 037935          964 SSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSL 1043 (1085)
Q Consensus       964 ~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L 1043 (1085)
                      ..+..+++|+.|++++|. ++.. .+..+..+++|+.|++++|. ++..++         .....+++|+.|++++++--
T Consensus       650 ~~l~~l~~L~~L~Ls~N~-l~g~-ip~~l~~L~~L~~LdLs~N~-l~g~ip---------~~l~~l~~L~~L~ls~N~l~  717 (768)
T 3rgz_A          650 KEIGSMPYLFILNLGHND-ISGS-IPDEVGDLRGLNILDLSSNK-LDGRIP---------QAMSALTMLTEIDLSNNNLS  717 (768)
T ss_dssp             GGGGGCTTCCEEECCSSC-CCSC-CCGGGGGCTTCCEEECCSSC-CEECCC---------GGGGGCCCCSEEECCSSEEE
T ss_pred             HHHhccccCCEEeCcCCc-cCCC-CChHHhCCCCCCEEECCCCc-ccCcCC---------hHHhCCCCCCEEECcCCccc
Confidence            889999999999999854 6644 24567889999999999976 443322         12234789999999998767


Q ss_pred             ceecCCCccccCCCcCceeeccCCCccccc
Q 037935         1044 TSFSSGNYAFKLPSLQDLWVIGCPKMKLFT 1073 (1085)
Q Consensus      1044 ~~l~~~~~~~~l~~L~~L~i~~C~~l~~lp 1073 (1085)
                      ..+|.+.   .+.++....+.|||.|.-.|
T Consensus       718 g~iP~~~---~~~~~~~~~~~gN~~Lcg~~  744 (768)
T 3rgz_A          718 GPIPEMG---QFETFPPAKFLNNPGLCGYP  744 (768)
T ss_dssp             EECCSSS---SGGGSCGGGGCSCTEEESTT
T ss_pred             ccCCCch---hhccCCHHHhcCCchhcCCC
Confidence            7888763   45667777788998887644

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=100.00  E-value=3.6e-31  Score=325.71  Aligned_cols=519  Identities=16%  Similarity=0.126  Sum_probs=340.0

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEeccC
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~  573 (1085)
                      +.++.+++.+..+|..+. +++++|++++|.   +..++...|.++++|++|+|++|.++.+ |..++++++|++|++++
T Consensus         7 ~~~~cs~~~L~~ip~~~~-~~l~~L~Ls~n~---l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~   82 (680)
T 1ziw_A            7 EVADCSHLKLTQVPDDLP-TNITVLNLTHNQ---LRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQH   82 (680)
T ss_dssp             SEEECCSSCCSSCCSCSC-TTCSEEECCSSC---CCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCS
T ss_pred             CeeECCCCCccccccccC-CCCcEEECCCCC---CCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCC
Confidence            457788888899987664 899999999997   7788888899999999999999999986 67899999999999999


Q ss_pred             cccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--ccccccee
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLERF  651 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~L  651 (1085)
                      | .++.+|+..|+++++|++|++++|.+.           ...+..++++++|++|++++|.+...+...  .+++|+.|
T Consensus        83 n-~l~~l~~~~~~~l~~L~~L~L~~n~l~-----------~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L  150 (680)
T 1ziw_A           83 N-ELSQLSDKTFAFCTNLTELHLMSNSIQ-----------KIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQEL  150 (680)
T ss_dssp             S-CCCCCCTTTTTTCTTCSEEECCSSCCC-----------CCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEE
T ss_pred             C-ccCccChhhhccCCCCCEEECCCCccC-----------ccChhHccccCCCCEEECCCCcccccCchhhcccccCCEE
Confidence            9 999999977899999999999999884           223345889999999999999988776543  78899999


Q ss_pred             eEEecCCCcccccccccccccccccccceeehhh--hhhcccccccccccccCCCCCccccc------------------
Q 037935          652 DISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIV--MALELNAINVDEIWHYNQLPAMVPCF------------------  711 (1085)
Q Consensus       652 ~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~--~~~~L~~l~L~~~~~~~~~p~~~~~l------------------  711 (1085)
                      ++..+.-.                  ......+.  ....|+.+++..+......|.++..+                  
T Consensus       151 ~L~~n~l~------------------~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~  212 (680)
T 1ziw_A          151 LLSNNKIQ------------------ALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLT  212 (680)
T ss_dssp             ECCSSCCC------------------CBCHHHHGGGTTCEESEEECTTCCCCCBCTTGGGGSSEECEEECTTCCCHHHHH
T ss_pred             EccCCccc------------------ccCHHHhhccccccccEEECCCCcccccChhhhhhhhhhhhhhccccccChhhH
Confidence            88654210                  00000000  11234444444443333333333333                  


Q ss_pred             ---------ccccEEEEcCCCCCccccchhhHhhccc--ccEEEeccccchHHHhccCCcccccccccCCcccEEecCCC
Q 037935          712 ---------QSLTRLIVWGCDKLKYIFSASTIQSLEQ--LQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGL  780 (1085)
Q Consensus       712 ---------~~L~~L~L~~~~~l~~l~~~~~l~~l~~--L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~  780 (1085)
                               ++|+.|++++|.... .+ +..+..++.  |+.|++++|. +..+...       ....+++|++|+++++
T Consensus       213 ~~~~~~l~~~~L~~L~L~~n~l~~-~~-~~~~~~l~~~~L~~L~Ls~n~-l~~~~~~-------~~~~l~~L~~L~L~~n  282 (680)
T 1ziw_A          213 EKLCLELANTSIRNLSLSNSQLST-TS-NTTFLGLKWTNLTMLDLSYNN-LNVVGND-------SFAWLPQLEYFFLEYN  282 (680)
T ss_dssp             HHHHHHHTTSCCCEEECTTSCCCE-EC-TTTTGGGGGSCCCEEECTTSC-CCEECTT-------TTTTCTTCCEEECCSC
T ss_pred             HHHHHHhhhccccEEEccCCcccc-cC-hhHhhccCcCCCCEEECCCCC-cCccCcc-------cccCcccccEeeCCCC
Confidence                     456677776654333 22 234556544  8888888876 2222111       1224788888888875


Q ss_pred             CccccccCCCcccCCCcccceeeccCCCcc-----cccC-----------CCCCCCCCCCCCC-cccccccCCccceeee
Q 037935          781 PELRCLYPGMHTSEWPALKNLVACNCDKIT-----LSQN-----------DENDQFGVPAQQP-LFSFKKILPNLEGLAL  843 (1085)
Q Consensus       781 ~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~-----~~~~-----------~~~~~~~~~~~~~-l~~~~~~l~~L~~L~l  843 (1085)
                      . +....+. ....+++|+.|.+.++..-.     .+|.           ........+.... ....+..+++|++|++
T Consensus       283 ~-l~~~~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L  360 (680)
T 1ziw_A          283 N-IQHLFSH-SLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSL  360 (680)
T ss_dssp             C-BSEECTT-TTTTCTTCCEEECTTCBCCC------CCEECTTTTTTCTTCCEEECCSCCBCCCCTTTTTTCTTCCEEEC
T ss_pred             c-cCccChh-hhcCCCCccEEeccchhhhcccccccccccChhhcccCCCCCEEECCCCccCCCChhHhccccCCcEEEC
Confidence            3 3333222 13457788888877542111     0010           0000000000000 0112234555666666


Q ss_pred             ccCC--ceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCcccccccccccccee
Q 037935          844 SGKD--ITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRL  921 (1085)
Q Consensus       844 s~n~--l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L  921 (1085)
                      ++|.  +..+....|.....++|+.|++++|+++.+++..+..+++|+.|++++|.+....+     ...+..+++|+.|
T Consensus       361 s~n~~~~~~l~~~~f~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-----~~~~~~l~~L~~L  435 (680)
T 1ziw_A          361 SNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELT-----GQEWRGLENIFEI  435 (680)
T ss_dssp             TTCBSCCCEECTTTTGGGTTSCCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCEEECC-----SGGGTTCTTCCEE
T ss_pred             CCCchhhhhcchhhhcccccCcCceEECCCCCCCeEChhhhhCCCCCCEEeCCCCcCccccC-----cccccCcccccEE
Confidence            5554  22332222322112467777777777777777777788888888888888765432     2345667888999


Q ss_pred             ccCCcccccccccCCCchhhhHhhhhceeeeecccccc--ccCCCCcccccCccEEEeccccCcccccchhhhhhccccc
Q 037935          922 NLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLL--SLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLV  999 (1085)
Q Consensus       922 ~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~--~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~  999 (1085)
                      +++++ .+..+....+.    .+++|+.|++.+|. +.  ...|..+..+++|+.|++++| +++.+ ++..+..+++|+
T Consensus       436 ~Ls~n-~l~~~~~~~~~----~~~~L~~L~l~~n~-l~~~~~~p~~~~~l~~L~~L~Ls~N-~l~~i-~~~~~~~l~~L~  507 (680)
T 1ziw_A          436 YLSYN-KYLQLTRNSFA----LVPSLQRLMLRRVA-LKNVDSSPSPFQPLRNLTILDLSNN-NIANI-NDDMLEGLEKLE  507 (680)
T ss_dssp             ECCSC-SEEECCTTTTT----TCTTCCEEECTTSC-CBCTTCSSCTTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCC
T ss_pred             ecCCC-CcceeChhhhh----cCcccccchhcccc-ccccccCCcccccCCCCCEEECCCC-CCCcC-ChhhhccccccC
Confidence            99884 45555443332    57899999998874 32  345667889999999999885 57766 445678899999


Q ss_pred             EEEEcCCcccccccccccccccccccceeeccccccccccccccceecCCCccccCCCcCceeeccCCCcccccCCCc
Q 037935         1000 SLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFTKGEL 1077 (1085)
Q Consensus      1000 ~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~l~~lp~~~~ 1077 (1085)
                      +|++++|. ++.++.....+ +.......+++|+.|+++++ .++.+|.+.+ .++++|++|+++++ ++..+|.+.+
T Consensus       508 ~L~Ls~N~-l~~~~~~~~~~-~~~~~~~~l~~L~~L~L~~N-~l~~i~~~~~-~~l~~L~~L~Ls~N-~l~~l~~~~~  580 (680)
T 1ziw_A          508 ILDLQHNN-LARLWKHANPG-GPIYFLKGLSHLHILNLESN-GFDEIPVEVF-KDLFELKIIDLGLN-NLNTLPASVF  580 (680)
T ss_dssp             EEECCSSC-CGGGGSTTSTT-SCCCTTTTCTTCCEEECCSS-CCCCCCTTTT-TTCTTCCEEECCSS-CCCCCCTTTT
T ss_pred             EEeCCCCC-ccccchhhccC-CcchhhcCCCCCCEEECCCC-CCCCCCHHHc-ccccCcceeECCCC-CCCcCCHhHh
Confidence            99999965 66553211000 00001223789999999986 6788887654 68999999999874 8889988754

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=100.00  E-value=3.5e-32  Score=360.03  Aligned_cols=291  Identities=18%  Similarity=0.268  Sum_probs=226.2

Q ss_pred             CCCCccccchHHHHHHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhh-cc-CCCEEEEEEeCCCcC--HHHHH
Q 037935          157 NKGYEAFESRVSTLKSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQARE-KK-LFDRVVFSEVSQTPD--IKKIQ  230 (1085)
Q Consensus       157 ~~~~~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~-~~-~f~~~~wv~~~~~~~--~~~~~  230 (1085)
                      +..+..|+||+.++++|.++|.  +++.++|+|+||||+||||||+++|++.+. .. .|+.++||++++..+  ....+
T Consensus       120 p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  199 (1249)
T 3sfz_A          120 PQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKL  199 (1249)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHH
T ss_pred             CCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHH
Confidence            4456679999999999999985  467899999999999999999999987643 33 447789999988543  45557


Q ss_pred             HHHHHHhCCCCC-----CchHHHHHHHHHHHHHcCC--cEEEEEeCCCCcccccccccccCCCCCCcEEEe---------
Q 037935          231 GEIAEKLGLELS-----DEAEYRRASRLYERLKNEN--KILVILDNIWKYLDLDTIGIPFGNDHEGYNFLI---------  294 (1085)
Q Consensus       231 ~~i~~~l~~~~~-----~~~~~~~~~~~~~~l~~~~--~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv---------  294 (1085)
                      ..++..++....     ..........+...+ .++  ||||||||||+..+|+.+       .+|++|||         
T Consensus       200 ~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~  271 (1249)
T 3sfz_A          200 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLM-LRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTD  271 (1249)
T ss_dssp             HHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHT-SSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTT
T ss_pred             HHHHHHhhhhcccccCCCCCHHHHHHHHHHHH-hccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHH
Confidence            778887765432     122233333444444 355  999999999998877665       46788888         


Q ss_pred             -----------c-CCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHhcCCHHHHHHHHHHhcCC
Q 037935          295 -----------G-NLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTP  362 (1085)
Q Consensus       295 -----------~-~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~  362 (1085)
                                 . +|+++|||+||..+++.  ..+...+.+++|+++|+|+||||+++|++|+.+. ..|...++.+...
T Consensus       272 ~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~--~~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~  348 (1249)
T 3sfz_A          272 SVMGPKHVVPVESGLGREKGLEILSLFVNM--KKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNK  348 (1249)
T ss_dssp             TCCSCBCCEECCSSCCHHHHHHHHHHHHTS--CSTTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSC
T ss_pred             hhcCCceEEEecCCCCHHHHHHHHHHhhCC--ChhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhh
Confidence                       3 49999999999998853  2345677899999999999999999999999665 4799988888655


Q ss_pred             CCCCCC----CCcccchhhHHHHHhcCChHHHHHHHHhccccCCC--CCHHHHHHHHhhcCCCCCCchHHHHHHHHHHHH
Q 037935          363 SVVNFE----GVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNS--FYLIDLLRYSMGLGLFHGVNKMEDARNKLYALV  436 (1085)
Q Consensus       363 ~~~~~~----~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~fp~~--i~~~~li~~w~~~g~~~~~~~~~~~~~~~~~~~  436 (1085)
                      ......    .....+..++.+||+.||+ ++|.||+|||+||++  |+.+.++.+|.+++            +...+++
T Consensus       349 ~~~~~~~~~~~~~~~~~~~l~~s~~~L~~-~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~------------~~~~~~l  415 (1249)
T 3sfz_A          349 QFKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCVLWDLET------------EEVEDIL  415 (1249)
T ss_dssp             CCCCSSCTTCTTHHHHHHHHHHHHHTSCT-TTHHHHHHGGGSCTTCCEEHHHHHHHHTCCH------------HHHHHHH
T ss_pred             hhhhcccccccchHHHHHHHHHHHHhCCH-HHHHHHHHhCccCCCCeeCHHHHHHHhCCCH------------HHHHHHH
Confidence            532211    1124689999999999997 799999999999997  89999999996641            2234568


Q ss_pred             HHHhHcccceecC--CcceEEEcHHHHHHHHHHhhcc
Q 037935          437 HELRDCCLLLEGD--RNETFYMHDVVCDVAVSIACRD  471 (1085)
Q Consensus       437 ~~L~~~~ll~~~~--~~~~~~mHdl~~~~~~~~~~~e  471 (1085)
                      ++|+++||++...  ...+|+||+++|++++..+.++
T Consensus       416 ~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          416 QEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             HHHHHTTSCEEEESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             HHHHhccceEEecCCCceEEEecHHHHHHHHhhhhHH
Confidence            9999999998653  3347999999999999997765

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.98  E-value=5.9e-31  Score=329.67  Aligned_cols=164  Identities=21%  Similarity=0.268  Sum_probs=118.5

Q ss_pred             EecCccccCCCccccccceEEEeeccCcccccc-c-CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCccc
Q 037935          477 VRNDAVWEWPDGDALKKCYAISLLNSSIHEVSL-E-FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLF  554 (1085)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~-~-~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~  554 (1085)
                      .....+...|.  .+.++++|++++|.+..+.. . ..+++|++|++++|..  ...+++..|.++++|++|+|++|.+.
T Consensus        11 cs~~~L~~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~--~~~i~~~~f~~L~~L~~L~Ls~N~l~   86 (844)
T 3j0a_A           11 YRFCNLTQVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYT--PLTIDKEAFRNLPNLRILDLGSSKIY   86 (844)
T ss_dssp             ESCCCSSCCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCC--CCEECTTTTSSCTTCCEEECTTCCCC
T ss_pred             ccCCCCCCCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCC--ccccCHHHhcCCCCCCEEECCCCcCc
Confidence            34445555555  67788888888888877643 2 3788888888888854  56676667888888888888888888


Q ss_pred             CC-chhhhccccccEEeccCcccccc-cch-hhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEE
Q 037935          555 SL-PSSIGQLTKLRMLDLTDCLQLKF-IVP-NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEI  631 (1085)
Q Consensus       555 ~l-p~~i~~L~~L~~L~Ls~~~~l~~-lp~-~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l  631 (1085)
                      .+ |..|+++++|++|+|++| .+.. +|. ..++++++|++|++++|.+...          .....++++++|++|++
T Consensus        87 ~~~p~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~----------~~~~~~~~L~~L~~L~L  155 (844)
T 3j0a_A           87 FLHPDAFQGLFHLFELRLYFC-GLSDAVLKDGYFRNLKALTRLDLSKNQIRSL----------YLHPSFGKLNSLKSIDF  155 (844)
T ss_dssp             EECTTSSCSCSSCCCEECTTC-CCSSCCSTTCCCSSCSSCCEEEEESCCCCCC----------CCCGGGGTCSSCCEEEE
T ss_pred             ccCHhHccCCcccCEeeCcCC-CCCcccccCccccccCCCCEEECCCCccccc----------ccchhHhhCCCCCEEEC
Confidence            75 778888888888888888 7765 333 2358888888888888887321          12245788888888888


Q ss_pred             EeccCCCCCCc-c-cc--cccceeeEEe
Q 037935          632 DVEDDSILPDG-L-FT--KKLERFDISI  655 (1085)
Q Consensus       632 ~~~~~~~~~~~-~-~l--~~L~~L~l~~  655 (1085)
                      ++|.+..+... + .+  ++|+.|++..
T Consensus       156 s~N~i~~~~~~~l~~l~~~~L~~L~L~~  183 (844)
T 3j0a_A          156 SSNQIFLVCEHELEPLQGKTLSFFSLAA  183 (844)
T ss_dssp             ESSCCCCCCSGGGHHHHHCSSCCCEECC
T ss_pred             CCCcCCeeCHHHcccccCCccceEECCC
Confidence            88887665433 2 33  6677776643

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.97  E-value=3.9e-30  Score=310.10  Aligned_cols=474  Identities=16%  Similarity=0.167  Sum_probs=318.1

Q ss_pred             ccccCCCccccccceEEEeeccCcccccc--cCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-
Q 037935          481 AVWEWPDGDALKKCYAISLLNSSIHEVSL--EFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-  557 (1085)
Q Consensus       481 ~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-  557 (1085)
                      .+...|. ..+..+++|++++|.+..++.  ...+++|++|++++|.   +..+++..|.++++|++|+|++|.++.+| 
T Consensus        18 ~l~~ip~-~l~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~---i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~   93 (570)
T 2z63_A           18 NFYKIPD-NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE---IQTIEDGAYQSLSHLSTLILTGNPIQSLAL   93 (570)
T ss_dssp             CCSSCCS-SSCSSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCC---CCEECTTTTTTCTTCCEEECTTCCCCEECT
T ss_pred             CccccCC-CccccccEEEccCCccCccChhHhhCCCCceEEECCCCc---CCccCcccccCchhCCEEeCcCCcCCccCH
Confidence            4444443 456678899999988887764  2478889999998886   66777777888999999999999888865 


Q ss_pred             hhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          558 SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       558 ~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      ..|+++++|++|++++| .++.+|...++++++|++|++++|.+..          ...+..++++++|++|++++|.+.
T Consensus        94 ~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~l~~----------~~lp~~~~~l~~L~~L~l~~n~l~  162 (570)
T 2z63_A           94 GAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQS----------FKLPEYFSNLTNLEHLDLSSNKIQ  162 (570)
T ss_dssp             TTTTTCTTCCEEECTTS-CCCCSTTCSCTTCTTCCEEECCSSCCCC----------CCCCGGGGGCTTCCEEECTTSCCC
T ss_pred             hhhcCcccccccccccc-ccccCCCccccccccccEEecCCCccce----------ecChhhhcccCCCCEEeCcCCccc
Confidence            67888999999999998 8888877556889999999999888731          124566888889999999888877


Q ss_pred             CCCCc-c-ccccc----ceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCccccc
Q 037935          638 ILPDG-L-FTKKL----ERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCF  711 (1085)
Q Consensus       638 ~~~~~-~-~l~~L----~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l  711 (1085)
                      .++.. + .+++|    ..+++..+                                          ......|..+...
T Consensus       163 ~~~~~~~~~l~~L~~~~~~L~l~~n------------------------------------------~l~~~~~~~~~~~  200 (570)
T 2z63_A          163 SIYCTDLRVLHQMPLLNLSLDLSLN------------------------------------------PMNFIQPGAFKEI  200 (570)
T ss_dssp             EECGGGGHHHHTCTTCCCEEECTTC------------------------------------------CCCEECTTTTTTC
T ss_pred             eecHHHccchhccchhhhhcccCCC------------------------------------------CceecCHHHhccC
Confidence            66543 2 44455    33443211                                          1111122222222


Q ss_pred             ccccEEEEcCCCCCccccchhhHhhcccc--------------------------------cEEEeccccchHHHhccCC
Q 037935          712 QSLTRLIVWGCDKLKYIFSASTIQSLEQL--------------------------------QHLEIRLCKSLQEIISENR  759 (1085)
Q Consensus       712 ~~L~~L~L~~~~~l~~l~~~~~l~~l~~L--------------------------------~~L~l~~~~~l~~i~~~~~  759 (1085)
                       +|+.|++++|...... ....++.++++                                +.+.+.++..+.....   
T Consensus       201 -~L~~L~l~~n~~~~~~-~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~l~~l~l~~l~l~~~~~~~~~~~---  275 (570)
T 2z63_A          201 -RLHKLTLRNNFDSLNV-MKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDII---  275 (570)
T ss_dssp             -EEEEEEEESCCSCTTH-HHHHHHTTTTCEEEEEEEEECCCCSSCEECCTTTTGGGGGSEEEEEEEEETTEEESCST---
T ss_pred             -cceeEecccccccccc-hhhhhcCccccceeeeccccccCchhhhhcchhhhccccccchhhhhhhcchhhhhhch---
Confidence             4555555543211110 01122333333                                3333333321111100   


Q ss_pred             cccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccc
Q 037935          760 TDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLE  839 (1085)
Q Consensus       760 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~  839 (1085)
                          .....+++|+.|+++++. +..++..  ...+ +|++|.+.+|..- .+|                  ...+++|+
T Consensus       276 ----~~~~~l~~L~~L~l~~~~-l~~l~~~--~~~~-~L~~L~l~~n~~~-~l~------------------~~~l~~L~  328 (570)
T 2z63_A          276 ----DLFNCLTNVSSFSLVSVT-IERVKDF--SYNF-GWQHLELVNCKFG-QFP------------------TLKLKSLK  328 (570)
T ss_dssp             ----TTTGGGTTCSEEEEESCE-ECSCCBC--CSCC-CCSEEEEESCBCS-SCC------------------BCBCSSCC
T ss_pred             ----hhhcCcCcccEEEecCcc-chhhhhh--hccC-CccEEeeccCccc-ccC------------------cccccccC
Confidence                112246788888887753 3333222  2334 7888888887533 222                  13478999


Q ss_pred             eeeeccCCceeeecccCCcCccCCceEEEecCCcccccc--hhHHhhccccceEEeecccccEEEecCCccccccccccc
Q 037935          840 GLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFP--LDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLAL  917 (1085)
Q Consensus       840 ~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~--~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~  917 (1085)
                      .|++++|.+....+.    ..+++|++|++++|.++...  +..+..+++|+.|++++|.+..+++       .+..+++
T Consensus       329 ~L~l~~n~~~~~~~~----~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~-------~~~~l~~  397 (570)
T 2z63_A          329 RLTFTSNKGGNAFSE----VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSS-------NFLGLEQ  397 (570)
T ss_dssp             EEEEESCBSCCBCCC----CBCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEE-------EEETCTT
T ss_pred             EEeCcCCcccccccc----ccCCCCCEEeCcCCccCccccccccccccCccCEEECCCCccccccc-------cccccCC
Confidence            999999986654332    33799999999999998774  4567889999999999999877653       1556889


Q ss_pred             cceeccCCccccccccc-CCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcc
Q 037935          918 IKRLNLTRLNHLQQLWK-HDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLE  996 (1085)
Q Consensus       918 L~~L~l~~c~~L~~l~~-~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~  996 (1085)
                      |+.|+++++ .+..... ..+    ..+++|+.|++++| .+....+..+..+++|++|++++|. +.+...+..+..++
T Consensus       398 L~~L~l~~n-~l~~~~~~~~~----~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~p~~~~~l~  470 (570)
T 2z63_A          398 LEHLDFQHS-NLKQMSEFSVF----LSLRNLIYLDISHT-HTRVAFNGIFNGLSSLEVLKMAGNS-FQENFLPDIFTELR  470 (570)
T ss_dssp             CCEEECTTS-EEESCTTSCTT----TTCTTCCEEECTTS-CCEECCTTTTTTCTTCCEEECTTCE-EGGGEECSCCTTCT
T ss_pred             CCEEEccCC-ccccccchhhh----hcCCCCCEEeCcCC-cccccchhhhhcCCcCcEEECcCCc-Cccccchhhhhccc
Confidence            999999984 4544422 112    35789999999999 5666667778899999999999875 44211235577899


Q ss_pred             cccEEEEcCCcccccccccccccccccccceeeccccccccccccccceecCCCccccCCCcCceeeccCCCccccc
Q 037935          997 RLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKLFT 1073 (1085)
Q Consensus       997 ~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~l~~lp 1073 (1085)
                      +|++|++++|. ++.+.+.         ....+++|+.|++++| .++.++...+ .++++|++|++++||--...|
T Consensus       471 ~L~~L~l~~n~-l~~~~~~---------~~~~l~~L~~L~l~~n-~l~~~~~~~~-~~l~~L~~L~l~~N~~~~~~~  535 (570)
T 2z63_A          471 NLTFLDLSQCQ-LEQLSPT---------AFNSLSSLQVLNMASN-QLKSVPDGIF-DRLTSLQKIWLHTNPWDCSCP  535 (570)
T ss_dssp             TCCEEECTTSC-CCEECTT---------TTTTCTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECCSSCBCCCTT
T ss_pred             CCCEEECCCCc-cccCChh---------hhhcccCCCEEeCCCC-cCCCCCHHHh-hcccCCcEEEecCCcccCCCc
Confidence            99999999985 5554321         1223789999999997 5777776543 689999999999976444333

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.97  E-value=6.4e-30  Score=320.28  Aligned_cols=145  Identities=19%  Similarity=0.266  Sum_probs=95.5

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCc-ccCC-chhhhccccccEEecc
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVR-LFSL-PSSIGQLTKLRMLDLT  572 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~-i~~l-p~~i~~L~~L~~L~Ls  572 (1085)
                      +.++.++++++.+|.  -.+++++|++++|.   +..+++..|.++++|++|+|++|. +..+ |..|+++++|++|+|+
T Consensus         7 ~~~dcs~~~L~~vP~--lp~~l~~LdLs~N~---i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls   81 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ--VLNTTERLLLSFNY---IRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLG   81 (844)
T ss_dssp             EEEEESCCCSSCCCS--SCTTCCEEEEESCC---CCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECT
T ss_pred             eEEEccCCCCCCCCC--CCCCcCEEECCCCc---CCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECC
Confidence            345556666777776  34677777777776   555555557777777777777773 3344 5667777777777777


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHH--hhcCCCCcEEEEEeccCCCCCC--cc-cccc
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDE--LMHLQRLTTLEIDVEDDSILPD--GL-FTKK  647 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~--l~~L~~L~~L~l~~~~~~~~~~--~~-~l~~  647 (1085)
                      +| .+..++++.|+++++|++|+|++|.+.           ...+..  +.++++|++|++++|.+..++.  .+ .+++
T Consensus        82 ~N-~l~~~~p~~~~~l~~L~~L~Ls~n~l~-----------~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~  149 (844)
T 3j0a_A           82 SS-KIYFLHPDAFQGLFHLFELRLYFCGLS-----------DAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNS  149 (844)
T ss_dssp             TC-CCCEECTTSSCSCSSCCCEECTTCCCS-----------SCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSS
T ss_pred             CC-cCcccCHhHccCCcccCEeeCcCCCCC-----------cccccCccccccCCCCEEECCCCcccccccchhHhhCCC
Confidence            77 677665555677777777777777762           212222  6677777777777777766543  23 6677


Q ss_pred             cceeeEEec
Q 037935          648 LERFDISIG  656 (1085)
Q Consensus       648 L~~L~l~~~  656 (1085)
                      |+.|+++.+
T Consensus       150 L~~L~Ls~N  158 (844)
T 3j0a_A          150 LKSIDFSSN  158 (844)
T ss_dssp             CCEEEEESS
T ss_pred             CCEEECCCC
Confidence            777777654

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.97  E-value=2.6e-30  Score=311.71  Aligned_cols=452  Identities=16%  Similarity=0.202  Sum_probs=276.8

Q ss_pred             ccccceEEEeeccCccccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCch-hhhccccc
Q 037935          490 ALKKCYAISLLNSSIHEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKL  566 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~-~i~~L~~L  566 (1085)
                      ..+++++|++++|.+..++..  ..+++|++|++.+|.   ...+++..|.++++|++|++++|.++.+|. .++++++|
T Consensus        50 ~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~---l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L  126 (570)
T 2z63_A           50 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP---IQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTL  126 (570)
T ss_dssp             TCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCC---CCEECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTC
T ss_pred             CCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCc---CCccCHhhhcCccccccccccccccccCCCccccccccc
Confidence            456899999999999988653  389999999999997   677887789999999999999999999875 69999999


Q ss_pred             cEEeccCcccccc--cchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCC----cEEEEEeccCCCCC
Q 037935          567 RMLDLTDCLQLKF--IVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRL----TTLEIDVEDDSILP  640 (1085)
Q Consensus       567 ~~L~Ls~~~~l~~--lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L----~~L~l~~~~~~~~~  640 (1085)
                      ++|++++| .++.  +|.. |+++++|++|++++|.+..           ..+..++.+++|    ..|+++.|.+..++
T Consensus       127 ~~L~L~~n-~l~~~~lp~~-~~~l~~L~~L~l~~n~l~~-----------~~~~~~~~l~~L~~~~~~L~l~~n~l~~~~  193 (570)
T 2z63_A          127 KELNVAHN-LIQSFKLPEY-FSNLTNLEHLDLSSNKIQS-----------IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQ  193 (570)
T ss_dssp             CEEECCSS-CCCCCCCCGG-GGGCTTCCEEECTTSCCCE-----------ECGGGGHHHHTCTTCCCEEECTTCCCCEEC
T ss_pred             cEEecCCC-ccceecChhh-hcccCCCCEEeCcCCccce-----------ecHHHccchhccchhhhhcccCCCCceecC
Confidence            99999999 8876  5766 5999999999999999842           233445555666    79999999988877


Q ss_pred             Ccc-cccccceeeEEecCCCccccc-c---cc---------cccccccccccceeehhhhhhc--ccccccccc-cccCC
Q 037935          641 DGL-FTKKLERFDISIGDGSFDSTK-I---IG---------NDWFQTFNIQSIYIFCIVMALE--LNAINVDEI-WHYNQ  703 (1085)
Q Consensus       641 ~~~-~l~~L~~L~l~~~~~~~~~~~-~---l~---------~~~~~~~~l~~~~l~~~~~~~~--L~~l~L~~~-~~~~~  703 (1085)
                      ... ...+|+.|++..+........ .   +.         ..+....++.......+..+..  ++.+.+..+ .....
T Consensus       194 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~l~~l~l~~l~l~~~~~~~~~  273 (570)
T 2z63_A          194 PGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDD  273 (570)
T ss_dssp             TTTTTTCEEEEEEEESCCSCTTHHHHHHHTTTTCEEEEEEEEECCCCSSCEECCTTTTGGGGGSEEEEEEEEETTEEESC
T ss_pred             HHHhccCcceeEecccccccccchhhhhcCccccceeeeccccccCchhhhhcchhhhccccccchhhhhhhcchhhhhh
Confidence            654 445788888875421111000 0   00         0000001111111111111111  112222222 22334


Q ss_pred             CCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCcc
Q 037935          704 LPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPEL  783 (1085)
Q Consensus       704 ~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  783 (1085)
                      .|.++..+++|+.|++++|. +..++.  .+..+ +|+.|++++|.. ..++.          ..+++|+.|.+.++...
T Consensus       274 ~~~~~~~l~~L~~L~l~~~~-l~~l~~--~~~~~-~L~~L~l~~n~~-~~l~~----------~~l~~L~~L~l~~n~~~  338 (570)
T 2z63_A          274 IIDLFNCLTNVSSFSLVSVT-IERVKD--FSYNF-GWQHLELVNCKF-GQFPT----------LKLKSLKRLTFTSNKGG  338 (570)
T ss_dssp             STTTTGGGTTCSEEEEESCE-ECSCCB--CCSCC-CCSEEEEESCBC-SSCCB----------CBCSSCCEEEEESCBSC
T ss_pred             chhhhcCcCcccEEEecCcc-chhhhh--hhccC-CccEEeeccCcc-cccCc----------ccccccCEEeCcCCccc
Confidence            56666677777777777764 334432  35555 777777777652 22211          24667777777765422


Q ss_pred             ccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCC
Q 037935          784 RCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGS  863 (1085)
Q Consensus       784 ~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~  863 (1085)
                      ....    ...+++|++|++++|..-...              ........+++|++|++++|.+...++. +..  +++
T Consensus       339 ~~~~----~~~~~~L~~L~l~~n~l~~~~--------------~~~~~~~~~~~L~~L~l~~n~l~~~~~~-~~~--l~~  397 (570)
T 2z63_A          339 NAFS----EVDLPSLEFLDLSRNGLSFKG--------------CCSQSDFGTTSLKYLDLSFNGVITMSSN-FLG--LEQ  397 (570)
T ss_dssp             CBCC----CCBCTTCCEEECCSSCCBEEE--------------EEEHHHHTCSCCCEEECCSCSEEEEEEE-EET--CTT
T ss_pred             cccc----cccCCCCCEEeCcCCccCccc--------------cccccccccCccCEEECCCCcccccccc-ccc--cCC
Confidence            2211    145667777777666422110              0011223466777777777776665544 333  567


Q ss_pred             ceEEEecCCcccccch-hHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccc-cccccCCCchhh
Q 037935          864 LKQLRVGDDDLACFPL-DLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHL-QQLWKHDSKELD  941 (1085)
Q Consensus       864 L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L-~~l~~~~~~~~~  941 (1085)
                      |++|++++|.++..++ ..+..+++|+.|++++|.+....+      ..+..+++|+.|++++|.-. ..++...     
T Consensus       398 L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~------~~~~~l~~L~~L~l~~n~l~~~~~p~~~-----  466 (570)
T 2z63_A          398 LEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN------GIFNGLSSLEVLKMAGNSFQENFLPDIF-----  466 (570)
T ss_dssp             CCEEECTTSEEESCTTSCTTTTCTTCCEEECTTSCCEECCT------TTTTTCTTCCEEECTTCEEGGGEECSCC-----
T ss_pred             CCEEEccCCccccccchhhhhcCCCCCEEeCcCCcccccch------hhhhcCCcCcEEECcCCcCccccchhhh-----
Confidence            7777777776665543 345667777777777776555432      23445666777777664322 1233211     


Q ss_pred             hHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCc
Q 037935          942 FIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCP 1007 (1085)
Q Consensus       942 ~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~ 1007 (1085)
                      ..+++|+.|++++| .+..+.|..+..+++|++|++++| +++.+ ++..+..+++|++|++++|+
T Consensus       467 ~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~~~l~~L~~L~l~~N~  529 (570)
T 2z63_A          467 TELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMASN-QLKSV-PDGIFDRLTSLQKIWLHTNP  529 (570)
T ss_dssp             TTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSS-CCSCC-CTTTTTTCTTCCEEECCSSC
T ss_pred             hcccCCCEEECCCC-ccccCChhhhhcccCCCEEeCCCC-cCCCC-CHHHhhcccCCcEEEecCCc
Confidence            23566777777666 455555556666667777777664 45554 23445566667777776654

>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*

Probab=99.97  E-value=1.9e-30  Score=310.91  Aligned_cols=149  Identities=21%  Similarity=0.282  Sum_probs=83.4

Q ss_pred             cccceEEEeeccCcccccc-c-CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchh-hhcccccc
Q 037935          491 LKKCYAISLLNSSIHEVSL-E-FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS-IGQLTKLR  567 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~-~-~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~  567 (1085)
                      ...+++|++++|.+..++. . ..+++|++|++++|.   +..+++..|.++++|++|++++|.++.+|.. ++++++|+
T Consensus        25 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~---i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  101 (549)
T 2z81_A           25 TAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSR---INTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLK  101 (549)
T ss_dssp             CTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSC---CCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCC
T ss_pred             CCCccEEECcCCccCccChhhhhcCCcccEEECCCCC---cCccChhhccccccCCEEECCCCccCccCHHHhccCCCCc
Confidence            3556666666666655532 2 256666666666665   4455555566666666666666666665543 66666666


Q ss_pred             EEeccCccccccc--chhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC-CCcc-
Q 037935          568 MLDLTDCLQLKFI--VPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL-PDGL-  643 (1085)
Q Consensus       568 ~L~Ls~~~~l~~l--p~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~-~~~~-  643 (1085)
                      +|++++| .++.+  |.. ++++++|++|++++|.+.          .......+.++++|++|++++|.+... |..+ 
T Consensus       102 ~L~Ls~n-~l~~~~~~~~-~~~l~~L~~L~L~~n~~~----------~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~  169 (549)
T 2z81_A          102 YLNLMGN-PYQTLGVTSL-FPNLTNLQTLRIGNVETF----------SEIRRIDFAGLTSLNELEIKALSLRNYQSQSLK  169 (549)
T ss_dssp             EEECTTC-CCSSSCSSCS-CTTCTTCCEEEEEESSSC----------CEECTTTTTTCCEEEEEEEEETTCCEECTTTTT
T ss_pred             EEECCCC-cccccchhhh-hhccCCccEEECCCCccc----------cccCHhhhhcccccCeeeccCCcccccChhhhh
Confidence            6666666 55533  332 466666666666666531          111123455666666666666665542 2333 


Q ss_pred             cccccceeeEE
Q 037935          644 FTKKLERFDIS  654 (1085)
Q Consensus       644 ~l~~L~~L~l~  654 (1085)
                      .+++|+.|++.
T Consensus       170 ~l~~L~~L~l~  180 (549)
T 2z81_A          170 SIRDIHHLTLH  180 (549)
T ss_dssp             TCSEEEEEEEE
T ss_pred             ccccCceEecc
Confidence            45555555554

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.97  E-value=2.8e-29  Score=302.40  Aligned_cols=288  Identities=18%  Similarity=0.301  Sum_probs=215.2

Q ss_pred             CCCccccchHHHHHHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhh-ccCC-CEEEEEEeCCCcCHHHHHHH-
Q 037935          158 KGYEAFESRVSTLKSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQARE-KKLF-DRVVFSEVSQTPDIKKIQGE-  232 (1085)
Q Consensus       158 ~~~~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~-~~~f-~~~~wv~~~~~~~~~~~~~~-  232 (1085)
                      ..+..|+||+.++++|.+++.  .++.++|+|+||||+||||||++++++.+. +.+| +.++|++++.. +...++.. 
T Consensus       121 ~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l  199 (591)
T 1z6t_A          121 QRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKL  199 (591)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHH
T ss_pred             CCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHH
Confidence            345679999999999999987  356799999999999999999999987654 5668 58999999875 33333333 


Q ss_pred             --HHHHhCCC-----CCCchHHHHHHHHHHHHHc-CCcEEEEEeCCCCcccccccccccCCCCCCcEEEe----------
Q 037935          233 --IAEKLGLE-----LSDEAEYRRASRLYERLKN-ENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLI----------  294 (1085)
Q Consensus       233 --i~~~l~~~-----~~~~~~~~~~~~~~~~l~~-~~~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv----------  294 (1085)
                        ++..++..     ............+...+.. .+++||||||||+...++.+       ..|++|||          
T Consensus       200 ~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~  272 (591)
T 1z6t_A          200 QNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDS  272 (591)
T ss_dssp             HHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTT
T ss_pred             HHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHh
Confidence              34455521     1122223334455555542 37999999999987655443       34566665          


Q ss_pred             -----------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHhcCCHHHHHHHHHHhcCCC
Q 037935          295 -----------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPS  363 (1085)
Q Consensus       295 -----------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~~  363 (1085)
                                 ++|+.+|++++|...++..  .....+.+.+|+++|+|+|+||..+|+.++... ..|..+++.+....
T Consensus       273 ~~~~~~~v~~l~~L~~~ea~~L~~~~~~~~--~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~~  349 (591)
T 1z6t_A          273 VMGPKYVVPVESSLGKEKGLEILSLFVNMK--KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQ  349 (591)
T ss_dssp             CCSCEEEEECCSSCCHHHHHHHHHHHHTSC--GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSCC
T ss_pred             cCCCceEeecCCCCCHHHHHHHHHHHhCCC--cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHhH
Confidence                       4899999999999998642  223356789999999999999999999998653 37988888876554


Q ss_pred             CCCC----CCCcccchhhHHHHHhcCChHHHHHHHHhccccCCC--CCHHHHHHHHhhcCCCCCCchHHHHHHHHHHHHH
Q 037935          364 VVNF----EGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGNS--FYLIDLLRYSMGLGLFHGVNKMEDARNKLYALVH  437 (1085)
Q Consensus       364 ~~~~----~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~fp~~--i~~~~li~~w~~~g~~~~~~~~~~~~~~~~~~~~  437 (1085)
                      ....    ......+..++..||+.||+ +.|.||.+||+||++  |+.+.+...|.++        .++    ..++++
T Consensus       350 ~~~~~~~~~~~~~~l~~~l~~s~~~L~~-~~~~~l~~la~f~~~~~i~~~~l~~l~~~~--------~~~----~~~~l~  416 (591)
T 1z6t_A          350 FKRIRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVLCILWDME--------TEE----VEDILQ  416 (591)
T ss_dssp             CCCSSCCCSSCCHHHHHHHHHHHHTSCT-TTHHHHHHGGGCCTTCCEEHHHHHHHHTCC--------HHH----HHHHHH
T ss_pred             HHHhhhccccchHHHHHHHHHHHHhCCH-HHHHHHHHccccCCCCccCHHHHHHHhccC--------HHH----HHHHHH
Confidence            2211    12234688999999999998 699999999999986  8889999999643        122    344689


Q ss_pred             HHhHcccceec--CCcceEEEcHHHHHHHHHHhh
Q 037935          438 ELRDCCLLLEG--DRNETFYMHDVVCDVAVSIAC  469 (1085)
Q Consensus       438 ~L~~~~ll~~~--~~~~~~~mHdl~~~~~~~~~~  469 (1085)
                      +|+++||++..  +...+|+||+++|++++....
T Consensus       417 ~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~~~  450 (591)
T 1z6t_A          417 EFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNC  450 (591)
T ss_dssp             HHHHTTSSEEEEETTEEEEECCHHHHHHHHHHTG
T ss_pred             HHHhCcCeEEecCCCccEEEEcHHHHHHHHhhhh
Confidence            99999999754  334589999999999998743

>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*

Probab=99.96  E-value=2e-28  Score=293.46  Aligned_cols=487  Identities=14%  Similarity=0.106  Sum_probs=276.8

Q ss_pred             EEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCcc
Q 037935          497 ISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCL  575 (1085)
Q Consensus       497 Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~  575 (1085)
                      .+.+++.++.+|..+. ++|++|++++|.   +..+++..|.++++|++|++++|.++.++ ..|+++++|++|++++| 
T Consensus        10 c~~~~~~l~~ip~~~~-~~L~~L~Ls~n~---l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n-   84 (549)
T 2z81_A           10 CDGRSRSFTSIPSGLT-AAMKSLDLSFNK---ITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDN-   84 (549)
T ss_dssp             EECTTSCCSSCCSCCC-TTCCEEECCSSC---CCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS-
T ss_pred             EECCCCccccccccCC-CCccEEECcCCc---cCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCC-
Confidence            4566778888887653 899999999998   66776667999999999999999999875 68999999999999999 


Q ss_pred             cccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEecc-CCCCCCc-c-cccccceee
Q 037935          576 QLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVED-DSILPDG-L-FTKKLERFD  652 (1085)
Q Consensus       576 ~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~-~~~~~~~-~-~l~~L~~L~  652 (1085)
                      .++.+|+..|+++++|++|++++|.+...          ..+..++++++|++|++++|. +..++.. + .+++|+.|+
T Consensus        85 ~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~----------~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~  154 (549)
T 2z81_A           85 HLSSLSSSWFGPLSSLKYLNLMGNPYQTL----------GVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELE  154 (549)
T ss_dssp             CCCSCCHHHHTTCTTCCEEECTTCCCSSS----------CSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEE
T ss_pred             ccCccCHHHhccCCCCcEEECCCCccccc----------chhhhhhccCCccEEECCCCccccccCHhhhhcccccCeee
Confidence            99999998789999999999999988421          223457899999999999997 5666643 3 788999999


Q ss_pred             EEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCc-ccccccccEEEEcCCCCCccc-cc
Q 037935          653 ISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAM-VPCFQSLTRLIVWGCDKLKYI-FS  730 (1085)
Q Consensus       653 l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~-~~~l~~L~~L~L~~~~~l~~l-~~  730 (1085)
                      +..+.-.                  ......+..+..|+.+++..+... .+|.+ +..+++|++|++++|...... .+
T Consensus       155 L~~n~l~------------------~~~~~~l~~l~~L~~L~l~~n~~~-~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~  215 (549)
T 2z81_A          155 IKALSLR------------------NYQSQSLKSIRDIHHLTLHLSESA-FLLEIFADILSSVRYLELRDTNLARFQFSP  215 (549)
T ss_dssp             EEETTCC------------------EECTTTTTTCSEEEEEEEECSBST-THHHHHHHSTTTBSEEEEESCBCTTCCCCC
T ss_pred             ccCCccc------------------ccChhhhhccccCceEecccCccc-ccchhhHhhcccccEEEccCCccccccccc
Confidence            9754311                  001111122223333333332221 12222 234667777777776443311 01


Q ss_pred             hhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccc--cccC--CCcccCCCcccceeeccC
Q 037935          731 ASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELR--CLYP--GMHTSEWPALKNLVACNC  806 (1085)
Q Consensus       731 ~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~--~~~~--~~~~~~~~~L~~L~i~~c  806 (1085)
                      ......+++|+.|++++|......+....    .....+++|+.+.+++|....  .+..  ......+++|+.|.+.++
T Consensus       216 ~~~~~~~~~L~~L~l~~n~l~~~~~~~l~----~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~  291 (549)
T 2z81_A          216 LPVDEVSSPMKKLAFRGSVLTDESFNELL----KLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRL  291 (549)
T ss_dssp             CSSCCCCCCCCEEEEESCEEEHHHHHHHH----GGGGGCTTCCEEEEESCEEECCSCCCCCTTTCCCCCTTCCEEEEESC
T ss_pred             cchhhhhhcccceeccccccchhHHHHHH----HHhhhhccccccccccccccccccccccchhhhhhhccccccccccc
Confidence            11233466777777776653221111000    011135666666666653211  0100  001234556666666554


Q ss_pred             CCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccch---hHHh
Q 037935          807 DKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPL---DLLE  883 (1085)
Q Consensus       807 ~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~---~~~~  883 (1085)
                      ..-....           ...+..+....++|+.|++++|.+..++...+..  +++|++|++++|.++...+   ..+.
T Consensus       292 ~i~~~~~-----------~~~l~~~~~~~~~L~~L~l~~n~l~~ip~~~~~~--l~~L~~L~Ls~N~l~~~~~~~~~~~~  358 (549)
T 2z81_A          292 HIPQFYL-----------FYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQH--LKSLEFLDLSENLMVEEYLKNSACKG  358 (549)
T ss_dssp             BCSCGGG-----------SCCCCHHHHHSTTCCEEEEESSCCCCCCHHHHHH--CTTCCEEECCSSCCCHHHHHHHTCTT
T ss_pred             ccchhhh-----------cccchhhhhhcccceEEEeccCccccCCHHHHhc--CccccEEEccCCccccccccchhhhh
Confidence            3211100           0001111223456666666666655443322211  4566666666666654321   1234


Q ss_pred             hccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCC
Q 037935          884 RFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLP  963 (1085)
Q Consensus       884 ~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~  963 (1085)
                      .+++|+.|++++|.++.+...    ...+..+++|+.|++++ +.++.++...     ..+++|+.|++++| .+..++.
T Consensus       359 ~l~~L~~L~Ls~N~l~~~~~~----~~~~~~l~~L~~L~Ls~-N~l~~lp~~~-----~~~~~L~~L~Ls~N-~l~~l~~  427 (549)
T 2z81_A          359 AWPSLQTLVLSQNHLRSMQKT----GEILLTLKNLTSLDISR-NTFHPMPDSC-----QWPEKMRFLNLSST-GIRVVKT  427 (549)
T ss_dssp             SSTTCCEEECTTSCCCCHHHH----HHHGGGCTTCCEEECTT-CCCCCCCSCC-----CCCTTCCEEECTTS-CCSCCCT
T ss_pred             ccccCcEEEccCCcccccccc----hhhhhcCCCCCEEECCC-CCCccCChhh-----cccccccEEECCCC-Ccccccc
Confidence            556666666666665443210    11244556666666666 3455544321     13456666666666 3433322


Q ss_pred             CCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccccccccccceeecccccccccccccc
Q 037935          964 SSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSL 1043 (1085)
Q Consensus       964 ~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L 1043 (1085)
                      . +  .++|++|++++| +++.+     ...+++|++|++++| .++.++.           ...+++|+.|+++++ .+
T Consensus       428 ~-~--~~~L~~L~Ls~N-~l~~~-----~~~l~~L~~L~Ls~N-~l~~ip~-----------~~~l~~L~~L~Ls~N-~l  485 (549)
T 2z81_A          428 C-I--PQTLEVLDVSNN-NLDSF-----SLFLPRLQELYISRN-KLKTLPD-----------ASLFPVLLVMKISRN-QL  485 (549)
T ss_dssp             T-S--CTTCSEEECCSS-CCSCC-----CCCCTTCCEEECCSS-CCSSCCC-----------GGGCTTCCEEECCSS-CC
T ss_pred             h-h--cCCceEEECCCC-Chhhh-----cccCChhcEEECCCC-ccCcCCC-----------cccCccCCEEecCCC-cc
Confidence            1 1  246666666654 34443     135666666666665 3444422           112566666666664 45


Q ss_pred             ceecCCCccccCCCcCceeeccCCC
Q 037935         1044 TSFSSGNYAFKLPSLQDLWVIGCPK 1068 (1085)
Q Consensus      1044 ~~l~~~~~~~~l~~L~~L~i~~C~~ 1068 (1085)
                      +.++.+. ...+++|++|++++||-
T Consensus       486 ~~~~~~~-~~~l~~L~~L~l~~N~~  509 (549)
T 2z81_A          486 KSVPDGI-FDRLTSLQKIWLHTNPW  509 (549)
T ss_dssp             CCCCTTG-GGGCTTCCEEECCSSCB
T ss_pred             CCcCHHH-HhcCcccCEEEecCCCc
Confidence            5555433 24566666666666653

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.96  E-value=3.4e-29  Score=302.77  Aligned_cols=215  Identities=13%  Similarity=0.121  Sum_probs=141.1

Q ss_pred             CCccceeeeccCCceeeecccCC-----cCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCcc-
Q 037935          835 LPNLEGLALSGKDITMILQDDFP-----QHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYL-  908 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~-----~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~-  908 (1085)
                      +++|+.|++++|.+++..+..+.     ...+++|++|++++|.++.+|...+..+++|+.|++++|.++.++...... 
T Consensus       401 l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~  480 (636)
T 4eco_A          401 VSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDE  480 (636)
T ss_dssp             SSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSSCCSBCCSSSSEET
T ss_pred             cCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCCCCCCcCHHHhccc
Confidence            45788888888887765554444     002568888888888888888877777888888888888877554322110 


Q ss_pred             ccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEecccc-----Cc
Q 037935          909 ETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACK-----KL  983 (1085)
Q Consensus       909 ~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~-----~L  983 (1085)
                      ...+..+++|+.|++++ +.++.++.....   ..+++|+.|++++| .+.. .|..+..+++|++|++++|.     ++
T Consensus       481 ~~~~~~l~~L~~L~Ls~-N~l~~lp~~~~~---~~l~~L~~L~Ls~N-~l~~-ip~~~~~l~~L~~L~Ls~N~~ls~N~l  554 (636)
T 4eco_A          481 NENFKNTYLLTSIDLRF-NKLTKLSDDFRA---TTLPYLVGIDLSYN-SFSK-FPTQPLNSSTLKGFGIRNQRDAQGNRT  554 (636)
T ss_dssp             TEECTTGGGCCEEECCS-SCCCBCCGGGST---TTCTTCCEEECCSS-CCSS-CCCGGGGCSSCCEEECCSCBCTTCCBC
T ss_pred             cccccccCCccEEECcC-CcCCccChhhhh---ccCCCcCEEECCCC-CCCC-cChhhhcCCCCCEEECCCCcccccCcc
Confidence            01123345888888888 566666542210   14788889998887 5655 46668888899999986532     23


Q ss_pred             ccccchhhhhhcccccEEEEcCCcccccccccccccccccccceeeccccccccccccccceecCCCc-------cccCC
Q 037935          984 MNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNY-------AFKLP 1056 (1085)
Q Consensus       984 ~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~-------~~~l~ 1056 (1085)
                      ... .+..+..+++|++|++++|. +..++.           . .+++|+.|++++++ +..+....+       ...+.
T Consensus       555 ~~~-~p~~l~~l~~L~~L~Ls~N~-l~~ip~-----------~-~~~~L~~L~Ls~N~-l~~~~~~~~~~~~~~~~~~l~  619 (636)
T 4eco_A          555 LRE-WPEGITLCPSLTQLQIGSND-IRKVNE-----------K-ITPNISVLDIKDNP-NISIDLSYVCPYIEAGMYMLF  619 (636)
T ss_dssp             CCC-CCTTGGGCSSCCEEECCSSC-CCBCCS-----------C-CCTTCCEEECCSCT-TCEEECTTTHHHHHTTCCEEE
T ss_pred             ccc-ChHHHhcCCCCCEEECCCCc-CCccCH-----------h-HhCcCCEEECcCCC-CccccHHhcchhhhcccceee
Confidence            322 23456778889999998876 455533           1 14788999998875 334432211       12344


Q ss_pred             CcCceeeccCCCcc
Q 037935         1057 SLQDLWVIGCPKMK 1070 (1085)
Q Consensus      1057 ~L~~L~i~~C~~l~ 1070 (1085)
                      ..+..+|.+||+|+
T Consensus       620 ~~~~~~i~~C~~L~  633 (636)
T 4eco_A          620 YDKTQDIRGCDALD  633 (636)
T ss_dssp             CCTTSEEESCGGGC
T ss_pred             cCCccccCCCcccc
Confidence            55777999999875

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.96  E-value=2.9e-29  Score=303.34  Aligned_cols=298  Identities=13%  Similarity=0.076  Sum_probs=193.5

Q ss_pred             CCCC--cccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCc-ccEEecCC
Q 037935          703 QLPA--MVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPR-VTTLKLDG  779 (1085)
Q Consensus       703 ~~p~--~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~-L~~L~l~~  779 (1085)
                      .+|.  ++..+++|+.|++++|.....+|   .++.+++|+.|++++|. +..++..        ...+++ |+.|++++
T Consensus       319 ~ip~~~~l~~l~~L~~L~L~~N~l~g~ip---~~~~l~~L~~L~L~~N~-l~~lp~~--------l~~l~~~L~~L~Ls~  386 (636)
T 4eco_A          319 TFPVETSLQKMKKLGMLECLYNQLEGKLP---AFGSEIKLASLNLAYNQ-ITEIPAN--------FCGFTEQVENLSFAH  386 (636)
T ss_dssp             SCCCHHHHTTCTTCCEEECCSCCCEEECC---CCEEEEEESEEECCSSE-EEECCTT--------SEEECTTCCEEECCS
T ss_pred             ccCchhhhccCCCCCEEeCcCCcCccchh---hhCCCCCCCEEECCCCc-cccccHh--------hhhhcccCcEEEccC
Confidence            4676  77888999999998876554664   48889999999999887 3333221        124677 99999988


Q ss_pred             CCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcC
Q 037935          780 LPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQH  859 (1085)
Q Consensus       780 ~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~  859 (1085)
                      +. +..++.......+++|+.|++++|......|.....         .....-.+++|+.|++++|.++.++...+.. 
T Consensus       387 N~-l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~---------~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~-  455 (636)
T 4eco_A          387 NK-LKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDP---------LDPTPFKGINVSSINLSNNQISKFPKELFST-  455 (636)
T ss_dssp             SC-CSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCT---------TCSSCCCCCCEEEEECCSSCCCSCCTHHHHT-
T ss_pred             Cc-CcccchhhhhcccCccCEEECcCCcCCCcchhhhcc---------cccccccCCCCCEEECcCCccCcCCHHHHcc-
Confidence            64 444443322233558899998888654433311100         0000013578999999999988765544433 


Q ss_pred             ccCCceEEEecCCcccccchhHHhhc-------cccceEEeecccccEEEecCCccccccc--cccccceeccCCccccc
Q 037935          860 LFGSLKQLRVGDDDLACFPLDLLERF-------HNLEFLYLSDCSYEVVFSNEGYLETHAR--KLALIKRLNLTRLNHLQ  930 (1085)
Q Consensus       860 ~~~~L~~L~l~~n~l~~~~~~~~~~l-------~~L~~L~l~~~~l~~~~~~~~~~~~~l~--~l~~L~~L~l~~c~~L~  930 (1085)
                       +++|++|++++|.++.+|...+..+       ++|+.|++++|.++.++.       .+.  .+++|+.|++++ +.++
T Consensus       456 -l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~-------~~~~~~l~~L~~L~Ls~-N~l~  526 (636)
T 4eco_A          456 -GSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSD-------DFRATTLPYLVGIDLSY-NSFS  526 (636)
T ss_dssp             -TCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSCCCBCCG-------GGSTTTCTTCCEEECCS-SCCS
T ss_pred             -CCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCcCCccCh-------hhhhccCCCcCEEECCC-CCCC
Confidence             6889999999999998887665433       389999999999875532       233  678899999988 5666


Q ss_pred             ccccCCCchhhhHhhhhceeeeeccc-----cccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcC
Q 037935          931 QLWKHDSKELDFIFQHLQILRVLHCQ-----NLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFG 1005 (1085)
Q Consensus       931 ~l~~~~~~~~~~~l~~L~~L~i~~c~-----~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~ 1005 (1085)
                      .++..     ...+++|+.|++++|.     ++....|.++..+++|++|++++|. +..++..  +  .++|+.|++++
T Consensus       527 ~ip~~-----~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~ip~~--~--~~~L~~L~Ls~  596 (636)
T 4eco_A          527 KFPTQ-----PLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSND-IRKVNEK--I--TPNISVLDIKD  596 (636)
T ss_dssp             SCCCG-----GGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSC-CCBCCSC--C--CTTCCEEECCS
T ss_pred             CcChh-----hhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCCc-CCccCHh--H--hCcCCEEECcC
Confidence            66542     2357899999996532     4455567778889999999998864 6766322  2  27899999999


Q ss_pred             Ccccccccccccccccccccceeeccccccccccccccc
Q 037935         1006 CPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLT 1044 (1085)
Q Consensus      1006 c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~ 1044 (1085)
                      |+ +..+....... ........+...+..++.+|+.|+
T Consensus       597 N~-l~~~~~~~~~~-~~~~~~~~l~~~~~~~i~~C~~L~  633 (636)
T 4eco_A          597 NP-NISIDLSYVCP-YIEAGMYMLFYDKTQDIRGCDALD  633 (636)
T ss_dssp             CT-TCEEECTTTHH-HHHTTCCEEECCTTSEEESCGGGC
T ss_pred             CC-CccccHHhcch-hhhcccceeecCCccccCCCcccc
Confidence            76 33432211000 000111223444556667777653

>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}

Probab=99.96  E-value=1.6e-28  Score=291.88  Aligned_cols=143  Identities=16%  Similarity=0.161  Sum_probs=110.9

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEeccC
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~  573 (1085)
                      ++++++++.++.+|..+. ++|++|++++|.   +..+++..|.++++|++|+|++|.++.+ |..|+++++|++|+|++
T Consensus         3 ~~l~ls~n~l~~ip~~~~-~~L~~L~Ls~n~---i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~   78 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS-QKTTILNISQNY---ISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSH   78 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC-TTCSEEECCSSC---CCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCS
T ss_pred             ceEecCCCCccccccccc-ccccEEECCCCc---ccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCC
Confidence            578888888888887665 888888888887   6677777788888899999998888886 67888888999999988


Q ss_pred             cccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCccccccc--cee
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKL--ERF  651 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L--~~L  651 (1085)
                      | .++.+|..   .+++|++|++++|.+..          ...+..++++++|++|++++|.+... .-..+++|  +.|
T Consensus        79 N-~l~~lp~~---~l~~L~~L~L~~N~l~~----------~~~p~~~~~l~~L~~L~L~~n~l~~~-~~~~l~~L~L~~L  143 (520)
T 2z7x_B           79 N-KLVKISCH---PTVNLKHLDLSFNAFDA----------LPICKEFGNMSQLKFLGLSTTHLEKS-SVLPIAHLNISKV  143 (520)
T ss_dssp             S-CCCEEECC---CCCCCSEEECCSSCCSS----------CCCCGGGGGCTTCCEEEEEESSCCGG-GGGGGTTSCEEEE
T ss_pred             C-ceeecCcc---ccCCccEEeccCCcccc----------ccchhhhccCCcceEEEecCcccchh-hccccccceeeEE
Confidence            8 88888874   78888999988888731          12346688888888888888887641 11155666  777


Q ss_pred             eEEec
Q 037935          652 DISIG  656 (1085)
Q Consensus       652 ~l~~~  656 (1085)
                      ++..+
T Consensus       144 ~l~~n  148 (520)
T 2z7x_B          144 LLVLG  148 (520)
T ss_dssp             EEEEC
T ss_pred             Eeecc
Confidence            77654

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.96  E-value=1e-28  Score=302.25  Aligned_cols=310  Identities=14%  Similarity=0.088  Sum_probs=196.0

Q ss_pred             cccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCC
Q 037935          711 FQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGM  790 (1085)
Q Consensus       711 l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  790 (1085)
                      +++|+.|+|++|... .+|....++.+++|+.|++++|. +..++         ....+++|+.|+++++. +..++.. 
T Consensus       547 l~~L~~L~Ls~N~L~-~ip~~~~l~~L~~L~~L~Ls~N~-l~~lp---------~~~~L~~L~~L~Ls~N~-l~~lp~~-  613 (876)
T 4ecn_A          547 GPKIQIFYMGYNNLE-EFPASASLQKMVKLGLLDCVHNK-VRHLE---------AFGTNVKLTDLKLDYNQ-IEEIPED-  613 (876)
T ss_dssp             TTTCCEEECCSSCCC-BCCCHHHHTTCTTCCEEECTTSC-CCBCC---------CCCTTSEESEEECCSSC-CSCCCTT-
T ss_pred             cCCccEEEeeCCcCC-ccCChhhhhcCCCCCEEECCCCC-cccch---------hhcCCCcceEEECcCCc-cccchHH-
Confidence            446777777665433 44331246677777777777665 22222         11246667777776643 3333222 


Q ss_pred             cccCCCc-ccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeeccc---CCcCccCCceE
Q 037935          791 HTSEWPA-LKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDD---FPQHLFGSLKQ  866 (1085)
Q Consensus       791 ~~~~~~~-L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~---~~~~~~~~L~~  866 (1085)
                       ...+++ |+.|.+++|. +..+|....              ....++|+.|++++|.+.+..+..   +....+++|+.
T Consensus       614 -l~~l~~~L~~L~Ls~N~-L~~lp~~~~--------------~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~  677 (876)
T 4ecn_A          614 -FCAFTDQVEGLGFSHNK-LKYIPNIFN--------------AKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINAST  677 (876)
T ss_dssp             -SCEECTTCCEEECCSSC-CCSCCSCCC--------------TTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEE
T ss_pred             -HhhccccCCEEECcCCC-CCcCchhhh--------------ccccCCCCEEECcCCcCCCccccchhhhccccCCCcCE
Confidence             344566 8888887775 333331100              011356999999999976643321   11112458999


Q ss_pred             EEecCCcccccchhHHhhccccceEEeecccccEEEecCCcc-ccccccccccceeccCCcccccccccCCCchhhhHhh
Q 037935          867 LRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYL-ETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQ  945 (1085)
Q Consensus       867 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~-~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~  945 (1085)
                      |++++|.++.+|...+..+++|+.|++++|.+..++...... ...+.++++|+.|++++| .++.++....   ...++
T Consensus       678 L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N-~L~~lp~~l~---~~~l~  753 (876)
T 4ecn_A          678 VTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFN-KLTSLSDDFR---ATTLP  753 (876)
T ss_dssp             EECCSSCCCSCCHHHHHTTCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCSS-CCCCCCGGGS---TTTCT
T ss_pred             EEccCCcCCccCHHHHccCCCCCEEECCCCcCCccChHHhccccccccccCCccEEECCCC-CCccchHHhh---hccCC
Confidence            999999999999888888999999999999988654322110 011334568999999984 6776665321   01578


Q ss_pred             hhceeeeeccccccccCCCCcccccCccEEEecccc-----CcccccchhhhhhcccccEEEEcCCcccccccccccccc
Q 037935          946 HLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACK-----KLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDET 1020 (1085)
Q Consensus       946 ~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~-----~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~ 1020 (1085)
                      +|+.|++++| .+..+ |..+..+++|+.|++++|+     ++... .+..+..+++|+.|++++|. +..++.      
T Consensus       754 ~L~~L~Ls~N-~L~~l-p~~l~~L~~L~~L~Ls~N~~ls~N~l~~~-ip~~l~~L~~L~~L~Ls~N~-L~~Ip~------  823 (876)
T 4ecn_A          754 YLSNMDVSYN-CFSSF-PTQPLNSSQLKAFGIRHQRDAEGNRILRQ-WPTGITTCPSLIQLQIGSND-IRKVDE------  823 (876)
T ss_dssp             TCCEEECCSS-CCSSC-CCGGGGCTTCCEEECCCCBCTTCCBCCCC-CCTTGGGCSSCCEEECCSSC-CCBCCS------
T ss_pred             CcCEEEeCCC-CCCcc-chhhhcCCCCCEEECCCCCCccccccccc-ChHHHhcCCCCCEEECCCCC-CCccCH------
Confidence            9999999998 56664 6668899999999998733     33333 23456789999999999976 466643      


Q ss_pred             cccccceeeccccccccccccccceecCCCc-------cccCCCcCceeeccCCCcc
Q 037935         1021 ANLKEEIVFSKLSALSLFDLDSLTSFSSGNY-------AFKLPSLQDLWVIGCPKMK 1070 (1085)
Q Consensus      1021 ~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~-------~~~l~~L~~L~i~~C~~l~ 1070 (1085)
                           . .+++|+.|++++|+ +.++....+       ...+......+|.+||++.
T Consensus       824 -----~-l~~~L~~LdLs~N~-l~~i~~~~~~~~~~~~~~~L~~n~~~~I~gC~~L~  873 (876)
T 4ecn_A          824 -----K-LTPQLYILDIADNP-NISIDVTSVCPYIEAGMYVLLYDKTQDIRGCDALG  873 (876)
T ss_dssp             -----C-CCSSSCEEECCSCT-TCEEECGGGHHHHHTTCCEEECCTTSEEESCGGGC
T ss_pred             -----h-hcCCCCEEECCCCC-CCccChHHccccccchheeecCCCccccCCCCCcc
Confidence                 1 24799999999986 444442221       1122333455788999875

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.96  E-value=1.4e-28  Score=300.87  Aligned_cols=356  Identities=13%  Similarity=0.103  Sum_probs=189.9

Q ss_pred             cChhhhcCCCcceEEEecCCcccC------------------Cchhhh--ccccccEEeccCcccccccchhhhhccccC
Q 037935          532 IPDNFFKGMKKLRVVDLTRVRLFS------------------LPSSIG--QLTKLRMLDLTDCLQLKFIVPNILSSFTRL  591 (1085)
Q Consensus       532 l~~~~~~~l~~Lr~L~Ls~~~i~~------------------lp~~i~--~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L  591 (1085)
                      +|.. |.++++|++|+|++|.++.                  +|..++  ++++|++|+|++|.....+|.. +++|++|
T Consensus       440 IP~~-l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~-l~~L~~L  517 (876)
T 4ecn_A          440 ISKA-IQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDF-LYDLPEL  517 (876)
T ss_dssp             ECGG-GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGG-GGGCSSC
T ss_pred             hhHH-HhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHH-HhCCCCC
Confidence            4543 6667777777777777766                  676666  7777777777777334555644 4777777


Q ss_pred             CEEeccCCC-cchhhcccCCcccc-ccHHHhhc-------CCCCcEEEEEeccCCCCCC--cc-cccccceeeEEecCCC
Q 037935          592 EELYMGSCS-IKWEVRKGNSERSN-ASLDELMH-------LQRLTTLEIDVEDDSILPD--GL-FTKKLERFDISIGDGS  659 (1085)
Q Consensus       592 ~~L~L~~~~-~~~~~~~~~~~~~~-~~~~~l~~-------L~~L~~L~l~~~~~~~~~~--~~-~l~~L~~L~l~~~~~~  659 (1085)
                      ++|++++|. +.           . ..|..+++       +++|++|++++|.+..+|.  .+ .+++|+.|+++.+   
T Consensus       518 ~~L~Ls~N~~ls-----------g~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N---  583 (876)
T 4ecn_A          518 QSLNIACNRGIS-----------AAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHN---  583 (876)
T ss_dssp             CEEECTTCTTSC-----------HHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTS---
T ss_pred             CEEECcCCCCcc-----------cccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCC---
Confidence            777777776 42           1 22333333       3377777777776666665  33 4555555554321   


Q ss_pred             cccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhccc
Q 037935          660 FDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQ  739 (1085)
Q Consensus       660 ~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~  739 (1085)
                                                             ... .+| .+..+++|+.|+|++|... .+|  ..+..+++
T Consensus       584 ---------------------------------------~l~-~lp-~~~~L~~L~~L~Ls~N~l~-~lp--~~l~~l~~  619 (876)
T 4ecn_A          584 ---------------------------------------KVR-HLE-AFGTNVKLTDLKLDYNQIE-EIP--EDFCAFTD  619 (876)
T ss_dssp             ---------------------------------------CCC-BCC-CCCTTSEESEEECCSSCCS-CCC--TTSCEECT
T ss_pred             ---------------------------------------Ccc-cch-hhcCCCcceEEECcCCccc-cch--HHHhhccc
Confidence                                                   111 234 4555666666666665433 442  23556666


Q ss_pred             -ccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCC
Q 037935          740 -LQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDEND  818 (1085)
Q Consensus       740 -L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~  818 (1085)
                       |+.|++++|. +..++....      ....++|+.|++++                          |......|.....
T Consensus       620 ~L~~L~Ls~N~-L~~lp~~~~------~~~~~~L~~L~Ls~--------------------------N~l~g~ip~l~~~  666 (876)
T 4ecn_A          620 QVEGLGFSHNK-LKYIPNIFN------AKSVYVMGSVDFSY--------------------------NKIGSEGRNISCS  666 (876)
T ss_dssp             TCCEEECCSSC-CCSCCSCCC------TTCSSCEEEEECCS--------------------------SCTTTTSSSCSSC
T ss_pred             cCCEEECcCCC-CCcCchhhh------ccccCCCCEEECcC--------------------------CcCCCccccchhh
Confidence             6666666665 222211000      00122355555554                          3222111100000


Q ss_pred             CCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhh-------ccccceE
Q 037935          819 QFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLER-------FHNLEFL  891 (1085)
Q Consensus       819 ~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~-------l~~L~~L  891 (1085)
                      .           ..-.+++|+.|++++|.++.++...+..  +++|+.|++++|.++.+|...+..       +++|+.|
T Consensus       667 l-----------~~~~~~~L~~L~Ls~N~L~~lp~~~~~~--l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L  733 (876)
T 4ecn_A          667 M-----------DDYKGINASTVTLSYNEIQKFPTELFAT--GSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTI  733 (876)
T ss_dssp             T-----------TTCCCCCEEEEECCSSCCCSCCHHHHHT--TCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEE
T ss_pred             h-----------ccccCCCcCEEEccCCcCCccCHHHHcc--CCCCCEEECCCCcCCccChHHhccccccccccCCccEE
Confidence            0           0001345666666666655443322212  455666666666666555443322       2366666


Q ss_pred             EeecccccEEEecCCccccccc--cccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccc-----cccccCCC
Q 037935          892 YLSDCSYEVVFSNEGYLETHAR--KLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQ-----NLLSLLPS  964 (1085)
Q Consensus       892 ~l~~~~l~~~~~~~~~~~~~l~--~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~-----~l~~~~~~  964 (1085)
                      ++++|.++.++       ..+.  .+++|+.|++++ +.++.++..     ...+++|+.|++++|+     ++....|.
T Consensus       734 ~Ls~N~L~~lp-------~~l~~~~l~~L~~L~Ls~-N~L~~lp~~-----l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~  800 (876)
T 4ecn_A          734 DLRFNKLTSLS-------DDFRATTLPYLSNMDVSY-NCFSSFPTQ-----PLNSSQLKAFGIRHQRDAEGNRILRQWPT  800 (876)
T ss_dssp             ECCSSCCCCCC-------GGGSTTTCTTCCEEECCS-SCCSSCCCG-----GGGCTTCCEEECCCCBCTTCCBCCCCCCT
T ss_pred             ECCCCCCccch-------HHhhhccCCCcCEEEeCC-CCCCccchh-----hhcCCCCCEEECCCCCCcccccccccChH
Confidence            66666655332       1122  455666666665 344444321     1245666777666532     44555677


Q ss_pred             CcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccc
Q 037935          965 SSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEV 1012 (1085)
Q Consensus       965 ~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l 1012 (1085)
                      .+..+++|+.|++++|. +..++..  +  .++|+.|++++|+ +..+
T Consensus       801 ~l~~L~~L~~L~Ls~N~-L~~Ip~~--l--~~~L~~LdLs~N~-l~~i  842 (876)
T 4ecn_A          801 GITTCPSLIQLQIGSND-IRKVDEK--L--TPQLYILDIADNP-NISI  842 (876)
T ss_dssp             TGGGCSSCCEEECCSSC-CCBCCSC--C--CSSSCEEECCSCT-TCEE
T ss_pred             HHhcCCCCCEEECCCCC-CCccCHh--h--cCCCCEEECCCCC-CCcc
Confidence            78888999999998864 5666332  2  2689999999976 4344

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.96  E-value=1e-27  Score=293.47  Aligned_cols=149  Identities=17%  Similarity=0.186  Sum_probs=125.8

Q ss_pred             cCccccCCCccccccceEEEeeccCccccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC
Q 037935          479 NDAVWEWPDGDALKKCYAISLLNSSIHEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL  556 (1085)
Q Consensus       479 ~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l  556 (1085)
                      +..+...|. ..+..+++|++++|.++.++..  ..+++|++|++++|.   +..++++.|.++++|++|+|++|+++.+
T Consensus        40 ~~~l~~vP~-~lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~---i~~i~~~~f~~L~~L~~L~Ls~N~l~~l  115 (635)
T 4g8a_A           40 ELNFYKIPD-NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE---IQTIEDGAYQSLSHLSTLILTGNPIQSL  115 (635)
T ss_dssp             TSCCSSCCS-SSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC---CCEECTTTTTTCTTCCEEECTTCCCCEE
T ss_pred             CCCcCccCC-CCCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCc---CCCcChhHhcCCCCCCEEEccCCcCCCC
Confidence            334455543 4677899999999999999753  389999999999997   7889888899999999999999999998


Q ss_pred             ch-hhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEecc
Q 037935          557 PS-SIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVED  635 (1085)
Q Consensus       557 p~-~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~  635 (1085)
                      |. .|++|++|++|+|++| .++.+|+..|+++++|++|++++|.+..          ...+..+..+++|++|++++|.
T Consensus       116 ~~~~f~~L~~L~~L~Ls~N-~l~~l~~~~~~~L~~L~~L~Ls~N~l~~----------~~~~~~~~~l~~L~~L~L~~N~  184 (635)
T 4g8a_A          116 ALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQS----------FKLPEYFSNLTNLEHLDLSSNK  184 (635)
T ss_dssp             CGGGGTTCTTCCEEECTTS-CCCCSTTCCCTTCTTCCEEECCSSCCCC----------CCCCGGGGGCTTCCEEECCSSC
T ss_pred             CHHHhcCCCCCCEEECCCC-cCCCCChhhhhcCcccCeeccccCcccc----------CCCchhhccchhhhhhcccCcc
Confidence            74 6899999999999999 9999998878999999999999998741          2245667889999999999999


Q ss_pred             CCCCCCc
Q 037935          636 DSILPDG  642 (1085)
Q Consensus       636 ~~~~~~~  642 (1085)
                      +..++..
T Consensus       185 l~~~~~~  191 (635)
T 4g8a_A          185 IQSIYCT  191 (635)
T ss_dssp             CCEECGG
T ss_pred             ccccccc
Confidence            8877644

>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}

Probab=99.95  E-value=4.6e-28  Score=287.86  Aligned_cols=119  Identities=15%  Similarity=0.187  Sum_probs=101.3

Q ss_pred             ceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCcccccccchhhhhccccCCEEe
Q 037935          517 EFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELY  595 (1085)
Q Consensus       517 r~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~  595 (1085)
                      ++|+++++.   ...+|..++   ++|++|++++|.++.+| ..+.++++|++|++++| .++.++++.|+++++|++|+
T Consensus         3 ~~l~ls~n~---l~~ip~~~~---~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~   75 (520)
T 2z7x_B            3 FLVDRSKNG---LIHVPKDLS---QKTTILNISQNYISELWTSDILSLSKLRILIISHN-RIQYLDISVFKFNQELEYLD   75 (520)
T ss_dssp             CEEECTTSC---CSSCCCSCC---TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSS-CCCEEEGGGGTTCTTCCEEE
T ss_pred             ceEecCCCC---ccccccccc---ccccEEECCCCcccccChhhccccccccEEecCCC-ccCCcChHHhhcccCCCEEe
Confidence            678999987   678887644   89999999999999976 68999999999999999 99998776689999999999


Q ss_pred             ccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC--CCcc-cccccceeeEEec
Q 037935          596 MGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL--PDGL-FTKKLERFDISIG  656 (1085)
Q Consensus       596 L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~--~~~~-~l~~L~~L~l~~~  656 (1085)
                      +++|.+...+            ..  .+++|++|++++|.+..+  |..+ .+++|+.|+++.+
T Consensus        76 Ls~N~l~~lp------------~~--~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n  125 (520)
T 2z7x_B           76 LSHNKLVKIS------------CH--PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTT  125 (520)
T ss_dssp             CCSSCCCEEE------------CC--CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEES
T ss_pred             cCCCceeecC------------cc--ccCCccEEeccCCccccccchhhhccCCcceEEEecCc
Confidence            9999984322            11  789999999999999874  4555 8899999999764

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.95  E-value=6.2e-26  Score=277.66  Aligned_cols=506  Identities=16%  Similarity=0.118  Sum_probs=287.8

Q ss_pred             EEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCc
Q 037935          496 AISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDC  574 (1085)
Q Consensus       496 ~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~  574 (1085)
                      .++-++.+++.+|..+. +++++|++++|.   +..+++..|.++++|++|+|++|.|+.+| .+|.+|++|++|+|++|
T Consensus        35 ~~~c~~~~l~~vP~~lp-~~~~~LdLs~N~---i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N  110 (635)
T 4g8a_A           35 TYQCMELNFYKIPDNLP-FSTKNLDLSFNP---LRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN  110 (635)
T ss_dssp             EEECTTSCCSSCCSSSC-TTCCEEECTTSC---CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC
T ss_pred             EEECCCCCcCccCCCCC-cCCCEEEeeCCC---CCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCC
Confidence            34444556778887653 589999999998   88899888999999999999999999986 47999999999999999


Q ss_pred             ccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCC--Ccc-ccccccee
Q 037935          575 LQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILP--DGL-FTKKLERF  651 (1085)
Q Consensus       575 ~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~--~~~-~l~~L~~L  651 (1085)
                       +++.+|+++|++|++|++|++++|.+...           ....++++++|++|++++|.+..++  ..+ .+++|+.|
T Consensus       111 -~l~~l~~~~f~~L~~L~~L~Ls~N~l~~l-----------~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L  178 (635)
T 4g8a_A          111 -PIQSLALGAFSGLSSLQKLVAVETNLASL-----------ENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHL  178 (635)
T ss_dssp             -CCCEECGGGGTTCTTCCEEECTTSCCCCS-----------TTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEE
T ss_pred             -cCCCCCHHHhcCCCCCCEEECCCCcCCCC-----------ChhhhhcCcccCeeccccCccccCCCchhhccchhhhhh
Confidence             99999999899999999999999998432           2234789999999999999987654  333 68899999


Q ss_pred             eEEecCCCcccccccccccccccccccceeehhhhhhccc----ccccccccccCCCCCcccccccccEEEEcCCCCCcc
Q 037935          652 DISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELN----AINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKY  727 (1085)
Q Consensus       652 ~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~----~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~  727 (1085)
                      +++.+.                  +.......+..+..+.    ..++..+......|..+ ....+..+.+.++.....
T Consensus       179 ~L~~N~------------------l~~~~~~~l~~L~~l~~~~~~~~ls~n~l~~i~~~~~-~~~~~~~l~l~~n~~~~~  239 (635)
T 4g8a_A          179 DLSSNK------------------IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF-KEIRLHKLTLRNNFDSLN  239 (635)
T ss_dssp             ECCSSC------------------CCEECGGGGHHHHTCTTCCCEEECTTCCCCEECTTTT-TTCEEEEEEEESCCSSHH
T ss_pred             cccCcc------------------ccccccccccchhhhhhhhhhhhcccCcccccCcccc-cchhhhhhhhhccccccc
Confidence            886432                  1111111222222222    11122211111112211 222445555555432222


Q ss_pred             ccchhhHhhcccccEEEeccccchHH--Hhc---c-------------------CCc-ccccccccCCcccEEecCCCCc
Q 037935          728 IFSASTIQSLEQLQHLEIRLCKSLQE--IIS---E-------------------NRT-DQVTAYFVFPRVTTLKLDGLPE  782 (1085)
Q Consensus       728 l~~~~~l~~l~~L~~L~l~~~~~l~~--i~~---~-------------------~~~-~~~~~~~~~~~L~~L~l~~~~~  782 (1085)
                      . ....+..++.++...+........  +..   .                   ... ........+.+++.+.+.++..
T Consensus       240 ~-~~~~~~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~  318 (635)
T 4g8a_A          240 V-MKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDGIIDLFNCLTNVSSFSLVSVTI  318 (635)
T ss_dssp             H-HHHHHHTTTTCEEEEEEEECCTTSCCCSCCCTTTTGGGGGSEEEEEEEECCCSCEEECTTTTGGGTTCSEEEEESCEE
T ss_pred             c-cchhhcCCcccccccccccccccccccccccccccccccchhhhhhhhhhhcccccchhhhhhhhccccccccccccc
Confidence            1 122344455555444422110000  000   0                   000 0000011223344444433221


Q ss_pred             cccccCCCcccCCCcccceeeccCCCcccccCCCC----CCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCc
Q 037935          783 LRCLYPGMHTSEWPALKNLVACNCDKITLSQNDEN----DQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQ  858 (1085)
Q Consensus       783 l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~----~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~  858 (1085)
                      .. ..   .....++|+.|.+.+|..-...+....    .......... ......+++|+.|++++|.+..........
T Consensus       319 ~~-~~---~~~~~~~L~~L~l~~~~~~~~~~~~l~~L~~l~l~~n~~~~-~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~  393 (635)
T 4g8a_A          319 ER-VK---DFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGN-AFSEVDLPSLEFLDLSRNGLSFKGCCSQSD  393 (635)
T ss_dssp             EE-CG---GGGSCCCCSEEEEESCEESSCCCCBCTTCCEEEEESCCSCC-BCCCCBCTTCCEEECCSSCCBEEEECCHHH
T ss_pred             cc-cc---ccccchhhhhhhcccccccCcCcccchhhhhcccccccCCC-Ccccccccccccchhhccccccccccccch
Confidence            11 00   012234455555555421111000000    0000000000 000123566666666666644332211111


Q ss_pred             CccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCc
Q 037935          859 HLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSK  938 (1085)
Q Consensus       859 ~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~  938 (1085)
                      ..+.+|+.|++..+.....+.. +..+++|+.+++++|......+     ...+..+.+++.++++. +.+..+..... 
T Consensus       394 ~~~~~L~~L~~~~~~~~~~~~~-~~~l~~L~~l~l~~~~~~~~~~-----~~~~~~l~~l~~l~ls~-n~l~~~~~~~~-  465 (635)
T 4g8a_A          394 FGTISLKYLDLSFNGVITMSSN-FLGLEQLEHLDFQHSNLKQMSE-----FSVFLSLRNLIYLDISH-THTRVAFNGIF-  465 (635)
T ss_dssp             HSCSCCCEEECCSCSEEEECSC-CTTCTTCCEEECTTSEEESTTS-----SCTTTTCTTCCEEECTT-SCCEECCTTTT-
T ss_pred             hhhhhhhhhhcccccccccccc-ccccccccchhhhhcccccccc-----ccccccccccccccccc-ccccccccccc-
Confidence            1245666666665555554432 3456666666666665332221     12344566677777766 34444433222 


Q ss_pred             hhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccc
Q 037935          939 ELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDED 1018 (1085)
Q Consensus       939 ~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~ 1018 (1085)
                         ..+++|+.|++++|.....+.|..+..+++|++|++++| +++.+ ++..+..+++|++|++++| +++.++..   
T Consensus       466 ---~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N-~L~~l-~~~~f~~l~~L~~L~Ls~N-~l~~l~~~---  536 (635)
T 4g8a_A          466 ---NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQL-SPTAFNSLSSLQVLNMSHN-NFFSLDTF---  536 (635)
T ss_dssp             ---TTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS-CCCEE-CTTTTTTCTTCCEEECTTS-CCCBCCCG---
T ss_pred             ---ccchhhhhhhhhhcccccccCchhhhhccccCEEECCCC-ccCCc-ChHHHcCCCCCCEEECCCC-cCCCCChh---
Confidence               256788888888887676677777888888999999885 57766 3456778888899999886 46665431   


Q ss_pred             cccccccceeeccccccccccccccceecCCCccccC-CCcCceeeccCC
Q 037935         1019 ETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKL-PSLQDLWVIGCP 1067 (1085)
Q Consensus      1019 ~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l-~~L~~L~i~~C~ 1067 (1085)
                            ....+++|+.|+++++ .++.++.+.+ .++ ++|++|+++++|
T Consensus       537 ------~~~~l~~L~~L~Ls~N-~l~~~~~~~l-~~l~~~L~~L~L~~Np  578 (635)
T 4g8a_A          537 ------PYKCLNSLQVLDYSLN-HIMTSKKQEL-QHFPSSLAFLNLTQND  578 (635)
T ss_dssp             ------GGTTCTTCCEEECTTS-CCCBCCSSCT-TCCCTTCCEEECTTCC
T ss_pred             ------HHhCCCCCCEEECCCC-cCCCCCHHHH-HhhhCcCCEEEeeCCC
Confidence                  1112678888888875 4666666543 455 578888887754

>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}

Probab=99.94  E-value=7.7e-26  Score=270.79  Aligned_cols=454  Identities=15%  Similarity=0.075  Sum_probs=257.7

Q ss_pred             ceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEecc
Q 037935          494 CYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLT  572 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls  572 (1085)
                      .++++++++.++.+|.... ++|++|++++|.   +..+++..|.++++|++|+|++|.++.+ |..|+++++|++|+++
T Consensus        33 ~~~l~ls~~~L~~ip~~~~-~~L~~L~Ls~N~---i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls  108 (562)
T 3a79_B           33 ESMVDYSNRNLTHVPKDLP-PRTKALSLSQNS---ISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVS  108 (562)
T ss_dssp             CCEEECTTSCCCSCCTTSC-TTCCEEECCSSC---CCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECT
T ss_pred             CcEEEcCCCCCccCCCCCC-CCcCEEECCCCC---ccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECC
Confidence            3788999999988887653 889999999887   6778877789999999999999999887 6778999999999999


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCccccccc--ce
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKL--ER  650 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L--~~  650 (1085)
                      +| .++.+|..   .+++|++|++++|.+...          ..+..++++++|++|++++|.+.... -..+++|  +.
T Consensus       109 ~N-~l~~lp~~---~l~~L~~L~Ls~N~l~~l----------~~p~~~~~l~~L~~L~L~~n~l~~~~-~~~l~~L~L~~  173 (562)
T 3a79_B          109 HN-RLQNISCC---PMASLRHLDLSFNDFDVL----------PVCKEFGNLTKLTFLGLSAAKFRQLD-LLPVAHLHLSC  173 (562)
T ss_dssp             TS-CCCEECSC---CCTTCSEEECCSSCCSBC----------CCCGGGGGCTTCCEEEEECSBCCTTT-TGGGTTSCEEE
T ss_pred             CC-cCCccCcc---ccccCCEEECCCCCcccc----------CchHhhcccCcccEEecCCCccccCc-hhhhhhceeeE
Confidence            99 88899874   799999999999987321          22456888999999999998876522 1144555  88


Q ss_pred             eeEEecCC--CcccccccccccccccccccceeehhhhhhcccccccccccccCCCCC-cccccccccEEEEcCCCC-Cc
Q 037935          651 FDISIGDG--SFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPA-MVPCFQSLTRLIVWGCDK-LK  726 (1085)
Q Consensus       651 L~l~~~~~--~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~-~~~~l~~L~~L~L~~~~~-l~  726 (1085)
                      |++..+.-  .......          +..+..      ..+ .+.+..+......+. .+..+++|+.|+++++.. +.
T Consensus       174 L~L~~n~l~~~~~~~~~----------l~~l~~------~~l-~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~  236 (562)
T 3a79_B          174 ILLDLVSYHIKGGETES----------LQIPNT------TVL-HLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQ  236 (562)
T ss_dssp             EEEEESSCCCCSSSCCE----------EEECCE------EEE-EEEECSSSCCCCCCEEEESSEEEEEEEEEECCSTTHH
T ss_pred             EEeecccccccccCccc----------ccccCc------ceE-EEEecCccchhhhhhhcccccceEEEecccccccccc
Confidence            87765431  0000000          000000      001 011222222222222 345678999999988631 11


Q ss_pred             ccc-chhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeecc
Q 037935          727 YIF-SASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACN  805 (1085)
Q Consensus       727 ~l~-~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~  805 (1085)
                      .++ ....+..+++|+.|++.++..-.....     ........++|++|+++++.--..++........++|+.|.+.+
T Consensus       237 ~l~~~~~~l~~l~~L~~L~L~~~~l~~~~~~-----~~~~~~~~~~L~~L~l~~n~l~~~ip~~~~~~~~~~L~~L~~~~  311 (562)
T 3a79_B          237 RLMTFLSELTRGPTLLNVTLQHIETTWKCSV-----KLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEH  311 (562)
T ss_dssp             HHHHHHHHHHSCSSCEEEEEEEEEECHHHHH-----HHHHHHTTSSEEEEEEEEEEECSCCCCCCCCCCSCSCCEEEEEE
T ss_pred             hHHHHHHHHhccCcceEEEecCCcCcHHHHH-----HHHHhhhcccccEEEEeccEeeccccchhhhcccccchheehhh
Confidence            110 122466778888888776652211100     00001123477777777653211222111111113333333322


Q ss_pred             CCCccc-ccC-----------CCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCc
Q 037935          806 CDKITL-SQN-----------DENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDD  873 (1085)
Q Consensus       806 c~~L~~-~~~-----------~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~  873 (1085)
                      +..-.. .|.           ............+. .+...+++|++|++++|.+++..+..+..  +++|++|++++|+
T Consensus       312 ~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~--l~~L~~L~L~~N~  388 (562)
T 3a79_B          312 VKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHM-VCPPSPSSFTFLNFTQNVFTDSVFQGCST--LKRLQTLILQRNG  388 (562)
T ss_dssp             EEECCCSSCHHHHHHHHHTCCCSEEEEESSCCCCC-CCCSSCCCCCEEECCSSCCCTTTTTTCCS--CSSCCEEECCSSC
T ss_pred             cccceeecChhhhhhhhccCcceEEEccCCCcccc-cCccCCCCceEEECCCCccccchhhhhcc--cCCCCEEECCCCC
Confidence            211100 000           00000000000000 00134677777777777766654444443  6777777777777


Q ss_pred             ccccch--hHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceee
Q 037935          874 LACFPL--DLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILR  951 (1085)
Q Consensus       874 l~~~~~--~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~  951 (1085)
                      ++.++.  ..+..+++|+.|++++|.++...+     ...+..+++|+.|+++++ .++.....      ...++|+.|+
T Consensus       389 l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~-----~~~~~~l~~L~~L~l~~n-~l~~~~~~------~l~~~L~~L~  456 (562)
T 3a79_B          389 LKNFFKVALMTKNMSSLETLDVSLNSLNSHAY-----DRTCAWAESILVLNLSSN-MLTGSVFR------CLPPKVKVLD  456 (562)
T ss_dssp             CCBTTHHHHTTTTCTTCCEEECTTSCCBSCCS-----SCCCCCCTTCCEEECCSS-CCCGGGGS------SCCTTCSEEE
T ss_pred             cCCcccchhhhcCCCCCCEEECCCCcCCCccC-----hhhhcCcccCCEEECCCC-CCCcchhh------hhcCcCCEEE
Confidence            776542  335667777777777777655211     122344667777777773 33221110      0115677777


Q ss_pred             eeccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCc
Q 037935          952 VLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCP 1007 (1085)
Q Consensus       952 i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~ 1007 (1085)
                      +++| ++..+++ ++..+++|++|++++| +++.++ ...+..+++|+.|++++|+
T Consensus       457 L~~N-~l~~ip~-~~~~l~~L~~L~L~~N-~l~~l~-~~~~~~l~~L~~L~l~~N~  508 (562)
T 3a79_B          457 LHNN-RIMSIPK-DVTHLQALQELNVASN-QLKSVP-DGVFDRLTSLQYIWLHDNP  508 (562)
T ss_dssp             CCSS-CCCCCCT-TTTSSCCCSEEECCSS-CCCCCC-TTSTTTCTTCCCEECCSCC
T ss_pred             CCCC-cCcccCh-hhcCCCCCCEEECCCC-CCCCCC-HHHHhcCCCCCEEEecCCC
Confidence            7776 5555433 3446777777777663 466553 2245667777777777755

>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*

Probab=99.94  E-value=1.1e-25  Score=262.75  Aligned_cols=377  Identities=14%  Similarity=0.162  Sum_probs=206.2

Q ss_pred             EEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCccc-CC-chhhhccccccEEeccC
Q 037935          496 AISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLF-SL-PSSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       496 ~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~-~l-p~~i~~L~~L~~L~Ls~  573 (1085)
                      .+...++.+..+|. . .++|++|++++|.   +..+++..|.++++|++|++++|.+. .+ |..|+++++|++|+|++
T Consensus        14 ~~~c~~~~l~~lp~-l-~~~l~~L~Ls~n~---i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~   88 (455)
T 3v47_A           14 NAICINRGLHQVPE-L-PAHVNYVDLSLNS---IAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDY   88 (455)
T ss_dssp             EEECCSSCCSSCCC-C-CTTCCEEECCSSC---CCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTT
T ss_pred             ccCcCCCCcccCCC-C-CCccCEEEecCCc---cCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCC
Confidence            34555556666665 2 2667777777765   45555555677777777777777665 33 45567777777777777


Q ss_pred             cccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHH--hhcCCCCcEEEEEeccCCCCCC-c-c-ccccc
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDE--LMHLQRLTTLEIDVEDDSILPD-G-L-FTKKL  648 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~--l~~L~~L~~L~l~~~~~~~~~~-~-~-~l~~L  648 (1085)
                      | .++.+++..|+++++|++|++++|.+.           ...+..  +.++++|++|++++|.+..+.. . + .+++|
T Consensus        89 n-~l~~~~~~~~~~l~~L~~L~L~~n~l~-----------~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L  156 (455)
T 3v47_A           89 N-QFLQLETGAFNGLANLEVLTLTQCNLD-----------GAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRF  156 (455)
T ss_dssp             C-TTCEECTTTTTTCTTCCEEECTTSCCB-----------THHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTC
T ss_pred             C-ccCccChhhccCcccCCEEeCCCCCCC-----------ccccCcccccCcccCCEEECCCCccCccCcccccCCCCcc
Confidence            7 666665444577777777777777662           112222  5667777777777777665532 2 2 45555


Q ss_pred             ceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCccccc--ccccEEEEcCCCCCc
Q 037935          649 ERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCF--QSLTRLIVWGCDKLK  726 (1085)
Q Consensus       649 ~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l--~~L~~L~L~~~~~l~  726 (1085)
                      +.|+++.+.                                          .....|..+..+  .+|+.|++++|.. .
T Consensus       157 ~~L~L~~n~------------------------------------------l~~~~~~~l~~l~~~~L~~L~l~~n~l-~  193 (455)
T 3v47_A          157 HVLDLTFNK------------------------------------------VKSICEEDLLNFQGKHFTLLRLSSITL-Q  193 (455)
T ss_dssp             CEEECTTCC------------------------------------------BSCCCTTTSGGGTTCEEEEEECTTCBC-T
T ss_pred             cEEeCCCCc------------------------------------------ccccChhhhhccccccccccccccCcc-c
Confidence            555553221                                          111122222222  4566666665532 2


Q ss_pred             cccchh-------hHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCccc
Q 037935          727 YIFSAS-------TIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALK  799 (1085)
Q Consensus       727 ~l~~~~-------~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~  799 (1085)
                      .+++..       .+..+++|+.|++++|.....++....     .....++|+.|.++++........   ...++.+.
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~-----~~~~~~~L~~L~l~~~~~~~~~~~---~~~~~~~~  265 (455)
T 3v47_A          194 DMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFF-----DAIAGTKIQSLILSNSYNMGSSFG---HTNFKDPD  265 (455)
T ss_dssp             TCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHH-----HHTTTCCEEEEECTTCTTTSCCTT---CCSSCCCC
T ss_pred             ccchhhccccccccccccceeeeEecCCCcccccchhhhh-----ccccccceeeEeeccccccccccc---hhhhccCc
Confidence            221110       122345666666666653222211100     000135566666665432221100   00011100


Q ss_pred             ceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccch
Q 037935          800 NLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPL  879 (1085)
Q Consensus       800 ~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~  879 (1085)
                      ...+                           .....++|+.|++++|.++...+..+..  +++|++|++++|.++.+++
T Consensus       266 ~~~~---------------------------~~~~~~~L~~L~l~~n~l~~~~~~~~~~--l~~L~~L~Ls~n~l~~~~~  316 (455)
T 3v47_A          266 NFTF---------------------------KGLEASGVKTCDLSKSKIFALLKSVFSH--FTDLEQLTLAQNEINKIDD  316 (455)
T ss_dssp             TTTT---------------------------GGGTTSCCCEEECCSSCCCEECTTTTTT--CTTCCEEECTTSCCCEECT
T ss_pred             cccc---------------------------ccccccCceEEEecCccccccchhhccc--CCCCCEEECCCCcccccCh
Confidence            0000                           0012468888888888888777666655  7888888888888888877


Q ss_pred             hHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeecccccc
Q 037935          880 DLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLL  959 (1085)
Q Consensus       880 ~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~  959 (1085)
                      ..+..+++|+.|++++|.+..+.+      ..+..+++|+.|++++                             | .+.
T Consensus       317 ~~~~~l~~L~~L~Ls~N~l~~~~~------~~~~~l~~L~~L~Ls~-----------------------------N-~l~  360 (455)
T 3v47_A          317 NAFWGLTHLLKLNLSQNFLGSIDS------RMFENLDKLEVLDLSY-----------------------------N-HIR  360 (455)
T ss_dssp             TTTTTCTTCCEEECCSSCCCEECG------GGGTTCTTCCEEECCS-----------------------------S-CCC
T ss_pred             hHhcCcccCCEEECCCCccCCcCh------hHhcCcccCCEEECCC-----------------------------C-ccc
Confidence            777888888888888888766532      2233344444444444                             3 333


Q ss_pred             ccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCc
Q 037935          960 SLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCP 1007 (1085)
Q Consensus       960 ~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~ 1007 (1085)
                      .+.|..+..+++|++|++++| +++.+ +...+..+++|++|++++|+
T Consensus       361 ~~~~~~~~~l~~L~~L~L~~N-~l~~~-~~~~~~~l~~L~~L~l~~N~  406 (455)
T 3v47_A          361 ALGDQSFLGLPNLKELALDTN-QLKSV-PDGIFDRLTSLQKIWLHTNP  406 (455)
T ss_dssp             EECTTTTTTCTTCCEEECCSS-CCSCC-CTTTTTTCTTCCEEECCSSC
T ss_pred             ccChhhccccccccEEECCCC-ccccC-CHhHhccCCcccEEEccCCC
Confidence            444444555566666666553 35544 23344556666666666654

>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

Probab=99.94  E-value=3.9e-25  Score=257.90  Aligned_cols=149  Identities=19%  Similarity=0.240  Sum_probs=76.4

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCcccccccc
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARK  914 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~  914 (1085)
                      +++|+.|++++|.++...+  +..  +++|++|++++|.++.++.  +..+++|+.|++++|.+..+++        +..
T Consensus       242 l~~L~~L~l~~n~l~~~~~--~~~--l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~--------~~~  307 (466)
T 1o6v_A          242 LTNLTDLDLANNQISNLAP--LSG--LTKLTELKLGANQISNISP--LAGLTALTNLELNENQLEDISP--------ISN  307 (466)
T ss_dssp             CTTCSEEECCSSCCCCCGG--GTT--CTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCSCCGG--------GGG
T ss_pred             CCCCCEEECCCCccccchh--hhc--CCCCCEEECCCCccCcccc--ccCCCccCeEEcCCCcccCchh--------hcC
Confidence            4445555555555444332  211  4455555555555554443  3445555555555555443321        233


Q ss_pred             ccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchhhhhh
Q 037935          915 LALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKS  994 (1085)
Q Consensus       915 l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~  994 (1085)
                      +++|+.|++++| .++.+..      ...+++|+.|++++| .+..+  ..+..+++|+.|++++|. +....+   +..
T Consensus       308 l~~L~~L~L~~n-~l~~~~~------~~~l~~L~~L~l~~n-~l~~~--~~l~~l~~L~~L~l~~n~-l~~~~~---~~~  373 (466)
T 1o6v_A          308 LKNLTYLTLYFN-NISDISP------VSSLTKLQRLFFYNN-KVSDV--SSLANLTNINWLSAGHNQ-ISDLTP---LAN  373 (466)
T ss_dssp             CTTCSEEECCSS-CCSCCGG------GGGCTTCCEEECCSS-CCCCC--GGGTTCTTCCEEECCSSC-CCBCGG---GTT
T ss_pred             CCCCCEEECcCC-cCCCchh------hccCccCCEeECCCC-ccCCc--hhhccCCCCCEEeCCCCc-cCccch---hhc
Confidence            445555555553 2332221      124566666666666 44443  235667777788877653 555532   567


Q ss_pred             cccccEEEEcCCcccccc
Q 037935          995 LERLVSLRIFGCPAMTEV 1012 (1085)
Q Consensus       995 l~~L~~L~i~~c~~l~~l 1012 (1085)
                      +++|+.|++++|+ +..+
T Consensus       374 l~~L~~L~l~~n~-~~~~  390 (466)
T 1o6v_A          374 LTRITQLGLNDQA-WTNA  390 (466)
T ss_dssp             CTTCCEEECCCEE-EECC
T ss_pred             CCCCCEEeccCCc-ccCC
Confidence            7778888887764 4443

>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

Probab=99.94  E-value=4e-25  Score=257.74  Aligned_cols=218  Identities=18%  Similarity=0.212  Sum_probs=164.6

Q ss_pred             ccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCcccccc
Q 037935          708 VPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLY  787 (1085)
Q Consensus       708 ~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  787 (1085)
                      +..+++|+.|++++|. +..++   .+..+++|++|++++|.. ..+         .+...+++|+.|+++++. +..+.
T Consensus       173 ~~~l~~L~~L~l~~n~-l~~~~---~l~~l~~L~~L~l~~n~l-~~~---------~~~~~l~~L~~L~l~~n~-l~~~~  237 (466)
T 1o6v_A          173 LANLTTLERLDISSNK-VSDIS---VLAKLTNLESLIATNNQI-SDI---------TPLGILTNLDELSLNGNQ-LKDIG  237 (466)
T ss_dssp             GTTCTTCCEEECCSSC-CCCCG---GGGGCTTCSEEECCSSCC-CCC---------GGGGGCTTCCEEECCSSC-CCCCG
T ss_pred             hccCCCCCEEECcCCc-CCCCh---hhccCCCCCEEEecCCcc-ccc---------ccccccCCCCEEECCCCC-cccch
Confidence            4567899999999875 44442   388999999999999872 221         123358999999999863 33331


Q ss_pred             CCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEE
Q 037935          788 PGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQL  867 (1085)
Q Consensus       788 ~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L  867 (1085)
                         ....+++|+.|++.+|..-...+                  ...+++|++|++++|.++...+  +..  +++|+.|
T Consensus       238 ---~l~~l~~L~~L~l~~n~l~~~~~------------------~~~l~~L~~L~l~~n~l~~~~~--~~~--l~~L~~L  292 (466)
T 1o6v_A          238 ---TLASLTNLTDLDLANNQISNLAP------------------LSGLTKLTELKLGANQISNISP--LAG--LTALTNL  292 (466)
T ss_dssp             ---GGGGCTTCSEEECCSSCCCCCGG------------------GTTCTTCSEEECCSSCCCCCGG--GTT--CTTCSEE
T ss_pred             ---hhhcCCCCCEEECCCCccccchh------------------hhcCCCCCEEECCCCccCcccc--ccC--CCccCeE
Confidence               24567899999999885432211                  3458999999999999887655  333  7999999


Q ss_pred             EecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhh
Q 037935          868 RVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHL  947 (1085)
Q Consensus       868 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L  947 (1085)
                      ++++|.++.+++  +..+++|+.|++++|.++++.+        +..+++|+.|++++| .++.++.      ...+++|
T Consensus       293 ~L~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~--------~~~l~~L~~L~l~~n-~l~~~~~------l~~l~~L  355 (466)
T 1o6v_A          293 ELNENQLEDISP--ISNLKNLTYLTLYFNNISDISP--------VSSLTKLQRLFFYNN-KVSDVSS------LANLTNI  355 (466)
T ss_dssp             ECCSSCCSCCGG--GGGCTTCSEEECCSSCCSCCGG--------GGGCTTCCEEECCSS-CCCCCGG------GTTCTTC
T ss_pred             EcCCCcccCchh--hcCCCCCCEEECcCCcCCCchh--------hccCccCCEeECCCC-ccCCchh------hccCCCC
Confidence            999999998875  6789999999999999876543        456889999999985 6665532      2357999


Q ss_pred             ceeeeeccccccccCCCCcccccCccEEEeccccCcccc
Q 037935          948 QILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNL  986 (1085)
Q Consensus       948 ~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l  986 (1085)
                      +.|++++| .+....|  +..+++|+.|++++|+ ++..
T Consensus       356 ~~L~l~~n-~l~~~~~--~~~l~~L~~L~l~~n~-~~~~  390 (466)
T 1o6v_A          356 NWLSAGHN-QISDLTP--LANLTRITQLGLNDQA-WTNA  390 (466)
T ss_dssp             CEEECCSS-CCCBCGG--GTTCTTCCEEECCCEE-EECC
T ss_pred             CEEeCCCC-ccCccch--hhcCCCCCEEeccCCc-ccCC
Confidence            99999998 5666655  7889999999999865 5544

>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*

Probab=99.93  E-value=2.2e-25  Score=260.16  Aligned_cols=368  Identities=19%  Similarity=0.214  Sum_probs=257.4

Q ss_pred             ecCccccCCCccccccceEEEeeccCccccc-cc-CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC
Q 037935          478 RNDAVWEWPDGDALKKCYAISLLNSSIHEVS-LE-FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS  555 (1085)
Q Consensus       478 ~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~-~~-~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~  555 (1085)
                      .+..+...|.  .+.++++|++++|.+..++ .. ..+++|++|++++|..  ...++...|.++++|++|+|++|.++.
T Consensus        18 ~~~~l~~lp~--l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~--~~~i~~~~~~~l~~L~~L~Ls~n~l~~   93 (455)
T 3v47_A           18 INRGLHQVPE--LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTP--GLVIRNNTFRGLSSLIILKLDYNQFLQ   93 (455)
T ss_dssp             CSSCCSSCCC--CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCST--TCEECTTTTTTCTTCCEEECTTCTTCE
T ss_pred             CCCCcccCCC--CCCccCEEEecCCccCcCChhHhccCccccEEECcCCcc--cceECcccccccccCCEEeCCCCccCc
Confidence            3445555554  5678999999999998874 33 3899999999999973  346777789999999999999999988


Q ss_pred             C-chhhhccccccEEeccCcccccc--cchhhhhccccCCEEeccCCCcchhhcccCCccccccHHH-hhcCCCCcEEEE
Q 037935          556 L-PSSIGQLTKLRMLDLTDCLQLKF--IVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDE-LMHLQRLTTLEI  631 (1085)
Q Consensus       556 l-p~~i~~L~~L~~L~Ls~~~~l~~--lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~-l~~L~~L~~L~l  631 (1085)
                      + |..++++++|++|++++| .++.  .+...++++++|++|++++|.+.           ...+.. +.++++|++|++
T Consensus        94 ~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~l~~L~~L~L~~n~l~-----------~~~~~~~~~~l~~L~~L~L  161 (455)
T 3v47_A           94 LETGAFNGLANLEVLTLTQC-NLDGAVLSGNFFKPLTSLEMLVLRDNNIK-----------KIQPASFFLNMRRFHVLDL  161 (455)
T ss_dssp             ECTTTTTTCTTCCEEECTTS-CCBTHHHHSSTTTTCTTCCEEECCSSBCC-----------SCCCCGGGGGCTTCCEEEC
T ss_pred             cChhhccCcccCCEEeCCCC-CCCccccCcccccCcccCCEEECCCCccC-----------ccCcccccCCCCcccEEeC
Confidence            6 788999999999999999 8876  22333699999999999999984           222333 789999999999


Q ss_pred             EeccCCCCCCcc--c--ccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCC-
Q 037935          632 DVEDDSILPDGL--F--TKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPA-  706 (1085)
Q Consensus       632 ~~~~~~~~~~~~--~--l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~-  706 (1085)
                      ++|.+..++...  .  ..+|+.|++..+.                                          .....+. 
T Consensus       162 ~~n~l~~~~~~~l~~l~~~~L~~L~l~~n~------------------------------------------l~~~~~~~  199 (455)
T 3v47_A          162 TFNKVKSICEEDLLNFQGKHFTLLRLSSIT------------------------------------------LQDMNEYW  199 (455)
T ss_dssp             TTCCBSCCCTTTSGGGTTCEEEEEECTTCB------------------------------------------CTTCSTTC
T ss_pred             CCCcccccChhhhhccccccccccccccCc------------------------------------------ccccchhh
Confidence            999987765432  2  2455555543211                                          1110111 


Q ss_pred             -------cccccccccEEEEcCCCCCccccchhhHhhc---ccccEEEeccccchHHHhccCCcccccccccCCcccEEe
Q 037935          707 -------MVPCFQSLTRLIVWGCDKLKYIFSASTIQSL---EQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLK  776 (1085)
Q Consensus       707 -------~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l---~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~  776 (1085)
                             .+..+++|++|++++|......  +..+..+   ++|+.|++++|.........         ..++.+....
T Consensus       200 ~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~--~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~---------~~~~~~~~~~  268 (455)
T 3v47_A          200 LGWEKCGNPFKNTSITTLDLSGNGFKESM--AKRFFDAIAGTKIQSLILSNSYNMGSSFGH---------TNFKDPDNFT  268 (455)
T ss_dssp             TTHHHHCCTTTTCEEEEEECTTSCCCHHH--HHHHHHHTTTCCEEEEECTTCTTTSCCTTC---------CSSCCCCTTT
T ss_pred             ccccccccccccceeeeEecCCCcccccc--hhhhhccccccceeeEeeccccccccccch---------hhhccCcccc
Confidence                   1234579999999998665543  2334443   89999999988743211000         0111111111


Q ss_pred             cCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccC
Q 037935          777 LDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDF  856 (1085)
Q Consensus       777 l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~  856 (1085)
                      +.             ....++|+.|++.++......+                ..+..+++|++|++++|.+++..+..+
T Consensus       269 ~~-------------~~~~~~L~~L~l~~n~l~~~~~----------------~~~~~l~~L~~L~Ls~n~l~~~~~~~~  319 (455)
T 3v47_A          269 FK-------------GLEASGVKTCDLSKSKIFALLK----------------SVFSHFTDLEQLTLAQNEINKIDDNAF  319 (455)
T ss_dssp             TG-------------GGTTSCCCEEECCSSCCCEECT----------------TTTTTCTTCCEEECTTSCCCEECTTTT
T ss_pred             cc-------------cccccCceEEEecCccccccch----------------hhcccCCCCCEEECCCCcccccChhHh
Confidence            11             1124678888888875544333                123558999999999999998887777


Q ss_pred             CcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCC
Q 037935          857 PQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHD  936 (1085)
Q Consensus       857 ~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~  936 (1085)
                      ..  +++|++|++++|.++.+++..+..+++|+.|++++|.++.+.+      ..+..+++|+.|++++           
T Consensus       320 ~~--l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~------~~~~~l~~L~~L~L~~-----------  380 (455)
T 3v47_A          320 WG--LTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGD------QSFLGLPNLKELALDT-----------  380 (455)
T ss_dssp             TT--CTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCSSCCCEECT------TTTTTCTTCCEEECCS-----------
T ss_pred             cC--cccCCEEECCCCccCCcChhHhcCcccCCEEECCCCcccccCh------hhccccccccEEECCC-----------
Confidence            66  8999999999999999988888999999999999999877643      2233344455555544           


Q ss_pred             CchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEecccc
Q 037935          937 SKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACK  981 (1085)
Q Consensus       937 ~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~  981 (1085)
                                        | ++..+++..+..+++|++|++++|+
T Consensus       381 ------------------N-~l~~~~~~~~~~l~~L~~L~l~~N~  406 (455)
T 3v47_A          381 ------------------N-QLKSVPDGIFDRLTSLQKIWLHTNP  406 (455)
T ss_dssp             ------------------S-CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             ------------------C-ccccCCHhHhccCCcccEEEccCCC
Confidence                              3 3444444445667777777777654

>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}

Probab=99.93  E-value=2.9e-25  Score=265.84  Aligned_cols=438  Identities=17%  Similarity=0.100  Sum_probs=280.6

Q ss_pred             EecCccccCCCccccccceEEEeeccCcccccc--cCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCccc
Q 037935          477 VRNDAVWEWPDGDALKKCYAISLLNSSIHEVSL--EFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLF  554 (1085)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~  554 (1085)
                      ..+..+...|. ..++++++|++++|.+..++.  ...+++|++|++++|.   +..++++.|.++++|++|+|++|.++
T Consensus        38 ls~~~L~~ip~-~~~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~---l~~~~~~~~~~l~~L~~L~Ls~N~l~  113 (562)
T 3a79_B           38 YSNRNLTHVPK-DLPPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNR---IRSLDFHVFLFNQDLEYLDVSHNRLQ  113 (562)
T ss_dssp             CTTSCCCSCCT-TSCTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCC---CCEECTTTTTTCTTCCEEECTTSCCC
T ss_pred             cCCCCCccCCC-CCCCCcCEEECCCCCccccChhhhccCCCccEEECCCCC---CCcCCHHHhCCCCCCCEEECCCCcCC
Confidence            34445555443 345789999999999998874  3489999999999997   77787778999999999999999999


Q ss_pred             CCchhhhccccccEEeccCcccccccch-hhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEe
Q 037935          555 SLPSSIGQLTKLRMLDLTDCLQLKFIVP-NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDV  633 (1085)
Q Consensus       555 ~lp~~i~~L~~L~~L~Ls~~~~l~~lp~-~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~  633 (1085)
                      .+|..  .+++|++|++++| .++.+|. ..|+++++|++|++++|.+.           ...+..+.++ +|+.|++++
T Consensus       114 ~lp~~--~l~~L~~L~Ls~N-~l~~l~~p~~~~~l~~L~~L~L~~n~l~-----------~~~~~~l~~L-~L~~L~L~~  178 (562)
T 3a79_B          114 NISCC--PMASLRHLDLSFN-DFDVLPVCKEFGNLTKLTFLGLSAAKFR-----------QLDLLPVAHL-HLSCILLDL  178 (562)
T ss_dssp             EECSC--CCTTCSEEECCSS-CCSBCCCCGGGGGCTTCCEEEEECSBCC-----------TTTTGGGTTS-CEEEEEEEE
T ss_pred             ccCcc--ccccCCEEECCCC-CccccCchHhhcccCcccEEecCCCccc-----------cCchhhhhhc-eeeEEEeec
Confidence            99976  8999999999999 8988762 44799999999999999883           2233334444 449999999


Q ss_pred             ccC--CCC-CCcc-cccccceeeEEecCCCcccccccccccccccccccceeehh--------------hhhhccccccc
Q 037935          634 EDD--SIL-PDGL-FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCI--------------VMALELNAINV  695 (1085)
Q Consensus       634 ~~~--~~~-~~~~-~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~--------------~~~~~L~~l~L  695 (1085)
                      |.+  ... |..+ .+. .+.+.+.......... ..........+++.+.+...              .....|+.+.+
T Consensus       179 n~l~~~~~~~~~l~~l~-~~~l~l~l~~n~~~~~-~~~~~~~~l~~L~~L~l~~n~~~~~~l~~~~~~l~~l~~L~~L~L  256 (562)
T 3a79_B          179 VSYHIKGGETESLQIPN-TTVLHLVFHPNSLFSV-QVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTL  256 (562)
T ss_dssp             SSCCCCSSSCCEEEECC-EEEEEEEECSSSCCCC-CCEEEESSEEEEEEEEEECCSTTHHHHHHHHHHHHSCSSCEEEEE
T ss_pred             ccccccccCcccccccC-cceEEEEecCccchhh-hhhhcccccceEEEecccccccccchHHHHHHHHhccCcceEEEe
Confidence            987  333 2222 111 1233332111111000 00000111122333322221              11222333333


Q ss_pred             ccccccC----CCCCcccccccccEEEEcCCCCCccccchhhH----hhcccccEEEeccccchHHHhccCCcccccccc
Q 037935          696 DEIWHYN----QLPAMVPCFQSLTRLIVWGCDKLKYIFSASTI----QSLEQLQHLEIRLCKSLQEIISENRTDQVTAYF  767 (1085)
Q Consensus       696 ~~~~~~~----~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l----~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~  767 (1085)
                      ..+....    ..+.++ ..++|++|++++|...+.+|.. .+    ..++.|+.+++..+..  .++...    .....
T Consensus       257 ~~~~l~~~~~~~~~~~~-~~~~L~~L~l~~n~l~~~ip~~-~~~~~~~~L~~L~~~~~~~~~~--~~p~~~----~~~~~  328 (562)
T 3a79_B          257 QHIETTWKCSVKLFQFF-WPRPVEYLNIYNLTITERIDRE-EFTYSETALKSLMIEHVKNQVF--LFSKEA----LYSVF  328 (562)
T ss_dssp             EEEEECHHHHHHHHHHH-TTSSEEEEEEEEEEECSCCCCC-CCCCCSCSCCEEEEEEEEECCC--SSCHHH----HHHHH
T ss_pred             cCCcCcHHHHHHHHHhh-hcccccEEEEeccEeeccccch-hhhcccccchheehhhccccee--ecChhh----hhhhh
Confidence            3322211    111111 2247888888887655454321 11    3444444444444431  110000    00000


Q ss_pred             cCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCC
Q 037935          768 VFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKD  847 (1085)
Q Consensus       768 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~  847 (1085)
                      ..++|+.|+++++.- ....   ....+++|+.|+++++..-...+                ..+..+++|++|++++|.
T Consensus       329 ~~~~L~~L~l~~n~~-~~~~---~~~~l~~L~~L~l~~n~l~~~~~----------------~~~~~l~~L~~L~L~~N~  388 (562)
T 3a79_B          329 AEMNIKMLSISDTPF-IHMV---CPPSPSSFTFLNFTQNVFTDSVF----------------QGCSTLKRLQTLILQRNG  388 (562)
T ss_dssp             HTCCCSEEEEESSCC-CCCC---CCSSCCCCCEEECCSSCCCTTTT----------------TTCCSCSSCCEEECCSSC
T ss_pred             ccCcceEEEccCCCc-cccc---CccCCCCceEEECCCCccccchh----------------hhhcccCCCCEEECCCCC
Confidence            125688888887642 2111   12467889999988875433222                123558999999999999


Q ss_pred             ceeeec--ccCCcCccCCceEEEecCCcccc-cchhHHhhccccceEEeecccccEEEecCCccccccccc-cccceecc
Q 037935          848 ITMILQ--DDFPQHLFGSLKQLRVGDDDLAC-FPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKL-ALIKRLNL  923 (1085)
Q Consensus       848 l~~~~~--~~~~~~~~~~L~~L~l~~n~l~~-~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l-~~L~~L~l  923 (1085)
                      ++.+..  ..+..  +++|++|++++|.++. +|...+..+++|+.|++++|.++...+         ..+ ++|+.|++
T Consensus       389 l~~~~~~~~~~~~--l~~L~~L~l~~N~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~---------~~l~~~L~~L~L  457 (562)
T 3a79_B          389 LKNFFKVALMTKN--MSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVF---------RCLPPKVKVLDL  457 (562)
T ss_dssp             CCBTTHHHHTTTT--CTTCCEEECTTSCCBSCCSSCCCCCCTTCCEEECCSSCCCGGGG---------SSCCTTCSEEEC
T ss_pred             cCCcccchhhhcC--CCCCCEEECCCCcCCCccChhhhcCcccCCEEECCCCCCCcchh---------hhhcCcCCEEEC
Confidence            887542  23443  7999999999999988 887778889999999999999754321         123 58999999


Q ss_pred             CCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEecccc
Q 037935          924 TRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACK  981 (1085)
Q Consensus       924 ~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~  981 (1085)
                      ++ +.++.++....     .+++|+.|++++| ++..+++..+..+++|+.|++++++
T Consensus       458 ~~-N~l~~ip~~~~-----~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~l~~N~  508 (562)
T 3a79_B          458 HN-NRIMSIPKDVT-----HLQALQELNVASN-QLKSVPDGVFDRLTSLQYIWLHDNP  508 (562)
T ss_dssp             CS-SCCCCCCTTTT-----SSCCCSEEECCSS-CCCCCCTTSTTTCTTCCCEECCSCC
T ss_pred             CC-CcCcccChhhc-----CCCCCCEEECCCC-CCCCCCHHHHhcCCCCCEEEecCCC
Confidence            99 47887766432     4789999999998 6777766558889999999999865

>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}

Probab=99.92  E-value=2.5e-24  Score=252.53  Aligned_cols=315  Identities=19%  Similarity=0.227  Sum_probs=194.9

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEeccC
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~  573 (1085)
                      +.+...++.+..+|..+ .+++++|++++|.   +..++...|.++++|++|+|++|.++.+ |..|+++++|++|+|++
T Consensus        14 ~~v~c~~~~l~~ip~~~-~~~l~~L~L~~n~---l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~   89 (477)
T 2id5_A           14 RAVLCHRKRFVAVPEGI-PTETRLLDLGKNR---IKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRS   89 (477)
T ss_dssp             TEEECCSCCCSSCCSCC-CTTCSEEECCSSC---CCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEEEeCCCCcCcCCCCC-CCCCcEEECCCCc---cceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCC
Confidence            45666777788888765 3689999999887   6777777789999999999999999886 67899999999999999


Q ss_pred             cccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccceeeE
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDI  653 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l  653 (1085)
                      | .++.+|.+.|+++++|++|++++|.+.           ...+..+.++++|++|++++|.+..++..           
T Consensus        90 n-~l~~~~~~~~~~l~~L~~L~Ls~n~i~-----------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-----------  146 (477)
T 2id5_A           90 N-RLKLIPLGVFTGLSNLTKLDISENKIV-----------ILLDYMFQDLYNLKSLEVGDNDLVYISHR-----------  146 (477)
T ss_dssp             S-CCCSCCTTSSTTCTTCCEEECTTSCCC-----------EECTTTTTTCTTCCEEEECCTTCCEECTT-----------
T ss_pred             C-cCCccCcccccCCCCCCEEECCCCccc-----------cCChhHccccccCCEEECCCCccceeChh-----------
Confidence            9 899999887889999999999999873           33345578889999999988877654332           


Q ss_pred             EecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhh
Q 037935          654 SIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSAST  733 (1085)
Q Consensus       654 ~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~  733 (1085)
                                                                           .+..+++|+.|++++|. +..+ +...
T Consensus       147 -----------------------------------------------------~~~~l~~L~~L~l~~n~-l~~~-~~~~  171 (477)
T 2id5_A          147 -----------------------------------------------------AFSGLNSLEQLTLEKCN-LTSI-PTEA  171 (477)
T ss_dssp             -----------------------------------------------------SSTTCTTCCEEEEESCC-CSSC-CHHH
T ss_pred             -----------------------------------------------------hccCCCCCCEEECCCCc-Cccc-ChhH
Confidence                                                                 22334455555555542 2222 2233


Q ss_pred             HhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCccccc
Q 037935          734 IQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQ  813 (1085)
Q Consensus       734 l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~  813 (1085)
                      +..+++|+.|++++|. +..+...       ....+++|+.|++++++.+..+....  ...++|++|++.+|. ++..+
T Consensus       172 l~~l~~L~~L~l~~n~-i~~~~~~-------~~~~l~~L~~L~l~~~~~~~~~~~~~--~~~~~L~~L~l~~n~-l~~~~  240 (477)
T 2id5_A          172 LSHLHGLIVLRLRHLN-INAIRDY-------SFKRLYRLKVLEISHWPYLDTMTPNC--LYGLNLTSLSITHCN-LTAVP  240 (477)
T ss_dssp             HTTCTTCCEEEEESCC-CCEECTT-------CSCSCTTCCEEEEECCTTCCEECTTT--TTTCCCSEEEEESSC-CCSCC
T ss_pred             hcccCCCcEEeCCCCc-CcEeChh-------hcccCcccceeeCCCCccccccCccc--ccCccccEEECcCCc-ccccC
Confidence            4555555555555544 1111110       11134455555555544444333221  122355555555552 22111


Q ss_pred             CCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEe
Q 037935          814 NDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYL  893 (1085)
Q Consensus       814 ~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  893 (1085)
                                     ...+..+++|+.|++++|.++.+.+..+..  +++|+.|++++|+++.+++..+..+++|+.|++
T Consensus       241 ---------------~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~--l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  303 (477)
T 2id5_A          241 ---------------YLAVRHLVYLRFLNLSYNPISTIEGSMLHE--LLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNV  303 (477)
T ss_dssp             ---------------HHHHTTCTTCCEEECCSSCCCEECTTSCTT--CTTCCEEECCSSCCSEECTTTBTTCTTCCEEEC
T ss_pred             ---------------HHHhcCccccCeeECCCCcCCccChhhccc--cccCCEEECCCCccceECHHHhcCcccCCEEEC
Confidence                           011234566666666666666555544443  566666666666666665555566666666666


Q ss_pred             ecccccEEEecCCccccccccccccceeccCC
Q 037935          894 SDCSYEVVFSNEGYLETHARKLALIKRLNLTR  925 (1085)
Q Consensus       894 ~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~  925 (1085)
                      ++|.++.++      ...+..+++|+.|++++
T Consensus       304 ~~N~l~~~~------~~~~~~l~~L~~L~l~~  329 (477)
T 2id5_A          304 SGNQLTTLE------ESVFHSVGNLETLILDS  329 (477)
T ss_dssp             CSSCCSCCC------GGGBSCGGGCCEEECCS
T ss_pred             CCCcCceeC------HhHcCCCcccCEEEccC
Confidence            666655432      22334455666666655

>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

Probab=99.92  E-value=8.9e-25  Score=251.81  Aligned_cols=275  Identities=21%  Similarity=0.169  Sum_probs=163.9

Q ss_pred             CCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCcc
Q 037935          704 LPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPEL  783 (1085)
Q Consensus       704 ~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  783 (1085)
                      +| .+..+++|++|++++|. +..+|.     ..++|++|++++|. +..++         ....+++|+.|+++++. +
T Consensus       146 lp-~~~~l~~L~~L~l~~N~-l~~lp~-----~~~~L~~L~L~~n~-l~~l~---------~~~~l~~L~~L~l~~N~-l  207 (454)
T 1jl5_A          146 LP-ELQNSSFLKIIDVDNNS-LKKLPD-----LPPSLEFIAAGNNQ-LEELP---------ELQNLPFLTAIYADNNS-L  207 (454)
T ss_dssp             CC-CCTTCTTCCEEECCSSC-CSCCCC-----CCTTCCEEECCSSC-CSSCC---------CCTTCTTCCEEECCSSC-C
T ss_pred             Cc-ccCCCCCCCEEECCCCc-CcccCC-----CcccccEEECcCCc-CCcCc---------cccCCCCCCEEECCCCc-C
Confidence            55 37788899999999874 444533     23689999999886 33332         12358899999998853 3


Q ss_pred             ccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCC
Q 037935          784 RCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGS  863 (1085)
Q Consensus       784 ~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~  863 (1085)
                      ..+     +...++|++|++.+|. +..+|.                 +..+++|++|++++|.++.++.      .+++
T Consensus       208 ~~l-----~~~~~~L~~L~l~~n~-l~~lp~-----------------~~~l~~L~~L~l~~N~l~~l~~------~~~~  258 (454)
T 1jl5_A          208 KKL-----PDLPLSLESIVAGNNI-LEELPE-----------------LQNLPFLTTIYADNNLLKTLPD------LPPS  258 (454)
T ss_dssp             SSC-----CCCCTTCCEEECCSSC-CSSCCC-----------------CTTCTTCCEEECCSSCCSSCCS------CCTT
T ss_pred             CcC-----CCCcCcccEEECcCCc-CCcccc-----------------cCCCCCCCEEECCCCcCCcccc------cccc
Confidence            332     2234689999998883 334331                 2458999999999999876542      1588


Q ss_pred             ceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhH
Q 037935          864 LKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFI  943 (1085)
Q Consensus       864 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~  943 (1085)
                      |++|++++|.++.+|.    .+++|+.|++++|.++.++..          .++|+.|++++ +.++.++.        .
T Consensus       259 L~~L~l~~N~l~~l~~----~~~~L~~L~ls~N~l~~l~~~----------~~~L~~L~l~~-N~l~~i~~--------~  315 (454)
T 1jl5_A          259 LEALNVRDNYLTDLPE----LPQSLTFLDVSENIFSGLSEL----------PPNLYYLNASS-NEIRSLCD--------L  315 (454)
T ss_dssp             CCEEECCSSCCSCCCC----CCTTCCEEECCSSCCSEESCC----------CTTCCEEECCS-SCCSEECC--------C
T ss_pred             cCEEECCCCcccccCc----ccCcCCEEECcCCccCcccCc----------CCcCCEEECcC-CcCCcccC--------C
Confidence            9999999999998874    358999999999998875321          25799999988 56666543        2


Q ss_pred             hhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccc--cccccc-
Q 037935          944 FQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVII--SDEDET- 1020 (1085)
Q Consensus       944 l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~--~~~~~~- 1020 (1085)
                      +++|+.|++++| ++..++..    +++|++|++++| +++.++.     .+++|++|++++|. ++.++.  .....+ 
T Consensus       316 ~~~L~~L~Ls~N-~l~~lp~~----~~~L~~L~L~~N-~l~~lp~-----~l~~L~~L~L~~N~-l~~l~~ip~~l~~L~  383 (454)
T 1jl5_A          316 PPSLEELNVSNN-KLIELPAL----PPRLERLIASFN-HLAEVPE-----LPQNLKQLHVEYNP-LREFPDIPESVEDLR  383 (454)
T ss_dssp             CTTCCEEECCSS-CCSCCCCC----CTTCCEEECCSS-CCSCCCC-----CCTTCCEEECCSSC-CSSCCCCCTTCCEEE
T ss_pred             cCcCCEEECCCC-cccccccc----CCcCCEEECCCC-ccccccc-----hhhhccEEECCCCC-CCcCCCChHHHHhhh
Confidence            368999999987 56665332    578999999886 5777633     47899999999965 444321  111010 


Q ss_pred             -----cccccceeeccccccccccccccceecCCCccccCCCcCceeeccCCC
Q 037935         1021 -----ANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPK 1068 (1085)
Q Consensus      1021 -----~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~ 1068 (1085)
                           +.++.  .+++|+.|++++++ ++.++.-  +   ++|+.|.+.+|.-
T Consensus       384 ~n~~~~~i~~--~~~~L~~L~ls~N~-l~~~~~i--P---~sl~~L~~~~~~~  428 (454)
T 1jl5_A          384 MNSHLAEVPE--LPQNLKQLHVETNP-LREFPDI--P---ESVEDLRMNSERV  428 (454)
T ss_dssp             CCC--------------------------------------------------
T ss_pred             hccccccccc--ccCcCCEEECCCCc-CCccccc--h---hhHhheeCcCccc
Confidence                 11111  13678888887754 4433221  2   3567777777643

>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

Probab=99.92  E-value=1.4e-24  Score=250.25  Aligned_cols=391  Identities=18%  Similarity=0.121  Sum_probs=209.8

Q ss_pred             cccceEEEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcc-------------eEEEecCCcccCC
Q 037935          491 LKKCYAISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKL-------------RVVDLTRVRLFSL  556 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~L-------------r~L~Ls~~~i~~l  556 (1085)
                      ...++.++++++.+..+|..+ .+++|+.|++++|..  ...+|.. ++++++|             ++|++++|.++.+
T Consensus        10 ~~~L~~L~l~~n~l~~iP~~i~~L~~L~~L~l~~n~~--~~~~p~~-~~~l~~L~~l~l~~c~~~~l~~L~l~~~~l~~l   86 (454)
T 1jl5_A           10 NTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEW--ERNAPPG-NGEQREMAVSRLRDCLDRQAHELELNNLGLSSL   86 (454)
T ss_dssp             ------------------------CCHHHHHHHHHHH--HHTSCTT-SCCCHHHHHHHHHHHHHHTCSEEECTTSCCSCC
T ss_pred             cccchhhhcccCchhhCChhHhcccchhhhhccCCcc--cccCCcc-cccchhcchhhhhhhhccCCCEEEecCCccccC
Confidence            456888889999888888765 888999999988763  3356654 6666664             8999999998888


Q ss_pred             chhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcC-CCCcEEEEEecc
Q 037935          557 PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHL-QRLTTLEIDVED  635 (1085)
Q Consensus       557 p~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L-~~L~~L~l~~~~  635 (1085)
                      |..   .++|++|++++| .++.+|..    +.+|++|++++|.+..                +..+ ++|++|++++|.
T Consensus        87 p~~---~~~L~~L~l~~n-~l~~lp~~----~~~L~~L~l~~n~l~~----------------l~~~~~~L~~L~L~~n~  142 (454)
T 1jl5_A           87 PEL---PPHLESLVASCN-SLTELPEL----PQSLKSLLVDNNNLKA----------------LSDLPPLLEYLGVSNNQ  142 (454)
T ss_dssp             CSC---CTTCSEEECCSS-CCSSCCCC----CTTCCEEECCSSCCSC----------------CCSCCTTCCEEECCSSC
T ss_pred             CCC---cCCCCEEEccCC-cCCccccc----cCCCcEEECCCCccCc----------------ccCCCCCCCEEECcCCC
Confidence            862   478999999998 88888752    4789999999988732                1112 688999999998


Q ss_pred             CCCCCCcccccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCccccccccc
Q 037935          636 DSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLT  715 (1085)
Q Consensus       636 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~  715 (1085)
                      +..+|.-..+++|+.|+++.+.                                          .. .+|..   ..+|+
T Consensus       143 l~~lp~~~~l~~L~~L~l~~N~------------------------------------------l~-~lp~~---~~~L~  176 (454)
T 1jl5_A          143 LEKLPELQNSSFLKIIDVDNNS------------------------------------------LK-KLPDL---PPSLE  176 (454)
T ss_dssp             CSSCCCCTTCTTCCEEECCSSC------------------------------------------CS-CCCCC---CTTCC
T ss_pred             CCCCcccCCCCCCCEEECCCCc------------------------------------------Cc-ccCCC---ccccc
Confidence            8888743377778887775321                                          00 13332   23777


Q ss_pred             EEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCC
Q 037935          716 RLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEW  795 (1085)
Q Consensus       716 ~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~  795 (1085)
                      +|++++|. +..++   .++.+++|+.|++++|. +..++.           .+++|++|+++++ .+..++ .  ...+
T Consensus       177 ~L~L~~n~-l~~l~---~~~~l~~L~~L~l~~N~-l~~l~~-----------~~~~L~~L~l~~n-~l~~lp-~--~~~l  236 (454)
T 1jl5_A          177 FIAAGNNQ-LEELP---ELQNLPFLTAIYADNNS-LKKLPD-----------LPLSLESIVAGNN-ILEELP-E--LQNL  236 (454)
T ss_dssp             EEECCSSC-CSSCC---CCTTCTTCCEEECCSSC-CSSCCC-----------CCTTCCEEECCSS-CCSSCC-C--CTTC
T ss_pred             EEECcCCc-CCcCc---cccCCCCCCEEECCCCc-CCcCCC-----------CcCcccEEECcCC-cCCccc-c--cCCC
Confidence            77777763 34443   26777777777777765 221110           2357777777775 344332 1  3456


Q ss_pred             CcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCccc
Q 037935          796 PALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLA  875 (1085)
Q Consensus       796 ~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~  875 (1085)
                      ++|+.|++.++. +..+|                   ..+++|+.|++++|.+++++..      +++|++|++++|.++
T Consensus       237 ~~L~~L~l~~N~-l~~l~-------------------~~~~~L~~L~l~~N~l~~l~~~------~~~L~~L~ls~N~l~  290 (454)
T 1jl5_A          237 PFLTTIYADNNL-LKTLP-------------------DLPPSLEALNVRDNYLTDLPEL------PQSLTFLDVSENIFS  290 (454)
T ss_dssp             TTCCEEECCSSC-CSSCC-------------------SCCTTCCEEECCSSCCSCCCCC------CTTCCEEECCSSCCS
T ss_pred             CCCCEEECCCCc-CCccc-------------------ccccccCEEECCCCcccccCcc------cCcCCEEECcCCccC
Confidence            777777777663 22222                   1246777777777776654321      367777777777777


Q ss_pred             ccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeecc
Q 037935          876 CFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHC  955 (1085)
Q Consensus       876 ~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c  955 (1085)
                      .++.    ..++|+.|++++|.++.+...          .++|+.|++++ +.++.++.        .+++|+.|++++|
T Consensus       291 ~l~~----~~~~L~~L~l~~N~l~~i~~~----------~~~L~~L~Ls~-N~l~~lp~--------~~~~L~~L~L~~N  347 (454)
T 1jl5_A          291 GLSE----LPPNLYYLNASSNEIRSLCDL----------PPSLEELNVSN-NKLIELPA--------LPPRLERLIASFN  347 (454)
T ss_dssp             EESC----CCTTCCEEECCSSCCSEECCC----------CTTCCEEECCS-SCCSCCCC--------CCTTCCEEECCSS
T ss_pred             cccC----cCCcCCEEECcCCcCCcccCC----------cCcCCEEECCC-Cccccccc--------cCCcCCEEECCCC
Confidence            6652    136777777777776654310          13577777777 45655543        2467777777776


Q ss_pred             ccccccCCCCcccccCccEEEeccccCccccc-chhhhhhc-------------ccccEEEEcCCccccccccccccccc
Q 037935          956 QNLLSLLPSSSVSFRNLTRLETFACKKLMNLL-TSSKAKSL-------------ERLVSLRIFGCPAMTEVIISDEDETA 1021 (1085)
Q Consensus       956 ~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~-~~~~~~~l-------------~~L~~L~i~~c~~l~~l~~~~~~~~~ 1021 (1085)
                       .+..++.    .+++|++|++++| ++..++ .+..+..+             ++|++|++++|+ ++.++.       
T Consensus       348 -~l~~lp~----~l~~L~~L~L~~N-~l~~l~~ip~~l~~L~~n~~~~~i~~~~~~L~~L~ls~N~-l~~~~~-------  413 (454)
T 1jl5_A          348 -HLAEVPE----LPQNLKQLHVEYN-PLREFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNP-LREFPD-------  413 (454)
T ss_dssp             -CCSCCCC----CCTTCCEEECCSS-CCSSCCCCCTTCCEEECCC-----------------------------------
T ss_pred             -ccccccc----hhhhccEEECCCC-CCCcCCCChHHHHhhhhcccccccccccCcCCEEECCCCc-CCcccc-------
Confidence             4555433    3567777777764 354421 12223333             789999999965 443311       


Q ss_pred             ccccceeecccccccccccccc
Q 037935         1022 NLKEEIVFSKLSALSLFDLDSL 1043 (1085)
Q Consensus      1022 ~~~~~~~~~~L~~L~l~~c~~L 1043 (1085)
                            .+++|+.|.+.+|.--
T Consensus       414 ------iP~sl~~L~~~~~~~~  429 (454)
T 1jl5_A          414 ------IPESVEDLRMNSERVV  429 (454)
T ss_dssp             ----------------------
T ss_pred             ------chhhHhheeCcCcccC
Confidence                  1467888888877543

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.91  E-value=6.6e-24  Score=241.65  Aligned_cols=311  Identities=14%  Similarity=0.191  Sum_probs=196.2

Q ss_pred             CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCcccccccchhhhhccc
Q 037935          511 FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFT  589 (1085)
Q Consensus       511 ~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~  589 (1085)
                      ..+++++.|.+.++.   ...+|..+|.++++|++|++++|.++.+| ..++++++|++|++++| .++.+|+..|++++
T Consensus        42 ~~l~~l~~l~l~~~~---l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~  117 (390)
T 3o6n_A           42 ITLNNQKIVTFKNST---MRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVP  117 (390)
T ss_dssp             GGGCCCSEEEEESCE---ESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCT
T ss_pred             cccCCceEEEecCCc---hhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCC-CCCcCCHHHhcCCC
Confidence            356788888887776   67778777888888888888888887765 47788888888888888 78888777678888


Q ss_pred             cCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccceeeEEecCCCcccccccccc
Q 037935          590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGND  669 (1085)
Q Consensus       590 ~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~~  669 (1085)
                      +|++|++++|.+...           ....+.++++|++|++++|.+..++.                            
T Consensus       118 ~L~~L~L~~n~l~~l-----------~~~~~~~l~~L~~L~L~~n~l~~~~~----------------------------  158 (390)
T 3o6n_A          118 LLTVLVLERNDLSSL-----------PRGIFHNTPKLTTLSMSNNNLERIED----------------------------  158 (390)
T ss_dssp             TCCEEECCSSCCCCC-----------CTTTTTTCTTCCEEECCSSCCCBCCT----------------------------
T ss_pred             CCCEEECCCCccCcC-----------CHHHhcCCCCCcEEECCCCccCccCh----------------------------
Confidence            888888888877321           11225677778888877776654332                            


Q ss_pred             cccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEecccc
Q 037935          670 WFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCK  749 (1085)
Q Consensus       670 ~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~  749 (1085)
                                                          ..+..+++|++|++++|. +..+ +   ++.+++|+.|++++|.
T Consensus       159 ------------------------------------~~~~~l~~L~~L~l~~n~-l~~~-~---~~~l~~L~~L~l~~n~  197 (390)
T 3o6n_A          159 ------------------------------------DTFQATTSLQNLQLSSNR-LTHV-D---LSLIPSLFHANVSYNL  197 (390)
T ss_dssp             ------------------------------------TTTSSCTTCCEEECCSSC-CSBC-C---GGGCTTCSEEECCSSC
T ss_pred             ------------------------------------hhccCCCCCCEEECCCCc-CCcc-c---cccccccceeeccccc
Confidence                                                234455677777776653 3332 1   4566777777776654


Q ss_pred             chHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcc
Q 037935          750 SLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLF  829 (1085)
Q Consensus       750 ~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~  829 (1085)
                       +..+            ...++|+.|++++                          +.. ...+                
T Consensus       198 -l~~~------------~~~~~L~~L~l~~--------------------------n~l-~~~~----------------  221 (390)
T 3o6n_A          198 -LSTL------------AIPIAVEELDASH--------------------------NSI-NVVR----------------  221 (390)
T ss_dssp             -CSEE------------ECCSSCSEEECCS--------------------------SCC-CEEE----------------
T ss_pred             -cccc------------CCCCcceEEECCC--------------------------Cee-eecc----------------
Confidence             1100            0133445555444                          211 1111                


Q ss_pred             cccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccc
Q 037935          830 SFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLE  909 (1085)
Q Consensus       830 ~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~  909 (1085)
                        ...+++|+.|++++|.+++..  .+..  +++|++|++++|.++.+++..+..+++|+.|++++|.++.++..     
T Consensus       222 --~~~~~~L~~L~l~~n~l~~~~--~l~~--l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-----  290 (390)
T 3o6n_A          222 --GPVNVELTILKLQHNNLTDTA--WLLN--YPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLY-----  290 (390)
T ss_dssp             --CCCCSSCCEEECCSSCCCCCG--GGGG--CTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSCCCEEECS-----
T ss_pred             --ccccccccEEECCCCCCcccH--HHcC--CCCccEEECCCCcCCCcChhHccccccCCEEECCCCcCcccCcc-----
Confidence              011356666666666665532  2222  56677777777777666556666777777777777776665321     


Q ss_pred             cccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCccc
Q 037935          910 THARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMN  985 (1085)
Q Consensus       910 ~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~  985 (1085)
                        ...+++|+.|+++++ .++.++..     ...+++|+.|++++| .+..+.   +..+++|++|++++|+ +..
T Consensus       291 --~~~l~~L~~L~L~~n-~l~~~~~~-----~~~l~~L~~L~L~~N-~i~~~~---~~~~~~L~~L~l~~N~-~~~  353 (390)
T 3o6n_A          291 --GQPIPTLKVLDLSHN-HLLHVERN-----QPQFDRLENLYLDHN-SIVTLK---LSTHHTLKNLTLSHND-WDC  353 (390)
T ss_dssp             --SSCCTTCCEEECCSS-CCCCCGGG-----HHHHTTCSEEECCSS-CCCCCC---CCTTCCCSEEECCSSC-EEH
T ss_pred             --cCCCCCCCEEECCCC-cceecCcc-----ccccCcCCEEECCCC-ccceeC---chhhccCCEEEcCCCC-ccc
Confidence              234566777777773 55555431     235788888888887 455442   5667889999998854 443

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.91  E-value=1e-23  Score=243.19  Aligned_cols=130  Identities=19%  Similarity=0.116  Sum_probs=71.9

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccc----------cceEEeecccccEEEec
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHN----------LEFLYLSDCSYEVVFSN  904 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~----------L~~L~l~~~~l~~~~~~  904 (1085)
                      +++|++|++++|.+++++   +..  +++|+.|++++|.++.++.   ..+++          |+.|++++|.+...++ 
T Consensus       211 l~~L~~L~Ls~N~l~~ip---~~~--l~~L~~L~l~~N~l~~~~~---~~l~~L~~L~l~~n~L~~L~l~~n~~~~~~~-  281 (457)
T 3bz5_A          211 NIQLTFLDCSSNKLTEID---VTP--LTQLTYFDCSVNPLTELDV---STLSKLTTLHCIQTDLLEIDLTHNTQLIYFQ-  281 (457)
T ss_dssp             CTTCSEEECCSSCCSCCC---CTT--CTTCSEEECCSSCCSCCCC---TTCTTCCEEECTTCCCSCCCCTTCTTCCEEE-
T ss_pred             CCCCCEEECcCCcccccC---ccc--cCCCCEEEeeCCcCCCcCH---HHCCCCCEEeccCCCCCEEECCCCccCCccc-
Confidence            455555555555554432   211  4555555555555555442   22333          3444555555222222 


Q ss_pred             CCccccccccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcc
Q 037935          905 EGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLM  984 (1085)
Q Consensus       905 ~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~  984 (1085)
                             ...+++|+.|++++|+.+..++.        ..++|+.|++++              +++|++|++++| +++
T Consensus       282 -------~~~l~~L~~L~Ls~n~~l~~l~~--------~~~~L~~L~l~~--------------~~~L~~L~L~~N-~l~  331 (457)
T 3bz5_A          282 -------AEGCRKIKELDVTHNTQLYLLDC--------QAAGITELDLSQ--------------NPKLVYLYLNNT-ELT  331 (457)
T ss_dssp             -------CTTCTTCCCCCCTTCTTCCEEEC--------TTCCCSCCCCTT--------------CTTCCEEECTTC-CCS
T ss_pred             -------ccccccCCEEECCCCcccceecc--------CCCcceEechhh--------------cccCCEEECCCC-ccc
Confidence                   12456677777777766665543        124444444433              367888888774 577


Q ss_pred             cccchhhhhhcccccEEEEcCCc
Q 037935          985 NLLTSSKAKSLERLVSLRIFGCP 1007 (1085)
Q Consensus       985 ~l~~~~~~~~l~~L~~L~i~~c~ 1007 (1085)
                      .+    .+..+++|+.|+++++.
T Consensus       332 ~l----~l~~l~~L~~L~l~~N~  350 (457)
T 3bz5_A          332 EL----DVSHNTKLKSLSCVNAH  350 (457)
T ss_dssp             CC----CCTTCTTCSEEECCSSC
T ss_pred             cc----ccccCCcCcEEECCCCC
Confidence            65    16778899999998853

>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}

Probab=99.91  E-value=5.3e-23  Score=230.40  Aligned_cols=302  Identities=17%  Similarity=0.208  Sum_probs=196.5

Q ss_pred             ccccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEE
Q 037935          490 ALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRML  569 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L  569 (1085)
                      .++++++|++.++.+..++....+++|++|++.+|.   +..++.  |.++++|++|++++|.++.+| .+.++++|++|
T Consensus        42 ~l~~L~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~---i~~~~~--~~~l~~L~~L~L~~n~i~~~~-~~~~l~~L~~L  115 (347)
T 4fmz_A           42 ELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQ---ITDISP--LSNLVKLTNLYIGTNKITDIS-ALQNLTNLREL  115 (347)
T ss_dssp             HHTTCSEEECCSSCCCCCTTGGGCTTCCEEECCSSC---CCCCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEE
T ss_pred             hcccccEEEEeCCccccchhhhhcCCccEEEccCCc---cccchh--hhcCCcCCEEEccCCcccCch-HHcCCCcCCEE
Confidence            456788899988888888776678889999998886   566665  788889999999998888876 58888999999


Q ss_pred             eccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccc
Q 037935          570 DLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLE  649 (1085)
Q Consensus       570 ~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~  649 (1085)
                      ++++| .+..+|.  +.++++|++|++++|...            ..+..+..+++|++|+++++.+..++..       
T Consensus       116 ~l~~n-~i~~~~~--~~~l~~L~~L~l~~n~~~------------~~~~~~~~l~~L~~L~l~~~~~~~~~~~-------  173 (347)
T 4fmz_A          116 YLNED-NISDISP--LANLTKMYSLNLGANHNL------------SDLSPLSNMTGLNYLTVTESKVKDVTPI-------  173 (347)
T ss_dssp             ECTTS-CCCCCGG--GTTCTTCCEEECTTCTTC------------CCCGGGTTCTTCCEEECCSSCCCCCGGG-------
T ss_pred             ECcCC-cccCchh--hccCCceeEEECCCCCCc------------ccccchhhCCCCcEEEecCCCcCCchhh-------
Confidence            99988 8888877  588889999999888652            1233477888888888888776654432       


Q ss_pred             eeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCcccc
Q 037935          650 RFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIF  729 (1085)
Q Consensus       650 ~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~  729 (1085)
                                                                                 ..+++|++|++++|. +..++
T Consensus       174 -----------------------------------------------------------~~l~~L~~L~l~~n~-l~~~~  193 (347)
T 4fmz_A          174 -----------------------------------------------------------ANLTDLYSLSLNYNQ-IEDIS  193 (347)
T ss_dssp             -----------------------------------------------------------GGCTTCSEEECTTSC-CCCCG
T ss_pred             -----------------------------------------------------------ccCCCCCEEEccCCc-ccccc
Confidence                                                                       233455555555442 22221


Q ss_pred             chhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCc
Q 037935          730 SASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKI  809 (1085)
Q Consensus       730 ~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L  809 (1085)
                      +   +..+++|+.|++++|.. ..+.         ....+++|++|+++++. +.....   ...+++|++|++.+|.. 
T Consensus       194 ~---~~~l~~L~~L~l~~n~l-~~~~---------~~~~~~~L~~L~l~~n~-l~~~~~---~~~l~~L~~L~l~~n~l-  255 (347)
T 4fmz_A          194 P---LASLTSLHYFTAYVNQI-TDIT---------PVANMTRLNSLKIGNNK-ITDLSP---LANLSQLTWLEIGTNQI-  255 (347)
T ss_dssp             G---GGGCTTCCEEECCSSCC-CCCG---------GGGGCTTCCEEECCSSC-CCCCGG---GTTCTTCCEEECCSSCC-
T ss_pred             c---ccCCCccceeecccCCC-CCCc---------hhhcCCcCCEEEccCCc-cCCCcc---hhcCCCCCEEECCCCcc-
Confidence            1   44555555555555431 1110         01234455555555432 111111   23455666666665532 


Q ss_pred             ccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccc
Q 037935          810 TLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLE  889 (1085)
Q Consensus       810 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~  889 (1085)
                      ...+                 ....+++|++|++++|.+++..  .+..  +++|+.|++++|.++..++..+..+++|+
T Consensus       256 ~~~~-----------------~~~~l~~L~~L~l~~n~l~~~~--~~~~--l~~L~~L~L~~n~l~~~~~~~l~~l~~L~  314 (347)
T 4fmz_A          256 SDIN-----------------AVKDLTKLKMLNVGSNQISDIS--VLNN--LSQLNSLFLNNNQLGNEDMEVIGGLTNLT  314 (347)
T ss_dssp             CCCG-----------------GGTTCTTCCEEECCSSCCCCCG--GGGG--CTTCSEEECCSSCCCGGGHHHHHTCTTCS
T ss_pred             CCCh-----------------hHhcCCCcCEEEccCCccCCCh--hhcC--CCCCCEEECcCCcCCCcChhHhhccccCC
Confidence            2111                 1234678888888888877652  2332  67888888888888877777777888888


Q ss_pred             eEEeecccccEEEecCCccccccccccccceeccCCc
Q 037935          890 FLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRL  926 (1085)
Q Consensus       890 ~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c  926 (1085)
                      .|++++|+++.+++        +..+++|+.|+++++
T Consensus       315 ~L~L~~n~l~~~~~--------~~~l~~L~~L~l~~N  343 (347)
T 4fmz_A          315 TLFLSQNHITDIRP--------LASLSKMDSADFANQ  343 (347)
T ss_dssp             EEECCSSSCCCCGG--------GGGCTTCSEESSSCC
T ss_pred             EEEccCCccccccC--------hhhhhccceeehhhh
Confidence            88888888766532        344666777777663

>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}

Probab=99.91  E-value=7.3e-24  Score=237.42  Aligned_cols=81  Identities=21%  Similarity=0.305  Sum_probs=39.3

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccC
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL  591 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L  591 (1085)
                      .+++|++|.+.++.   ...++.  |..+++|++|++++|.++.+|. +.++++|++|++++| .++.+|.  +.++++|
T Consensus        42 ~l~~L~~L~l~~~~---i~~~~~--~~~~~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~L~~n-~i~~~~~--~~~l~~L  112 (347)
T 4fmz_A           42 ELESITKLVVAGEK---VASIQG--IEYLTNLEYLNLNGNQITDISP-LSNLVKLTNLYIGTN-KITDISA--LQNLTNL  112 (347)
T ss_dssp             HHTTCSEEECCSSC---CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG--GTTCTTC
T ss_pred             hcccccEEEEeCCc---cccchh--hhhcCCccEEEccCCccccchh-hhcCCcCCEEEccCC-cccCchH--HcCCCcC
Confidence            34455555555444   333332  4445555555555555555443 455555555555555 4444432  3455555


Q ss_pred             CEEeccCCCc
Q 037935          592 EELYMGSCSI  601 (1085)
Q Consensus       592 ~~L~L~~~~~  601 (1085)
                      ++|++++|.+
T Consensus       113 ~~L~l~~n~i  122 (347)
T 4fmz_A          113 RELYLNEDNI  122 (347)
T ss_dssp             SEEECTTSCC
T ss_pred             CEEECcCCcc
Confidence            5555555444

>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}

Probab=99.90  E-value=1.3e-23  Score=252.60  Aligned_cols=115  Identities=9%  Similarity=0.207  Sum_probs=90.8

Q ss_pred             CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCcccccccchhhhhccc
Q 037935          511 FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFT  589 (1085)
Q Consensus       511 ~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~  589 (1085)
                      ..+++++.|.+.++.   ...+|..+|.++++|++|+|++|.++.+| ..|+.+++|++|+|++| .++.+|+..|++++
T Consensus        48 l~l~~l~~l~l~~~~---l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~  123 (597)
T 3oja_B           48 ITLNNQKIVTFKNST---MRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVP  123 (597)
T ss_dssp             GGGCCCSEEEESSCE---ESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCT
T ss_pred             ccCCCceEEEeeCCC---CCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCC-cCCCCCHHHHcCCC
Confidence            456788888888876   67788888888888999999988888865 47888889999999988 88888887778888


Q ss_pred             cCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCC
Q 037935          590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILP  640 (1085)
Q Consensus       590 ~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~  640 (1085)
                      +|++|++++|.+...           .+..++++++|++|++++|.+..++
T Consensus       124 ~L~~L~L~~n~l~~l-----------~~~~~~~l~~L~~L~Ls~N~l~~~~  163 (597)
T 3oja_B          124 LLTVLVLERNDLSSL-----------PRGIFHNTPKLTTLSMSNNNLERIE  163 (597)
T ss_dssp             TCCEEECCSSCCCCC-----------CTTTTTTCTTCCEEECCSSCCCBCC
T ss_pred             CCCEEEeeCCCCCCC-----------CHHHhccCCCCCEEEeeCCcCCCCC
Confidence            899998888887422           2233577888888888888766544

>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}

Probab=99.90  E-value=2e-23  Score=244.74  Aligned_cols=310  Identities=17%  Similarity=0.192  Sum_probs=225.5

Q ss_pred             ecCccccCCCccccccceEEEeeccCcccccc--cCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC
Q 037935          478 RNDAVWEWPDGDALKKCYAISLLNSSIHEVSL--EFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS  555 (1085)
Q Consensus       478 ~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~  555 (1085)
                      .+..+...|. ..+..++.|++++|.+..++.  ...+++|++|++.+|.   +..+++..|.++++|++|+|++|.++.
T Consensus        19 ~~~~l~~ip~-~~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~---i~~~~~~~~~~l~~L~~L~L~~n~l~~   94 (477)
T 2id5_A           19 HRKRFVAVPE-GIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENI---VSAVEPGAFNNLFNLRTLGLRSNRLKL   94 (477)
T ss_dssp             CSCCCSSCCS-CCCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSC---CCEECTTTTTTCTTCCEEECCSSCCCS
T ss_pred             CCCCcCcCCC-CCCCCCcEEECCCCccceECHhHccCCCCCCEEECCCCc---cCEeChhhhhCCccCCEEECCCCcCCc
Confidence            3444444443 456789999999999998854  3389999999999997   677766779999999999999999999


Q ss_pred             Cch-hhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEec
Q 037935          556 LPS-SIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVE  634 (1085)
Q Consensus       556 lp~-~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  634 (1085)
                      +|. .++++++|++|+|++| .+..+++..|.++++|++|++++|.+.           ...+..+..+++|+.|++++|
T Consensus        95 ~~~~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~l~~n~l~-----------~~~~~~~~~l~~L~~L~l~~n  162 (477)
T 2id5_A           95 IPLGVFTGLSNLTKLDISEN-KIVILLDYMFQDLYNLKSLEVGDNDLV-----------YISHRAFSGLNSLEQLTLEKC  162 (477)
T ss_dssp             CCTTSSTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEEECCTTCC-----------EECTTSSTTCTTCCEEEEESC
T ss_pred             cCcccccCCCCCCEEECCCC-ccccCChhHccccccCCEEECCCCccc-----------eeChhhccCCCCCCEEECCCC
Confidence            985 4799999999999999 899888777899999999999999884           334456889999999999999


Q ss_pred             cCCCCCCcc--cccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccc
Q 037935          635 DDSILPDGL--FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQ  712 (1085)
Q Consensus       635 ~~~~~~~~~--~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~  712 (1085)
                      .+..++...  .+++|+.|++..+.                                          .....+..+..++
T Consensus       163 ~l~~~~~~~l~~l~~L~~L~l~~n~------------------------------------------i~~~~~~~~~~l~  200 (477)
T 2id5_A          163 NLTSIPTEALSHLHGLIVLRLRHLN------------------------------------------INAIRDYSFKRLY  200 (477)
T ss_dssp             CCSSCCHHHHTTCTTCCEEEEESCC------------------------------------------CCEECTTCSCSCT
T ss_pred             cCcccChhHhcccCCCcEEeCCCCc------------------------------------------CcEeChhhcccCc
Confidence            988777543  56666666664321                                          0011223345566


Q ss_pred             cccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcc
Q 037935          713 SLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHT  792 (1085)
Q Consensus       713 ~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  792 (1085)
                      +|+.|++++|+.+..+++.  .....+|+.|++++|. +..++.                                 ...
T Consensus       201 ~L~~L~l~~~~~~~~~~~~--~~~~~~L~~L~l~~n~-l~~~~~---------------------------------~~~  244 (477)
T 2id5_A          201 RLKVLEISHWPYLDTMTPN--CLYGLNLTSLSITHCN-LTAVPY---------------------------------LAV  244 (477)
T ss_dssp             TCCEEEEECCTTCCEECTT--TTTTCCCSEEEEESSC-CCSCCH---------------------------------HHH
T ss_pred             ccceeeCCCCccccccCcc--cccCccccEEECcCCc-ccccCH---------------------------------HHh
Confidence            7777777777666655331  3334466666666664 211110                                 001


Q ss_pred             cCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCC
Q 037935          793 SEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDD  872 (1085)
Q Consensus       793 ~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n  872 (1085)
                      ..+++|+.|+++++..- ..+.               ..+..+++|++|++++|.++.+.+..|..  +++|+.|++++|
T Consensus       245 ~~l~~L~~L~Ls~n~l~-~~~~---------------~~~~~l~~L~~L~L~~n~l~~~~~~~~~~--l~~L~~L~L~~N  306 (477)
T 2id5_A          245 RHLVYLRFLNLSYNPIS-TIEG---------------SMLHELLRLQEIQLVGGQLAVVEPYAFRG--LNYLRVLNVSGN  306 (477)
T ss_dssp             TTCTTCCEEECCSSCCC-EECT---------------TSCTTCTTCCEEECCSSCCSEECTTTBTT--CTTCCEEECCSS
T ss_pred             cCccccCeeECCCCcCC-ccCh---------------hhccccccCCEEECCCCccceECHHHhcC--cccCCEEECCCC
Confidence            23445555555554321 1110               11245789999999999998887777765  799999999999


Q ss_pred             cccccchhHHhhccccceEEeeccccc
Q 037935          873 DLACFPLDLLERFHNLEFLYLSDCSYE  899 (1085)
Q Consensus       873 ~l~~~~~~~~~~l~~L~~L~l~~~~l~  899 (1085)
                      .++.++...+..+++|+.|++++|++.
T Consensus       307 ~l~~~~~~~~~~l~~L~~L~l~~N~l~  333 (477)
T 2id5_A          307 QLTTLEESVFHSVGNLETLILDSNPLA  333 (477)
T ss_dssp             CCSCCCGGGBSCGGGCCEEECCSSCEE
T ss_pred             cCceeCHhHcCCCcccCEEEccCCCcc
Confidence            999999888889999999999999964

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.90  E-value=1.1e-22  Score=231.44  Aligned_cols=304  Identities=17%  Similarity=0.143  Sum_probs=203.3

Q ss_pred             cccccceEEEeeccCcccccccC--CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhcccc
Q 037935          489 DALKKCYAISLLNSSIHEVSLEF--ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTK  565 (1085)
Q Consensus       489 ~~~~~~r~Lsl~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~  565 (1085)
                      -...+++++++.++.+..+|...  .+++|++|++.+|.   +..++...|.++++|++|++++|.++.+| ..++++++
T Consensus        42 ~~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~---i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  118 (390)
T 3o6n_A           42 ITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ---IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPL  118 (390)
T ss_dssp             GGGCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSC---CCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             cccCCceEEEecCCchhhCChhHhcccccCcEEECCCCc---ccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCC
Confidence            34578999999999999998753  78999999999997   67788778999999999999999999975 56899999


Q ss_pred             ccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccc
Q 037935          566 LRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFT  645 (1085)
Q Consensus       566 L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l  645 (1085)
                      |++|++++| .++.+|..+|+++++|++|++++|.+.           ...+..+..+++|++|++++|.+..++.. .+
T Consensus       119 L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~l~-----------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-~l  185 (390)
T 3o6n_A          119 LTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLE-----------RIEDDTFQATTSLQNLQLSSNRLTHVDLS-LI  185 (390)
T ss_dssp             CCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC-----------BCCTTTTSSCTTCCEEECCSSCCSBCCGG-GC
T ss_pred             CCEEECCCC-ccCcCCHHHhcCCCCCcEEECCCCccC-----------ccChhhccCCCCCCEEECCCCcCCccccc-cc
Confidence            999999999 999999998899999999999999984           33345588999999999999987754311 23


Q ss_pred             cccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCC
Q 037935          646 KKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKL  725 (1085)
Q Consensus       646 ~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l  725 (1085)
                                                                                        ++|+.|++++|. +
T Consensus       186 ------------------------------------------------------------------~~L~~L~l~~n~-l  198 (390)
T 3o6n_A          186 ------------------------------------------------------------------PSLFHANVSYNL-L  198 (390)
T ss_dssp             ------------------------------------------------------------------TTCSEEECCSSC-C
T ss_pred             ------------------------------------------------------------------cccceeeccccc-c
Confidence                                                                              344444444432 2


Q ss_pred             ccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeecc
Q 037935          726 KYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACN  805 (1085)
Q Consensus       726 ~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~  805 (1085)
                      ..+      ...++|+.|++++|. +..++          ...+++|+.|+++++. +...   .....+++|++|++++
T Consensus       199 ~~~------~~~~~L~~L~l~~n~-l~~~~----------~~~~~~L~~L~l~~n~-l~~~---~~l~~l~~L~~L~Ls~  257 (390)
T 3o6n_A          199 STL------AIPIAVEELDASHNS-INVVR----------GPVNVELTILKLQHNN-LTDT---AWLLNYPGLVEVDLSY  257 (390)
T ss_dssp             SEE------ECCSSCSEEECCSSC-CCEEE----------CCCCSSCCEEECCSSC-CCCC---GGGGGCTTCSEEECCS
T ss_pred             ccc------CCCCcceEEECCCCe-eeecc----------ccccccccEEECCCCC-Cccc---HHHcCCCCccEEECCC
Confidence            211      122345555555443 11110          0123455555555431 1111   1123345555555555


Q ss_pred             CCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhc
Q 037935          806 CDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERF  885 (1085)
Q Consensus       806 c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l  885 (1085)
                      +..-...+                ..+..+++|++|++++|.++.++... .  .+++|++|++++|.++.+|.. +..+
T Consensus       258 n~l~~~~~----------------~~~~~l~~L~~L~L~~n~l~~~~~~~-~--~l~~L~~L~L~~n~l~~~~~~-~~~l  317 (390)
T 3o6n_A          258 NELEKIMY----------------HPFVKMQRLERLYISNNRLVALNLYG-Q--PIPTLKVLDLSHNHLLHVERN-QPQF  317 (390)
T ss_dssp             SCCCEEES----------------GGGTTCSSCCEEECCSSCCCEEECSS-S--CCTTCCEEECCSSCCCCCGGG-HHHH
T ss_pred             CcCCCcCh----------------hHccccccCCEEECCCCcCcccCccc-C--CCCCCCEEECCCCcceecCcc-cccc
Confidence            53222211                11234677777777777776654322 1  267777777777777777644 4567


Q ss_pred             cccceEEeecccccEEEecCCccccccccccccceeccCC
Q 037935          886 HNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTR  925 (1085)
Q Consensus       886 ~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~  925 (1085)
                      ++|+.|++++|+++.+.         +..+++|+.|++++
T Consensus       318 ~~L~~L~L~~N~i~~~~---------~~~~~~L~~L~l~~  348 (390)
T 3o6n_A          318 DRLENLYLDHNSIVTLK---------LSTHHTLKNLTLSH  348 (390)
T ss_dssp             TTCSEEECCSSCCCCCC---------CCTTCCCSEEECCS
T ss_pred             CcCCEEECCCCccceeC---------chhhccCCEEEcCC
Confidence            77777777777765442         23355666666665

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.89  E-value=3.3e-22  Score=230.55  Aligned_cols=306  Identities=17%  Similarity=0.126  Sum_probs=177.8

Q ss_pred             cccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEe
Q 037935          491 LKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLD  570 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~  570 (1085)
                      ..++++|+++++.+..+|....+++|++|++++|.   ...++   |..+++|++|++++|.++.+|  ++++++|++|+
T Consensus        41 l~~L~~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~---l~~~~---~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~~L~  112 (457)
T 3bz5_A           41 LATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNN---ITTLD---LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLN  112 (457)
T ss_dssp             HTTCCEEECCSSCCCCCTTGGGCTTCSEEECCSSC---CSCCC---CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEEE
T ss_pred             cCCCCEEEccCCCcccChhhcccCCCCEEEccCCc---CCeEc---cccCCCCCEEECcCCCCceee--cCCCCcCCEEE
Confidence            45788888888888888765578888888888886   55554   777888888888888888876  78888888888


Q ss_pred             ccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEecc-CCCCCCcccccccc
Q 037935          571 LTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVED-DSILPDGLFTKKLE  649 (1085)
Q Consensus       571 Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~-~~~~~~~~~l~~L~  649 (1085)
                      +++| .++.+|   ++++++|++|++++|.+.           ..   .++.+++|++|+++.|. +..+ .-..+++|+
T Consensus       113 L~~N-~l~~l~---~~~l~~L~~L~l~~N~l~-----------~l---~l~~l~~L~~L~l~~n~~~~~~-~~~~l~~L~  173 (457)
T 3bz5_A          113 CDTN-KLTKLD---VSQNPLLTYLNCARNTLT-----------EI---DVSHNTQLTELDCHLNKKITKL-DVTPQTQLT  173 (457)
T ss_dssp             CCSS-CCSCCC---CTTCTTCCEEECTTSCCS-----------CC---CCTTCTTCCEEECTTCSCCCCC-CCTTCTTCC
T ss_pred             CCCC-cCCeec---CCCCCcCCEEECCCCccc-----------ee---ccccCCcCCEEECCCCCccccc-ccccCCcCC
Confidence            8888 888876   588888888888888873           11   26677888888888773 3333 222566777


Q ss_pred             eeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCcccc
Q 037935          650 RFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIF  729 (1085)
Q Consensus       650 ~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~  729 (1085)
                      .|+++.+.                  +..+.   +.....|+.+++..+.....   .+..+++|+.|++++|.. ..+ 
T Consensus       174 ~L~ls~n~------------------l~~l~---l~~l~~L~~L~l~~N~l~~~---~l~~l~~L~~L~Ls~N~l-~~i-  227 (457)
T 3bz5_A          174 TLDCSFNK------------------ITELD---VSQNKLLNRLNCDTNNITKL---DLNQNIQLTFLDCSSNKL-TEI-  227 (457)
T ss_dssp             EEECCSSC------------------CCCCC---CTTCTTCCEEECCSSCCSCC---CCTTCTTCSEEECCSSCC-SCC-
T ss_pred             EEECCCCc------------------cceec---cccCCCCCEEECcCCcCCee---ccccCCCCCEEECcCCcc-ccc-
Confidence            77764321                  11100   11112233333332222211   133445555555555432 222 


Q ss_pred             chhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCc
Q 037935          730 SASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKI  809 (1085)
Q Consensus       730 ~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L  809 (1085)
                      |   ++.+++|+.|++++|. +..++          ...+++|+.|.+++                .+|+.|++.+|..+
T Consensus       228 p---~~~l~~L~~L~l~~N~-l~~~~----------~~~l~~L~~L~l~~----------------n~L~~L~l~~n~~~  277 (457)
T 3bz5_A          228 D---VTPLTQLTYFDCSVNP-LTELD----------VSTLSKLTTLHCIQ----------------TDLLEIDLTHNTQL  277 (457)
T ss_dssp             C---CTTCTTCSEEECCSSC-CSCCC----------CTTCTTCCEEECTT----------------CCCSCCCCTTCTTC
T ss_pred             C---ccccCCCCEEEeeCCc-CCCcC----------HHHCCCCCEEeccC----------------CCCCEEECCCCccC
Confidence            1   4455555555555554 11110          11244444443332                13344444444433


Q ss_pred             ccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCc-eeeecc-----cCCcCccCCceEEEecCCcccccchhHHh
Q 037935          810 TLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDI-TMILQD-----DFPQHLFGSLKQLRVGDDDLACFPLDLLE  883 (1085)
Q Consensus       810 ~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l-~~~~~~-----~~~~~~~~~L~~L~l~~n~l~~~~~~~~~  883 (1085)
                      ..+|                  ...+++|+.|++++|.. ..++..     .+....+++|++|++++|+++.++   +.
T Consensus       278 ~~~~------------------~~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~~N~l~~l~---l~  336 (457)
T 3bz5_A          278 IYFQ------------------AEGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNTELTELD---VS  336 (457)
T ss_dssp             CEEE------------------CTTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCCCSCCC---CT
T ss_pred             Cccc------------------ccccccCCEEECCCCcccceeccCCCcceEechhhcccCCEEECCCCcccccc---cc
Confidence            3322                  23467777777777763 222210     001112456667777777766653   45


Q ss_pred             hccccceEEeecccccE
Q 037935          884 RFHNLEFLYLSDCSYEV  900 (1085)
Q Consensus       884 ~l~~L~~L~l~~~~l~~  900 (1085)
                      .+++|+.|++++|++++
T Consensus       337 ~l~~L~~L~l~~N~l~~  353 (457)
T 3bz5_A          337 HNTKLKSLSCVNAHIQD  353 (457)
T ss_dssp             TCTTCSEEECCSSCCCB
T ss_pred             cCCcCcEEECCCCCCCC
Confidence            66777777777776554

>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}

Probab=99.88  E-value=2.9e-22  Score=240.89  Aligned_cols=304  Identities=17%  Similarity=0.144  Sum_probs=209.3

Q ss_pred             ccccceEEEeeccCcccccccC--CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCch-hhhccccc
Q 037935          490 ALKKCYAISLLNSSIHEVSLEF--ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKL  566 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~~~--~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~-~i~~L~~L  566 (1085)
                      ....++.+++.++.+..+|...  .+++|++|++.+|.   +..+++..|..+++|++|+|++|.++.+|. .|+++++|
T Consensus        49 ~l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~---l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  125 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ---IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLL  125 (597)
T ss_dssp             GGCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSC---CCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             cCCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCC---CCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCC
Confidence            4567899999999999998753  78999999999997   677887779999999999999999999864 57999999


Q ss_pred             cEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCccccc
Q 037935          567 RMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTK  646 (1085)
Q Consensus       567 ~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~  646 (1085)
                      ++|+|++| .++.+|+.+|+++++|++|++++|.+.           ...+..+.++++|++|++++|.+..++.. .++
T Consensus       126 ~~L~L~~n-~l~~l~~~~~~~l~~L~~L~Ls~N~l~-----------~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-~l~  192 (597)
T 3oja_B          126 TVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLE-----------RIEDDTFQATTSLQNLQLSSNRLTHVDLS-LIP  192 (597)
T ss_dssp             CEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC-----------BCCTTTTTTCTTCCEEECTTSCCSBCCGG-GCT
T ss_pred             CEEEeeCC-CCCCCCHHHhccCCCCCEEEeeCCcCC-----------CCChhhhhcCCcCcEEECcCCCCCCcChh-hhh
Confidence            99999999 999999998899999999999999983           33445688999999999999987755321 233


Q ss_pred             ccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCc
Q 037935          647 KLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLK  726 (1085)
Q Consensus       647 ~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~  726 (1085)
                                                                                        +|+.|++++|. +.
T Consensus       193 ------------------------------------------------------------------~L~~L~l~~n~-l~  205 (597)
T 3oja_B          193 ------------------------------------------------------------------SLFHANVSYNL-LS  205 (597)
T ss_dssp             ------------------------------------------------------------------TCSEEECCSSC-CS
T ss_pred             ------------------------------------------------------------------hhhhhhcccCc-cc
Confidence                                                                              44444444431 12


Q ss_pred             cccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccC
Q 037935          727 YIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNC  806 (1085)
Q Consensus       727 ~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c  806 (1085)
                      .+      ...++|+.|++++|. +..++          ...+++|+.|+++++. +...   .....+++|+.|++++|
T Consensus       206 ~l------~~~~~L~~L~ls~n~-l~~~~----------~~~~~~L~~L~L~~n~-l~~~---~~l~~l~~L~~L~Ls~N  264 (597)
T 3oja_B          206 TL------AIPIAVEELDASHNS-INVVR----------GPVNVELTILKLQHNN-LTDT---AWLLNYPGLVEVDLSYN  264 (597)
T ss_dssp             EE------ECCTTCSEEECCSSC-CCEEE----------CSCCSCCCEEECCSSC-CCCC---GGGGGCTTCSEEECCSS
T ss_pred             cc------cCCchhheeeccCCc-ccccc----------cccCCCCCEEECCCCC-CCCC---hhhccCCCCCEEECCCC
Confidence            11      122344555554443 11110          0123445555555432 1111   11234556666666665


Q ss_pred             CCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhcc
Q 037935          807 DKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFH  886 (1085)
Q Consensus       807 ~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~  886 (1085)
                      ..-...|                ..+..+++|+.|++++|.++.++... .  .+++|+.|++++|.++.+|.. +..++
T Consensus       265 ~l~~~~~----------------~~~~~l~~L~~L~Ls~N~l~~l~~~~-~--~l~~L~~L~Ls~N~l~~i~~~-~~~l~  324 (597)
T 3oja_B          265 ELEKIMY----------------HPFVKMQRLERLYISNNRLVALNLYG-Q--PIPTLKVLDLSHNHLLHVERN-QPQFD  324 (597)
T ss_dssp             CCCEEES----------------GGGTTCSSCCEEECTTSCCCEEECSS-S--CCTTCCEEECCSSCCCCCGGG-HHHHT
T ss_pred             ccCCCCH----------------HHhcCccCCCEEECCCCCCCCCCccc-c--cCCCCcEEECCCCCCCccCcc-cccCC
Confidence            4322222                12345788888888888877764432 2  267888888888888877754 46788


Q ss_pred             ccceEEeecccccEEEecCCccccccccccccceeccCCc
Q 037935          887 NLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRL  926 (1085)
Q Consensus       887 ~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c  926 (1085)
                      +|+.|++++|.+..++         +..+++|+.|+++++
T Consensus       325 ~L~~L~L~~N~l~~~~---------~~~~~~L~~L~l~~N  355 (597)
T 3oja_B          325 RLENLYLDHNSIVTLK---------LSTHHTLKNLTLSHN  355 (597)
T ss_dssp             TCSEEECCSSCCCCCC---------CCTTCCCSEEECCSS
T ss_pred             CCCEEECCCCCCCCcC---------hhhcCCCCEEEeeCC
Confidence            8888888888866542         234667777777774

>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*

Probab=99.85  E-value=3.3e-20  Score=205.71  Aligned_cols=289  Identities=18%  Similarity=0.202  Sum_probs=181.9

Q ss_pred             ccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEe
Q 037935          492 KKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLD  570 (1085)
Q Consensus       492 ~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~  570 (1085)
                      .+++.++++++.+..+|..+ .+++++|++++|.   +..++...|.++++|++|++++|.++.+ |..++++++|++|+
T Consensus        31 c~l~~l~~~~~~l~~lp~~~-~~~l~~L~L~~n~---i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  106 (330)
T 1xku_A           31 CHLRVVQCSDLGLEKVPKDL-PPDTALLDLQNNK---ITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLY  106 (330)
T ss_dssp             EETTEEECTTSCCCSCCCSC-CTTCCEEECCSSC---CCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEE
T ss_pred             CCCeEEEecCCCccccCccC-CCCCeEEECCCCc---CCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEE
Confidence            36788888888888888755 3789999999887   6778877789999999999999999887 78899999999999


Q ss_pred             ccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC---CCcc-ccc
Q 037935          571 LTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL---PDGL-FTK  646 (1085)
Q Consensus       571 Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~---~~~~-~l~  646 (1085)
                      +++| .++.+|..++   ++|++|++++|.+           .......+.++++|++|+++.|.+...   +..+ .++
T Consensus       107 Ls~n-~l~~l~~~~~---~~L~~L~l~~n~l-----------~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~  171 (330)
T 1xku_A          107 LSKN-QLKELPEKMP---KTLQELRVHENEI-----------TKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMK  171 (330)
T ss_dssp             CCSS-CCSBCCSSCC---TTCCEEECCSSCC-----------CBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCT
T ss_pred             CCCC-cCCccChhhc---ccccEEECCCCcc-----------cccCHhHhcCCccccEEECCCCcCCccCcChhhccCCC
Confidence            9999 8999988652   7899999999987           344556688899999999988876531   1111 344


Q ss_pred             ccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCc
Q 037935          647 KLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLK  726 (1085)
Q Consensus       647 ~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~  726 (1085)
                      +|+.|++..+.                                          . ..+|..+  +++|++|++++|. +.
T Consensus       172 ~L~~L~l~~n~------------------------------------------l-~~l~~~~--~~~L~~L~l~~n~-l~  205 (330)
T 1xku_A          172 KLSYIRIADTN------------------------------------------I-TTIPQGL--PPSLTELHLDGNK-IT  205 (330)
T ss_dssp             TCCEEECCSSC------------------------------------------C-CSCCSSC--CTTCSEEECTTSC-CC
T ss_pred             CcCEEECCCCc------------------------------------------c-ccCCccc--cccCCEEECCCCc-CC
Confidence            44444442210                                          0 0122221  1455666665543 22


Q ss_pred             cccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccC
Q 037935          727 YIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNC  806 (1085)
Q Consensus       727 ~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c  806 (1085)
                      .+ ++..+..+++|+.|++++|.                                 +...... ....+++|++|++++|
T Consensus       206 ~~-~~~~~~~l~~L~~L~Ls~n~---------------------------------l~~~~~~-~~~~l~~L~~L~L~~N  250 (330)
T 1xku_A          206 KV-DAASLKGLNNLAKLGLSFNS---------------------------------ISAVDNG-SLANTPHLRELHLNNN  250 (330)
T ss_dssp             EE-CTGGGTTCTTCCEEECCSSC---------------------------------CCEECTT-TGGGSTTCCEEECCSS
T ss_pred             cc-CHHHhcCCCCCCEEECCCCc---------------------------------CceeChh-hccCCCCCCEEECCCC
Confidence            22 12335555555555555553                                 1111110 0123445555555554


Q ss_pred             CCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcC----ccCCceEEEecCCcccc--cchh
Q 037935          807 DKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQH----LFGSLKQLRVGDDDLAC--FPLD  880 (1085)
Q Consensus       807 ~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~----~~~~L~~L~l~~n~l~~--~~~~  880 (1085)
                      . +..+|                .....+++|++|++++|.++.++...|...    ..++|+.|++++|.+..  +++.
T Consensus       251 ~-l~~lp----------------~~l~~l~~L~~L~l~~N~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~i~~~  313 (330)
T 1xku_A          251 K-LVKVP----------------GGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPS  313 (330)
T ss_dssp             C-CSSCC----------------TTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCGG
T ss_pred             c-CccCC----------------hhhccCCCcCEEECCCCcCCccChhhcCCcccccccccccceEeecCcccccccCcc
Confidence            2 22222                112346777888888887777766555321    13567777777777653  4455


Q ss_pred             HHhhccccceEEeeccc
Q 037935          881 LLERFHNLEFLYLSDCS  897 (1085)
Q Consensus       881 ~~~~l~~L~~L~l~~~~  897 (1085)
                      .|..+.+|+.+++++|+
T Consensus       314 ~f~~~~~l~~l~L~~N~  330 (330)
T 1xku_A          314 TFRCVYVRAAVQLGNYK  330 (330)
T ss_dssp             GGTTCCCGGGEEC----
T ss_pred             ccccccceeEEEecccC
Confidence            66677777777777763

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.85  E-value=1.1e-20  Score=209.59  Aligned_cols=246  Identities=19%  Similarity=0.252  Sum_probs=136.0

Q ss_pred             cceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhh
Q 037935          542 KLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELM  621 (1085)
Q Consensus       542 ~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~  621 (1085)
                      +|++++++++.++.+|..+.  ++|++|++++| .++.+++..|+++++|++|++++|.+.           ...+..+.
T Consensus        34 ~l~~l~~~~~~l~~ip~~~~--~~l~~L~l~~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~-----------~~~~~~~~   99 (332)
T 2ft3_A           34 HLRVVQCSDLGLKAVPKEIS--PDTTLLDLQNN-DISELRKDDFKGLQHLYALVLVNNKIS-----------KIHEKAFS   99 (332)
T ss_dssp             ETTEEECCSSCCSSCCSCCC--TTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCC-----------EECGGGST
T ss_pred             cCCEEECCCCCccccCCCCC--CCCeEEECCCC-cCCccCHhHhhCCCCCcEEECCCCccC-----------ccCHhHhh
Confidence            56777777777777776553  56777777777 677766655677777777777777662           23345566


Q ss_pred             cCCCCcEEEEEeccCCCCCCcccccccceeeEEecCCCcccccccccccccccccccceeehhhhhhccccccccccccc
Q 037935          622 HLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHY  701 (1085)
Q Consensus       622 ~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~  701 (1085)
                      ++++|++|++++|.+..+|..+                                                          
T Consensus       100 ~l~~L~~L~L~~n~l~~l~~~~----------------------------------------------------------  121 (332)
T 2ft3_A          100 PLRKLQKLYISKNHLVEIPPNL----------------------------------------------------------  121 (332)
T ss_dssp             TCTTCCEEECCSSCCCSCCSSC----------------------------------------------------------
T ss_pred             CcCCCCEEECCCCcCCccCccc----------------------------------------------------------
Confidence            7777777777777665544321                                                          


Q ss_pred             CCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCC
Q 037935          702 NQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLP  781 (1085)
Q Consensus       702 ~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~  781 (1085)
                               +++|++|++++|. +..+ +...+..+++|+.|++++|.. .......     .....+ +|+.|++++  
T Consensus       122 ---------~~~L~~L~l~~n~-i~~~-~~~~~~~l~~L~~L~l~~n~l-~~~~~~~-----~~~~~l-~L~~L~l~~--  181 (332)
T 2ft3_A          122 ---------PSSLVELRIHDNR-IRKV-PKGVFSGLRNMNCIEMGGNPL-ENSGFEP-----GAFDGL-KLNYLRISE--  181 (332)
T ss_dssp             ---------CTTCCEEECCSSC-CCCC-CSGGGSSCSSCCEEECCSCCC-BGGGSCT-----TSSCSC-CCSCCBCCS--
T ss_pred             ---------cccCCEEECCCCc-cCcc-CHhHhCCCccCCEEECCCCcc-ccCCCCc-----ccccCC-ccCEEECcC--
Confidence                     1356666666653 3333 223456667777777766652 1100000     000011 344444433  


Q ss_pred             ccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCcc
Q 037935          782 ELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLF  861 (1085)
Q Consensus       782 ~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~  861 (1085)
                                              +. +..+|.                  ...++|++|++++|.++...+..+..  +
T Consensus       182 ------------------------n~-l~~l~~------------------~~~~~L~~L~l~~n~i~~~~~~~l~~--l  216 (332)
T 2ft3_A          182 ------------------------AK-LTGIPK------------------DLPETLNELHLDHNKIQAIELEDLLR--Y  216 (332)
T ss_dssp             ------------------------SB-CSSCCS------------------SSCSSCSCCBCCSSCCCCCCTTSSTT--C
T ss_pred             ------------------------CC-CCccCc------------------cccCCCCEEECCCCcCCccCHHHhcC--C
Confidence                                    21 111110                  01246666666666666655544444  5


Q ss_pred             CCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCccccccc
Q 037935          862 GSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQL  932 (1085)
Q Consensus       862 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~~l  932 (1085)
                      ++|++|++++|.++.++...+..+++|+.|++++|.++.++       ..+..+++|+.|++++ +.++.+
T Consensus       217 ~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~lp-------~~l~~l~~L~~L~l~~-N~l~~~  279 (332)
T 2ft3_A          217 SKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRVP-------AGLPDLKLLQVVYLHT-NNITKV  279 (332)
T ss_dssp             TTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCCBCC-------TTGGGCTTCCEEECCS-SCCCBC
T ss_pred             CCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcCeecC-------hhhhcCccCCEEECCC-CCCCcc
Confidence            66777777776666666655666677777777777655432       1233455555555555 344444

>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*

Probab=99.85  E-value=1.5e-20  Score=208.49  Aligned_cols=86  Identities=22%  Similarity=0.305  Sum_probs=54.3

Q ss_pred             cceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhh
Q 037935          542 KLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELM  621 (1085)
Q Consensus       542 ~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~  621 (1085)
                      +|++++++++.++.+|..+.  ++|++|++++| .++.+++..|+++++|++|++++|.+.           ...+..+.
T Consensus        32 ~l~~l~~~~~~l~~lp~~~~--~~l~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~-----------~~~~~~~~   97 (330)
T 1xku_A           32 HLRVVQCSDLGLEKVPKDLP--PDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNKIS-----------KISPGAFA   97 (330)
T ss_dssp             ETTEEECTTSCCCSCCCSCC--TTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSCCC-----------CBCTTTTT
T ss_pred             CCeEEEecCCCccccCccCC--CCCeEEECCCC-cCCEeChhhhccCCCCCEEECCCCcCC-----------eeCHHHhc
Confidence            56666777666666665443  56677777776 666666655567777777777776662           22344566


Q ss_pred             cCCCCcEEEEEeccCCCCCC
Q 037935          622 HLQRLTTLEIDVEDDSILPD  641 (1085)
Q Consensus       622 ~L~~L~~L~l~~~~~~~~~~  641 (1085)
                      ++++|++|++++|.+..+|.
T Consensus        98 ~l~~L~~L~Ls~n~l~~l~~  117 (330)
T 1xku_A           98 PLVKLERLYLSKNQLKELPE  117 (330)
T ss_dssp             TCTTCCEEECCSSCCSBCCS
T ss_pred             CCCCCCEEECCCCcCCccCh
Confidence            66777777777666554443

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.84  E-value=3.2e-20  Score=205.93  Aligned_cols=126  Identities=18%  Similarity=0.269  Sum_probs=96.8

Q ss_pred             cceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEec
Q 037935          493 KCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDL  571 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~L  571 (1085)
                      .++.++++++.+..+|..+ .+++++|++.+|.   +..+++..|.++++|++|++++|.++.+ |..++++++|++|++
T Consensus        34 ~l~~l~~~~~~l~~ip~~~-~~~l~~L~l~~n~---i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  109 (332)
T 2ft3_A           34 HLRVVQCSDLGLKAVPKEI-SPDTTLLDLQNND---ISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYI  109 (332)
T ss_dssp             ETTEEECCSSCCSSCCSCC-CTTCCEEECCSSC---CCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEEC
T ss_pred             cCCEEECCCCCccccCCCC-CCCCeEEECCCCc---CCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEEC
Confidence            5777888888888887655 3688888888886   5667666688888888888888888876 677888888888888


Q ss_pred             cCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       572 s~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      ++| .++.+|..++   ++|++|++++|.+.           ......+.++++|++|++++|.+.
T Consensus       110 ~~n-~l~~l~~~~~---~~L~~L~l~~n~i~-----------~~~~~~~~~l~~L~~L~l~~n~l~  160 (332)
T 2ft3_A          110 SKN-HLVEIPPNLP---SSLVELRIHDNRIR-----------KVPKGVFSGLRNMNCIEMGGNPLE  160 (332)
T ss_dssp             CSS-CCCSCCSSCC---TTCCEEECCSSCCC-----------CCCSGGGSSCSSCCEEECCSCCCB
T ss_pred             CCC-cCCccCcccc---ccCCEEECCCCccC-----------ccCHhHhCCCccCCEEECCCCccc
Confidence            888 8888887652   78888888888873           222344677888888888887765

>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*

Probab=99.83  E-value=4.5e-22  Score=240.71  Aligned_cols=90  Identities=16%  Similarity=0.269  Sum_probs=43.8

Q ss_pred             CCCcceEEEecCCcccC-Cchhhhcc--ccccEEeccCcccccc--cchhhhhccccCCEEeccCCCcchhhcccCCccc
Q 037935          539 GMKKLRVVDLTRVRLFS-LPSSIGQL--TKLRMLDLTDCLQLKF--IVPNILSSFTRLEELYMGSCSIKWEVRKGNSERS  613 (1085)
Q Consensus       539 ~l~~Lr~L~Ls~~~i~~-lp~~i~~L--~~L~~L~Ls~~~~l~~--lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~  613 (1085)
                      .+++|++|+|++|.++. .+..+..+  .+|++|++++|..+..  ++ .+..++++|++|++++|.+...        .
T Consensus       110 ~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~L~~L~L~~~~~~~~~~l~-~~~~~~~~L~~L~L~~~~~~~~--------~  180 (592)
T 3ogk_B          110 NLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGFTTDGLL-SIVTHCRKIKTLLMEESSFSEK--------D  180 (592)
T ss_dssp             HCTTCCEEEEESCBCCHHHHHHHHHHHGGGCCEEEEESCEEEEHHHHH-HHHHHCTTCSEEECTTCEEECC--------C
T ss_pred             hCCCCCeEEeeccEecHHHHHHHHHhccccCcEEECcCCCCcCHHHHH-HHHhhCCCCCEEECccccccCc--------c
Confidence            56666666666665543 23334442  3366666666632221  11 1124566666666666654100        0


Q ss_pred             cc-cHHHhhcCCCCcEEEEEeccCC
Q 037935          614 NA-SLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       614 ~~-~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      .. ...-+..+++|++|+++++.+.
T Consensus       181 ~~~l~~~~~~~~~L~~L~L~~n~~~  205 (592)
T 3ogk_B          181 GKWLHELAQHNTSLEVLNFYMTEFA  205 (592)
T ss_dssp             SHHHHHHHHHCCCCCEEECTTCCCS
T ss_pred             hhHHHHHHhcCCCccEEEeeccCCC
Confidence            00 1222345566666666655544

>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*

Probab=99.83  E-value=9.8e-22  Score=237.91  Aligned_cols=88  Identities=18%  Similarity=0.246  Sum_probs=59.4

Q ss_pred             hhcCCCcceEEEecCCcccC-Cchhhh-ccccccEEeccCcccccc--cchhhhhccccCCEEeccCCCcchhhcccCCc
Q 037935          536 FFKGMKKLRVVDLTRVRLFS-LPSSIG-QLTKLRMLDLTDCLQLKF--IVPNILSSFTRLEELYMGSCSIKWEVRKGNSE  611 (1085)
Q Consensus       536 ~~~~l~~Lr~L~Ls~~~i~~-lp~~i~-~L~~L~~L~Ls~~~~l~~--lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~  611 (1085)
                      ++..+++|++|+|++|.++. .+..+. .+++|++|++++|..++.  ++ .++.++++|++|++++|.+.         
T Consensus       100 l~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~-~~~~~~~~L~~L~L~~~~i~---------  169 (594)
T 2p1m_B          100 MSSSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLA-AIAATCRNLKELDLRESDVD---------  169 (594)
T ss_dssp             HHHHCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHH-HHHHHCTTCCEEECTTCEEE---------
T ss_pred             HHHhCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHH-HHHHhCCCCCEEeCcCCccC---------
Confidence            34567889999999888765 234454 688999999988855554  33 33468889999999888752         


Q ss_pred             cccccHHHh----hcCCCCcEEEEEecc
Q 037935          612 RSNASLDEL----MHLQRLTTLEIDVED  635 (1085)
Q Consensus       612 ~~~~~~~~l----~~L~~L~~L~l~~~~  635 (1085)
                        ...+..+    ..+++|+.|+++++.
T Consensus       170 --~~~~~~l~~~~~~~~~L~~L~l~~~~  195 (594)
T 2p1m_B          170 --DVSGHWLSHFPDTYTSLVSLNISCLA  195 (594)
T ss_dssp             --CCCGGGGGGSCTTCCCCCEEECTTCC
T ss_pred             --CcchHHHHHHhhcCCcCcEEEecccC
Confidence              2122222    256678888777664

>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*

Probab=99.82  E-value=7.2e-21  Score=230.13  Aligned_cols=132  Identities=14%  Similarity=0.067  Sum_probs=87.0

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcC-CC-cceEEEecCCc-cc--CCchhhhccccccEEeccCcccccccch----
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKG-MK-KLRVVDLTRVR-LF--SLPSSIGQLTKLRMLDLTDCLQLKFIVP----  582 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~-l~-~Lr~L~Ls~~~-i~--~lp~~i~~L~~L~~L~Ls~~~~l~~lp~----  582 (1085)
                      .+++|++|++.++.   ........+.. ++ +|++|+|++|. +.  .++..+.++++|++|+|++| .+.....    
T Consensus       110 ~~~~L~~L~L~~~~---i~~~~~~~l~~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~-~~~~~~~~~l~  185 (592)
T 3ogk_B          110 NLRQLKSVHFRRMI---VSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEES-SFSEKDGKWLH  185 (592)
T ss_dssp             HCTTCCEEEEESCB---CCHHHHHHHHHHHGGGCCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTC-EEECCCSHHHH
T ss_pred             hCCCCCeEEeeccE---ecHHHHHHHHHhccccCcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccc-cccCcchhHHH
Confidence            57889999998875   22211122333 33 49999998886 22  23444568899999999998 6654421    


Q ss_pred             hhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-cccccceeeEE
Q 037935          583 NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-FTKKLERFDIS  654 (1085)
Q Consensus       583 ~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~L~~L~l~  654 (1085)
                      ....++++|++|++++|.+....       .......+.++++|++|+++.+.+..++..+ .+++|+.|.+.
T Consensus       186 ~~~~~~~~L~~L~L~~n~~~~~~-------~~~l~~~~~~~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~  251 (592)
T 3ogk_B          186 ELAQHNTSLEVLNFYMTEFAKIS-------PKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGG  251 (592)
T ss_dssp             HHHHHCCCCCEEECTTCCCSSCC-------HHHHHHHHHHCTTCCEEECSSCBGGGGHHHHHHCTTCCEEEEC
T ss_pred             HHHhcCCCccEEEeeccCCCccC-------HHHHHHHHhhCCCCcEEeccCccHHHHHHHHhhhhHHHhhccc
Confidence            23477889999999988873100       0123344567889999999888777666444 66778877774

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.81  E-value=7.5e-19  Score=208.22  Aligned_cols=258  Identities=18%  Similarity=0.135  Sum_probs=165.0

Q ss_pred             cceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEecc
Q 037935          493 KCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLT  572 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls  572 (1085)
                      .++.|+++++.+..+|..+. ++|++|++++|.   +..+|.    .+++|++|+|++|.++.+|.   .+++|++|+++
T Consensus        41 ~l~~L~ls~n~L~~lp~~l~-~~L~~L~L~~N~---l~~lp~----~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls  109 (622)
T 3g06_A           41 GNAVLNVGESGLTTLPDCLP-AHITTLVIPDNN---LTSLPA----LPPELRTLEVSGNQLTSLPV---LPPGLLELSIF  109 (622)
T ss_dssp             CCCEEECCSSCCSCCCSCCC-TTCSEEEECSCC---CSCCCC----CCTTCCEEEECSCCCSCCCC---CCTTCCEEEEC
T ss_pred             CCcEEEecCCCcCccChhhC-CCCcEEEecCCC---CCCCCC----cCCCCCEEEcCCCcCCcCCC---CCCCCCEEECc
Confidence            47788898999888887664 789999999887   567776    47889999999999988886   78899999999


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccceee
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFD  652 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~  652 (1085)
                      +| .++.+|.    .+.+|++|++++|.+...+.               .+++|++|++++|.+..+|..  +.+|+.|+
T Consensus       110 ~N-~l~~l~~----~l~~L~~L~L~~N~l~~lp~---------------~l~~L~~L~Ls~N~l~~l~~~--~~~L~~L~  167 (622)
T 3g06_A          110 SN-PLTHLPA----LPSGLCKLWIFGNQLTSLPV---------------LPPGLQELSVSDNQLASLPAL--PSELCKLW  167 (622)
T ss_dssp             SC-CCCCCCC----CCTTCCEEECCSSCCSCCCC---------------CCTTCCEEECCSSCCSCCCCC--CTTCCEEE
T ss_pred             CC-cCCCCCC----CCCCcCEEECCCCCCCcCCC---------------CCCCCCEEECcCCcCCCcCCc--cCCCCEEE
Confidence            98 8888886    56888999999888742211               247888888888877766542  23344443


Q ss_pred             EEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchh
Q 037935          653 ISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSAS  732 (1085)
Q Consensus       653 l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~  732 (1085)
                      +..+.                                     +      ..+|   ..+++|+.|++++|. +..+++  
T Consensus       168 L~~N~-------------------------------------l------~~l~---~~~~~L~~L~Ls~N~-l~~l~~--  198 (622)
T 3g06_A          168 AYNNQ-------------------------------------L------TSLP---MLPSGLQELSVSDNQ-LASLPT--  198 (622)
T ss_dssp             CCSSC-------------------------------------C------SCCC---CCCTTCCEEECCSSC-CSCCCC--
T ss_pred             CCCCC-------------------------------------C------CCCc---ccCCCCcEEECCCCC-CCCCCC--
Confidence            32110                                     0      0112   123445555554432 222221  


Q ss_pred             hHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccc
Q 037935          733 TIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLS  812 (1085)
Q Consensus       733 ~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~  812 (1085)
                         .+++|+.|++++|.                                 +..++     ..+++|+.|++++| .++.+
T Consensus       199 ---~~~~L~~L~L~~N~---------------------------------l~~l~-----~~~~~L~~L~Ls~N-~L~~l  236 (622)
T 3g06_A          199 ---LPSELYKLWAYNNR---------------------------------LTSLP-----ALPSGLKELIVSGN-RLTSL  236 (622)
T ss_dssp             ---CCTTCCEEECCSSC---------------------------------CSSCC-----CCCTTCCEEECCSS-CCSCC
T ss_pred             ---ccchhhEEECcCCc---------------------------------ccccC-----CCCCCCCEEEccCC-ccCcC
Confidence               12444444444443                                 22111     12355666666555 23322


Q ss_pred             cCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEE
Q 037935          813 QNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLY  892 (1085)
Q Consensus       813 ~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  892 (1085)
                      |                   ..+++|+.|++++|.++.++.      .+++|+.|++++|+++.+|. .+..+++|+.|+
T Consensus       237 p-------------------~~l~~L~~L~Ls~N~L~~lp~------~~~~L~~L~Ls~N~L~~lp~-~l~~l~~L~~L~  290 (622)
T 3g06_A          237 P-------------------VLPSELKELMVSGNRLTSLPM------LPSGLLSLSVYRNQLTRLPE-SLIHLSSETTVN  290 (622)
T ss_dssp             C-------------------CCCTTCCEEECCSSCCSCCCC------CCTTCCEEECCSSCCCSCCG-GGGGSCTTCEEE
T ss_pred             C-------------------CCCCcCcEEECCCCCCCcCCc------ccccCcEEeCCCCCCCcCCH-HHhhccccCEEE
Confidence            2                   225677888888887776543      25778888888888877764 366778888888


Q ss_pred             eecccccE
Q 037935          893 LSDCSYEV  900 (1085)
Q Consensus       893 l~~~~l~~  900 (1085)
                      +++|++.+
T Consensus       291 L~~N~l~~  298 (622)
T 3g06_A          291 LEGNPLSE  298 (622)
T ss_dssp             CCSCCCCH
T ss_pred             ecCCCCCC
Confidence            88887654

>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*

Probab=99.80  E-value=1.1e-20  Score=228.75  Aligned_cols=434  Identities=16%  Similarity=0.071  Sum_probs=234.4

Q ss_pred             hhhcCCCcceEEEecCCcc-cC---------------CchhhhccccccEEeccCcccccccchhhhh-ccccCCEEecc
Q 037935          535 NFFKGMKKLRVVDLTRVRL-FS---------------LPSSIGQLTKLRMLDLTDCLQLKFIVPNILS-SFTRLEELYMG  597 (1085)
Q Consensus       535 ~~~~~l~~Lr~L~Ls~~~i-~~---------------lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~-~L~~L~~L~L~  597 (1085)
                      ..+.++++|++|+++++.. ..               ++.....+++|++|+|++| .+.......+. .+++|++|+++
T Consensus        60 ~~~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~-~~~~~~~~~l~~~~~~L~~L~L~  138 (594)
T 2p1m_B           60 TVIRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRM-VVTDDCLELIAKSFKNFKVLVLS  138 (594)
T ss_dssp             HHHHHCTTCCEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESC-BCCHHHHHHHHHHCTTCCEEEEE
T ss_pred             HHHhhCCCceEEeccCCCchhhcccccccccchhhHHHHHHHHhCCCCCeEEeeCc-EEcHHHHHHHHHhCCCCcEEeCC
Confidence            3455556666666666531 11               1223457889999999999 66654333344 78999999999


Q ss_pred             CCCcchhhcccCCccccccHHH-hhcCCCCcEEEEEeccCCCCCCc-----c-cccccceeeEEecCCCccccccccccc
Q 037935          598 SCSIKWEVRKGNSERSNASLDE-LMHLQRLTTLEIDVEDDSILPDG-----L-FTKKLERFDISIGDGSFDSTKIIGNDW  670 (1085)
Q Consensus       598 ~~~~~~~~~~~~~~~~~~~~~~-l~~L~~L~~L~l~~~~~~~~~~~-----~-~l~~L~~L~l~~~~~~~~~~~~l~~~~  670 (1085)
                      +|...          ....+.. +.++++|++|++++|.+......     . .+++|+.|++..+....          
T Consensus       139 ~~~~~----------~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~----------  198 (594)
T 2p1m_B          139 SCEGF----------STDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEV----------  198 (594)
T ss_dssp             SCEEE----------EHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCC----------
T ss_pred             CcCCC----------CHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcC----------
Confidence            99432          1222333 45899999999988875432211     1 34566666553221000          


Q ss_pred             ccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccc
Q 037935          671 FQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKS  750 (1085)
Q Consensus       671 ~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~  750 (1085)
                            ..                       ..++..+..+++|++|++++|..+..+  +..+..+++|+.|.+.+|..
T Consensus       199 ------~~-----------------------~~l~~l~~~~~~L~~L~L~~~~~~~~l--~~~~~~~~~L~~L~l~~~~~  247 (594)
T 2p1m_B          199 ------SF-----------------------SALERLVTRCPNLKSLKLNRAVPLEKL--ATLLQRAPQLEELGTGGYTA  247 (594)
T ss_dssp             ------CH-----------------------HHHHHHHHHCTTCCEEECCTTSCHHHH--HHHHHHCTTCSEEECSBCCC
T ss_pred             ------CH-----------------------HHHHHHHHhCCCCcEEecCCCCcHHHH--HHHHhcCCcceEcccccccC
Confidence                  00                       000111224567888888887665554  34567788888888766532


Q ss_pred             ------hHHHhccCCcccccccccCCcccEE-ecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCC
Q 037935          751 ------LQEIISENRTDQVTAYFVFPRVTTL-KLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVP  823 (1085)
Q Consensus       751 ------l~~i~~~~~~~~~~~~~~~~~L~~L-~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~  823 (1085)
                            +..+..        ....+++|+.| .+.+... ..+  ......+++|++|++.+|. +...           
T Consensus       248 ~~~~~~~~~l~~--------~l~~~~~L~~Ls~~~~~~~-~~l--~~~~~~~~~L~~L~L~~~~-l~~~-----------  304 (594)
T 2p1m_B          248 EVRPDVYSGLSV--------ALSGCKELRCLSGFWDAVP-AYL--PAVYSVCSRLTTLNLSYAT-VQSY-----------  304 (594)
T ss_dssp             CCCHHHHHHHHH--------HHHTCTTCCEEECCBTCCG-GGG--GGGHHHHTTCCEEECTTCC-CCHH-----------
T ss_pred             ccchhhHHHHHH--------HHhcCCCcccccCCcccch-hhH--HHHHHhhCCCCEEEccCCC-CCHH-----------
Confidence                  111111        11235666666 2322111 001  0111246788888888876 3321           


Q ss_pred             CCCCcccccccCCccceeeeccCCceeeecccCCcCccCCceEEEe---------cCCcccccchhHH-hhccccceEEe
Q 037935          824 AQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRV---------GDDDLACFPLDLL-ERFHNLEFLYL  893 (1085)
Q Consensus       824 ~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l---------~~n~l~~~~~~~~-~~l~~L~~L~l  893 (1085)
                         .+..+...+++|+.|++++| +.+.....+. ..+++|++|++         +++.++......+ ..+++|+.|.+
T Consensus       305 ---~l~~~~~~~~~L~~L~l~~~-~~~~~l~~l~-~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~~l~~~~~~L~~L~~  379 (594)
T 2p1m_B          305 ---DLVKLLCQCPKLQRLWVLDY-IEDAGLEVLA-STCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLY  379 (594)
T ss_dssp             ---HHHHHHTTCTTCCEEEEEGG-GHHHHHHHHH-HHCTTCCEEEEECSCTTCSSCSSCCCHHHHHHHHHHCTTCCEEEE
T ss_pred             ---HHHHHHhcCCCcCEEeCcCc-cCHHHHHHHH-HhCCCCCEEEEecCcccccccCCCCCHHHHHHHHHhchhHHHHHH
Confidence               11222346788888888887 3322111111 12678888888         3455654433222 35788888877


Q ss_pred             ecccccEEEecCCccccccccccccceeccC-----CcccccccccC-CCchhhhHhhhhceeeeeccccccccCCCCcc
Q 037935          894 SDCSYEVVFSNEGYLETHARKLALIKRLNLT-----RLNHLQQLWKH-DSKELDFIFQHLQILRVLHCQNLLSLLPSSSV  967 (1085)
Q Consensus       894 ~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~-----~c~~L~~l~~~-~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~  967 (1085)
                      +.|.++....     ......+++|+.|+++     +|+.++..+.. ........+++|+.|++++  .+.......+.
T Consensus       380 ~~~~l~~~~~-----~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~--~l~~~~~~~l~  452 (594)
T 2p1m_B          380 FCRQMTNAAL-----ITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG--LLTDKVFEYIG  452 (594)
T ss_dssp             EESCCCHHHH-----HHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCS--SCCHHHHHHHH
T ss_pred             hcCCcCHHHH-----HHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecC--cccHHHHHHHH
Confidence            7666543210     1111246788888887     56666644321 1111124567888888865  33322111222


Q ss_pred             c-ccCccEEEeccccCcccccchhhhhhcccccEEEEcCCcccccccccccccccccccceeecccccccccccccccee
Q 037935          968 S-FRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSF 1046 (1085)
Q Consensus       968 ~-l~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l 1046 (1085)
                      . +++|++|++++|. +++.........+++|++|++++|+. .+...      ..  -...+++|+.|++++|+. +.-
T Consensus       453 ~~~~~L~~L~L~~~~-i~~~~~~~l~~~~~~L~~L~L~~n~~-~~~~~------~~--~~~~l~~L~~L~l~~~~~-~~~  521 (594)
T 2p1m_B          453 TYAKKMEMLSVAFAG-DSDLGMHHVLSGCDSLRKLEIRDCPF-GDKAL------LA--NASKLETMRSLWMSSCSV-SFG  521 (594)
T ss_dssp             HHCTTCCEEEEESCC-SSHHHHHHHHHHCTTCCEEEEESCSC-CHHHH------HH--TGGGGGGSSEEEEESSCC-BHH
T ss_pred             HhchhccEeeccCCC-CcHHHHHHHHhcCCCcCEEECcCCCC-cHHHH------HH--HHHhCCCCCEEeeeCCCC-CHH
Confidence            2 6778888887765 54433333346678888888888873 22211      00  111267888888888875 111


Q ss_pred             cCCCccccCCCcCceeeccC
Q 037935         1047 SSGNYAFKLPSLQDLWVIGC 1066 (1085)
Q Consensus      1047 ~~~~~~~~l~~L~~L~i~~C 1066 (1085)
                      ....+...+|.|+...+.+.
T Consensus       522 ~~~~l~~~lp~l~i~~~~~~  541 (594)
T 2p1m_B          522 ACKLLGQKMPKLNVEVIDER  541 (594)
T ss_dssp             HHHHHHHHCTTEEEEEECSS
T ss_pred             HHHHHHHhCCCCEEEEecCC
Confidence            11111234566655555443

>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

Probab=99.79  E-value=4.6e-19  Score=205.61  Aligned_cols=65  Identities=23%  Similarity=0.395  Sum_probs=49.8

Q ss_pred             ccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeeccccc
Q 037935          833 KILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYE  899 (1085)
Q Consensus       833 ~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~  899 (1085)
                      ..+++|+.|++++|.++.+.+..|..  +++|+.|++++|+++.++...+..+++|+.|++++|++.
T Consensus       239 ~~l~~L~~L~L~~n~l~~~~~~~~~~--l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~~  303 (452)
T 3zyi_A          239 HGLSSLKKLWVMNSQVSLIERNAFDG--LASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHHNPWN  303 (452)
T ss_dssp             TTCTTCCEEECTTSCCCEECTTTTTT--CTTCCEEECCSSCCSCCCTTSSTTCTTCCEEECCSSCEE
T ss_pred             cCccCCCEEEeCCCcCceECHHHhcC--CCCCCEEECCCCcCCccChHHhccccCCCEEEccCCCcC
Confidence            34677888888888877777666655  678888888888888888777777888888888888743

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.79  E-value=4.9e-19  Score=204.58  Aligned_cols=65  Identities=25%  Similarity=0.426  Sum_probs=52.2

Q ss_pred             ccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeeccccc
Q 037935          833 KILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYE  899 (1085)
Q Consensus       833 ~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~  899 (1085)
                      ..+++|+.|++++|.++.+.+..|..  +++|+.|++++|+++.++...+..+++|+.|++++|++.
T Consensus       228 ~~l~~L~~L~L~~n~l~~~~~~~~~~--l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~~  292 (440)
T 3zyj_A          228 QGLMHLQKLWMIQSQIQVIERNAFDN--LQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHHNPWN  292 (440)
T ss_dssp             TTCTTCCEEECTTCCCCEECTTSSTT--CTTCCEEECTTSCCCCCCTTTTSSCTTCCEEECCSSCEE
T ss_pred             ccCccCCEEECCCCceeEEChhhhcC--CCCCCEEECCCCCCCccChhHhccccCCCEEEcCCCCcc
Confidence            34678888888888888877766665  788888888888888888877788888888888888843

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.79  E-value=5.5e-19  Score=197.80  Aligned_cols=65  Identities=15%  Similarity=0.177  Sum_probs=43.5

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEE
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVV  901 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~  901 (1085)
                      +++|++|++++|.++...+..+..  +++|++|++++|.++.++...+..+++|+.|++++|.++..
T Consensus       173 l~~L~~L~l~~n~l~~~~~~~l~~--l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~  237 (353)
T 2z80_A          173 LTFLEELEIDASDLQSYEPKSLKS--IQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTF  237 (353)
T ss_dssp             CCEEEEEEEEETTCCEECTTTTTT--CSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTC
T ss_pred             CCCCCEEECCCCCcCccCHHHHhc--cccCCeecCCCCccccchhhhhhhcccccEEECCCCccccc
Confidence            345555555555555554444444  57777777777777777766666788888888888886553

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.79  E-value=8e-19  Score=196.50  Aligned_cols=143  Identities=17%  Similarity=0.150  Sum_probs=109.6

Q ss_pred             EEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEeccCcc
Q 037935          497 ISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDCL  575 (1085)
Q Consensus       497 Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~  575 (1085)
                      .+.+++.++.+|..+. ++|++|++++|.   +..++...|.++++|++|++++|.++.+ |..++++++|++|++++| 
T Consensus        36 c~~~~~~l~~iP~~~~-~~L~~L~l~~n~---i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-  110 (353)
T 2z80_A           36 CKGSSGSLNSIPSGLT-EAVKSLDLSNNR---ITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYN-  110 (353)
T ss_dssp             EECCSTTCSSCCTTCC-TTCCEEECTTSC---CCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-
T ss_pred             eeCCCCCccccccccc-ccCcEEECCCCc---CcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCC-
Confidence            6677788888887553 689999999887   6778877789999999999999999886 457899999999999999 


Q ss_pred             cccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEecc-CCCCCCc-c-cccccceee
Q 037935          576 QLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVED-DSILPDG-L-FTKKLERFD  652 (1085)
Q Consensus       576 ~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~-~~~~~~~-~-~l~~L~~L~  652 (1085)
                      .++.+|...++++++|++|++++|.+...+.          ...+.++++|++|++++|. +..++.. + .+++|+.|+
T Consensus       111 ~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~----------~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~  180 (353)
T 2z80_A          111 YLSNLSSSWFKPLSSLTFLNLLGNPYKTLGE----------TSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELE  180 (353)
T ss_dssp             CCSSCCHHHHTTCTTCSEEECTTCCCSSSCS----------SCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEE
T ss_pred             cCCcCCHhHhCCCccCCEEECCCCCCcccCc----------hhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEE
Confidence            8999998877899999999999998742211          0246788899999998883 5544332 2 445555555


Q ss_pred             EE
Q 037935          653 IS  654 (1085)
Q Consensus       653 l~  654 (1085)
                      ++
T Consensus       181 l~  182 (353)
T 2z80_A          181 ID  182 (353)
T ss_dssp             EE
T ss_pred             CC
Confidence            43

>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}

Probab=99.79  E-value=9.8e-19  Score=192.65  Aligned_cols=119  Identities=21%  Similarity=0.281  Sum_probs=68.1

Q ss_pred             CCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCC
Q 037935          513 CPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLE  592 (1085)
Q Consensus       513 ~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~  592 (1085)
                      ..+++.|++.++.   ...+|.. +.++++|++|+|++|.++.+|..++++++|++|+|++| .++.+|.. ++++++|+
T Consensus        80 ~~~l~~L~L~~n~---l~~lp~~-l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n-~l~~lp~~-l~~l~~L~  153 (328)
T 4fcg_A           80 QPGRVALELRSVP---LPQFPDQ-AFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN-PLRALPAS-IASLNRLR  153 (328)
T ss_dssp             STTCCEEEEESSC---CSSCCSC-GGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESC-CCCCCCGG-GGGCTTCC
T ss_pred             ccceeEEEccCCC---chhcChh-hhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCC-ccccCcHH-HhcCcCCC
Confidence            3556666666665   4456655 33477777777777777777766777777777777777 66666665 36777777


Q ss_pred             EEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC
Q 037935          593 ELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL  639 (1085)
Q Consensus       593 ~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  639 (1085)
                      +|++++|.+....+.....  ......+.++++|++|++++|.+..+
T Consensus       154 ~L~L~~n~~~~~~p~~~~~--~~~~~~~~~l~~L~~L~L~~n~l~~l  198 (328)
T 4fcg_A          154 ELSIRACPELTELPEPLAS--TDASGEHQGLVNLQSLRLEWTGIRSL  198 (328)
T ss_dssp             EEEEEEETTCCCCCSCSEE--EC-CCCEEESTTCCEEEEEEECCCCC
T ss_pred             EEECCCCCCccccChhHhh--ccchhhhccCCCCCEEECcCCCcCcc
Confidence            7777776553221110000  00011133466666666666655433

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.79  E-value=7.6e-21  Score=222.17  Aligned_cols=113  Identities=17%  Similarity=0.194  Sum_probs=71.9

Q ss_pred             CCcceeeeccCCCcccccc-ChhhhcCCCcceEEEecCCccc-----CCchhhhccccccEEeccCccccccc-chhhhh
Q 037935          514 PQLEFLHIDPKITFAELNI-PDNFFKGMKKLRVVDLTRVRLF-----SLPSSIGQLTKLRMLDLTDCLQLKFI-VPNILS  586 (1085)
Q Consensus       514 ~~Lr~L~l~~~~~~~~~~l-~~~~~~~l~~Lr~L~Ls~~~i~-----~lp~~i~~L~~L~~L~Ls~~~~l~~l-p~~~~~  586 (1085)
                      ++|++|+++++.   .... ...+|..+++|++|++++|.++     .+|..+..+++|++|++++| .+... +..++.
T Consensus         3 ~~l~~L~Ls~~~---l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~l~~~~~~~l~~   78 (461)
T 1z7x_W            3 LDIQSLDIQCEE---LSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHCVLQ   78 (461)
T ss_dssp             EEEEEEEEESCC---CCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHHHHH
T ss_pred             ccceehhhhhcc---cCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCC-cCChHHHHHHHH
Confidence            456677776665   2222 2234667788888888888776     35667777888888888887 66543 223334


Q ss_pred             ccc----cCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          587 SFT----RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       587 ~L~----~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      .+.    +|++|++++|.+....       ....+..+.++++|++|++++|.+.
T Consensus        79 ~l~~~~~~L~~L~L~~n~i~~~~-------~~~l~~~l~~~~~L~~L~Ls~n~i~  126 (461)
T 1z7x_W           79 GLQTPSCKIQKLSLQNCCLTGAG-------CGVLSSTLRTLPTLQELHLSDNLLG  126 (461)
T ss_dssp             TTCSTTCCCCEEECTTSCCBGGG-------HHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             HHhhCCCceeEEEccCCCCCHHH-------HHHHHHHHccCCceeEEECCCCcCc
Confidence            455    6888888888763100       0123556777788888888777543

>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}

Probab=99.79  E-value=5.6e-19  Score=194.59  Aligned_cols=204  Identities=25%  Similarity=0.357  Sum_probs=163.3

Q ss_pred             ccceEEEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEe
Q 037935          492 KKCYAISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLD  570 (1085)
Q Consensus       492 ~~~r~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~  570 (1085)
                      ..++.|++.++.+..+|..+ .+++|++|++.+|.   +..+|.. |.++++|++|+|++|.++.+|..++++++|++|+
T Consensus        81 ~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~---l~~lp~~-~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~  156 (328)
T 4fcg_A           81 PGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAG---LMELPDT-MQQFAGLETLTLARNPLRALPASIASLNRLRELS  156 (328)
T ss_dssp             TTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSC---CCCCCSC-GGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEE
T ss_pred             cceeEEEccCCCchhcChhhhhCCCCCEEECCCCC---ccchhHH-HhccCCCCEEECCCCccccCcHHHhcCcCCCEEE
Confidence            46899999999999998765 78999999999998   5578864 7889999999999999999999999999999999


Q ss_pred             ccCcccccccchhh--------hhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCc
Q 037935          571 LTDCLQLKFIVPNI--------LSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDG  642 (1085)
Q Consensus       571 Ls~~~~l~~lp~~~--------~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  642 (1085)
                      +++|..+..+|..+        ++++++|++|++++|.+.            ..+..+.++++|++|++++|.+..+|..
T Consensus       157 L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~------------~lp~~l~~l~~L~~L~L~~N~l~~l~~~  224 (328)
T 4fcg_A          157 IRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR------------SLPASIANLQNLKSLKIRNSPLSALGPA  224 (328)
T ss_dssp             EEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCC------------CCCGGGGGCTTCCEEEEESSCCCCCCGG
T ss_pred             CCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcC------------cchHhhcCCCCCCEEEccCCCCCcCchh
Confidence            99986778888764        234999999999999873            3456689999999999999999888776


Q ss_pred             c-cccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcC
Q 037935          643 L-FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWG  721 (1085)
Q Consensus       643 ~-~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~  721 (1085)
                      + .+++|+.|+++.+                                          ...+.+|.++..+++|+.|+|++
T Consensus       225 l~~l~~L~~L~Ls~n------------------------------------------~~~~~~p~~~~~l~~L~~L~L~~  262 (328)
T 4fcg_A          225 IHHLPKLEELDLRGC------------------------------------------TALRNYPPIFGGRAPLKRLILKD  262 (328)
T ss_dssp             GGGCTTCCEEECTTC------------------------------------------TTCCBCCCCTTCCCCCCEEECTT
T ss_pred             hccCCCCCEEECcCC------------------------------------------cchhhhHHHhcCCCCCCEEECCC
Confidence            5 5666666665322                                          22234666777778888888888


Q ss_pred             CCCCccccchhhHhhcccccEEEeccccchHHHh
Q 037935          722 CDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEII  755 (1085)
Q Consensus       722 ~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~  755 (1085)
                      |+..+.+|.  .++.+++|+.|++++|..+..++
T Consensus       263 n~~~~~~p~--~~~~l~~L~~L~L~~n~~~~~iP  294 (328)
T 4fcg_A          263 CSNLLTLPL--DIHRLTQLEKLDLRGCVNLSRLP  294 (328)
T ss_dssp             CTTCCBCCT--TGGGCTTCCEEECTTCTTCCCCC
T ss_pred             CCchhhcch--hhhcCCCCCEEeCCCCCchhhcc
Confidence            777776633  47778888888888777555443

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.79  E-value=6.2e-19  Score=203.73  Aligned_cols=85  Identities=18%  Similarity=0.273  Sum_probs=73.5

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCcccccccc
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARK  914 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~  914 (1085)
                      +++|++|++++|.++.+.+..|..  +++|++|++++|+++.++...+..+++|+.|++++|.++.++      ...+..
T Consensus       206 l~~L~~L~Ls~N~l~~~~~~~~~~--l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~------~~~~~~  277 (440)
T 3zyj_A          206 LIKLDELDLSGNHLSAIRPGSFQG--LMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLP------HDLFTP  277 (440)
T ss_dssp             CSSCCEEECTTSCCCEECTTTTTT--CTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTSCCCCCC------TTTTSS
T ss_pred             CcccCEEECCCCccCccChhhhcc--CccCCEEECCCCceeEEChhhhcCCCCCCEEECCCCCCCccC------hhHhcc
Confidence            688999999999999888877776  899999999999999999888999999999999999988664      234566


Q ss_pred             ccccceeccCCcc
Q 037935          915 LALIKRLNLTRLN  927 (1085)
Q Consensus       915 l~~L~~L~l~~c~  927 (1085)
                      +++|+.|++++++
T Consensus       278 l~~L~~L~L~~Np  290 (440)
T 3zyj_A          278 LHHLERIHLHHNP  290 (440)
T ss_dssp             CTTCCEEECCSSC
T ss_pred             ccCCCEEEcCCCC
Confidence            8889999998743

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.79  E-value=2.3e-19  Score=196.58  Aligned_cols=108  Identities=19%  Similarity=0.215  Sum_probs=74.9

Q ss_pred             CCcceeeeccCCCcccc--ccChhhhcCCCcceEEEecC-Cccc-CCchhhhccccccEEeccCccccc-ccchhhhhcc
Q 037935          514 PQLEFLHIDPKITFAEL--NIPDNFFKGMKKLRVVDLTR-VRLF-SLPSSIGQLTKLRMLDLTDCLQLK-FIVPNILSSF  588 (1085)
Q Consensus       514 ~~Lr~L~l~~~~~~~~~--~l~~~~~~~l~~Lr~L~Ls~-~~i~-~lp~~i~~L~~L~~L~Ls~~~~l~-~lp~~~~~~L  588 (1085)
                      .+++.|++.++..  ..  .+|. .|.++++|++|++++ |.+. .+|..++++++|++|++++| .++ .+|.. ++++
T Consensus        50 ~~l~~L~L~~~~l--~~~~~~~~-~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n-~l~~~~p~~-~~~l  124 (313)
T 1ogq_A           50 YRVNNLDLSGLNL--PKPYPIPS-SLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHT-NVSGAIPDF-LSQI  124 (313)
T ss_dssp             CCEEEEEEECCCC--SSCEECCG-GGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEE-CCEEECCGG-GGGC
T ss_pred             ceEEEEECCCCCc--cCCcccCh-hHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCC-eeCCcCCHH-HhCC
Confidence            4667777776652  12  4554 467788888888874 6665 46777888888888888887 666 45554 4788


Q ss_pred             ccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          589 TRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       589 ~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      ++|++|++++|.+.           ...+..+..+++|++|++++|.+.
T Consensus       125 ~~L~~L~Ls~N~l~-----------~~~p~~~~~l~~L~~L~L~~N~l~  162 (313)
T 1ogq_A          125 KTLVTLDFSYNALS-----------GTLPPSISSLPNLVGITFDGNRIS  162 (313)
T ss_dssp             TTCCEEECCSSEEE-----------SCCCGGGGGCTTCCEEECCSSCCE
T ss_pred             CCCCEEeCCCCccC-----------CcCChHHhcCCCCCeEECcCCccc
Confidence            88888888888762           344556777888888888777654

>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

Probab=99.79  E-value=6.9e-19  Score=204.10  Aligned_cols=85  Identities=22%  Similarity=0.260  Sum_probs=73.1

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCcccccccc
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARK  914 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~  914 (1085)
                      +++|++|++++|.++.+.+..|..  +++|+.|++++|+++.+++..+..+++|+.|++++|.++.+++      ..+..
T Consensus       217 l~~L~~L~Ls~N~l~~~~~~~~~~--l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~------~~~~~  288 (452)
T 3zyi_A          217 LVGLEELEMSGNHFPEIRPGSFHG--LSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPH------DLFTP  288 (452)
T ss_dssp             CTTCCEEECTTSCCSEECGGGGTT--CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCT------TSSTT
T ss_pred             cccccEEECcCCcCcccCcccccC--ccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCCccCh------HHhcc
Confidence            688999999999999888877776  8999999999999999988889999999999999999886542      34566


Q ss_pred             ccccceeccCCcc
Q 037935          915 LALIKRLNLTRLN  927 (1085)
Q Consensus       915 l~~L~~L~l~~c~  927 (1085)
                      +++|+.|++++++
T Consensus       289 l~~L~~L~L~~Np  301 (452)
T 3zyi_A          289 LRYLVELHLHHNP  301 (452)
T ss_dssp             CTTCCEEECCSSC
T ss_pred             ccCCCEEEccCCC
Confidence            8889999998743

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.77  E-value=1.1e-18  Score=191.27  Aligned_cols=250  Identities=17%  Similarity=0.148  Sum_probs=169.6

Q ss_pred             CcceEEEecCCccc---CCchhhhccccccEEeccC-ccccc-ccchhhhhccccCCEEeccCCCcchhhcccCCccccc
Q 037935          541 KKLRVVDLTRVRLF---SLPSSIGQLTKLRMLDLTD-CLQLK-FIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNA  615 (1085)
Q Consensus       541 ~~Lr~L~Ls~~~i~---~lp~~i~~L~~L~~L~Ls~-~~~l~-~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~  615 (1085)
                      .+++.|+|++|.+.   .+|..++++++|++|++++ | .+. .+|.. |+++++|++|++++|.+.           ..
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n-~l~~~~p~~-l~~l~~L~~L~Ls~n~l~-----------~~  116 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGIN-NLVGPIPPA-IAKLTQLHYLYITHTNVS-----------GA  116 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEET-TEESCCCGG-GGGCTTCSEEEEEEECCE-----------EE
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCC-cccccCChh-HhcCCCCCEEECcCCeeC-----------Cc
Confidence            57999999999998   4899999999999999995 6 665 66766 599999999999999983           34


Q ss_pred             cHHHhhcCCCCcEEEEEeccCCCCCCcccccccceeeEEecCCCcccccccccccccccccccceeehhhhhhccccccc
Q 037935          616 SLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINV  695 (1085)
Q Consensus       616 ~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L  695 (1085)
                      .+..+.++++|++|++++|.+..                                                         
T Consensus       117 ~p~~~~~l~~L~~L~Ls~N~l~~---------------------------------------------------------  139 (313)
T 1ogq_A          117 IPDFLSQIKTLVTLDFSYNALSG---------------------------------------------------------  139 (313)
T ss_dssp             CCGGGGGCTTCCEEECCSSEEES---------------------------------------------------------
T ss_pred             CCHHHhCCCCCCEEeCCCCccCC---------------------------------------------------------
Confidence            56678899999999998887652                                                         


Q ss_pred             ccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcc-cccEEEeccccchHHHhccCCcccccccccCCcccE
Q 037935          696 DEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLE-QLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTT  774 (1085)
Q Consensus       696 ~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~-~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~  774 (1085)
                             ..|..+..+++|++|++++|.....+|  ..++.++ +|+.|++++|.....++..        ...++ |+.
T Consensus       140 -------~~p~~~~~l~~L~~L~L~~N~l~~~~p--~~l~~l~~~L~~L~L~~N~l~~~~~~~--------~~~l~-L~~  201 (313)
T 1ogq_A          140 -------TLPPSISSLPNLVGITFDGNRISGAIP--DSYGSFSKLFTSMTISRNRLTGKIPPT--------FANLN-LAF  201 (313)
T ss_dssp             -------CCCGGGGGCTTCCEEECCSSCCEEECC--GGGGCCCTTCCEEECCSSEEEEECCGG--------GGGCC-CSE
T ss_pred             -------cCChHHhcCCCCCeEECcCCcccCcCC--HHHhhhhhcCcEEECcCCeeeccCChH--------HhCCc-ccE
Confidence                   134445567778888887765443442  3466666 7788877777521111100        00111 444


Q ss_pred             EecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecc
Q 037935          775 LKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQD  854 (1085)
Q Consensus       775 L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~  854 (1085)
                      |++++                          +..-...+                ..+..+++|+.|++++|.++...+.
T Consensus       202 L~Ls~--------------------------N~l~~~~~----------------~~~~~l~~L~~L~L~~N~l~~~~~~  239 (313)
T 1ogq_A          202 VDLSR--------------------------NMLEGDAS----------------VLFGSDKNTQKIHLAKNSLAFDLGK  239 (313)
T ss_dssp             EECCS--------------------------SEEEECCG----------------GGCCTTSCCSEEECCSSEECCBGGG
T ss_pred             EECcC--------------------------CcccCcCC----------------HHHhcCCCCCEEECCCCceeeecCc
Confidence            44443                          21111111                1123467888888888887655444


Q ss_pred             cCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCccccc
Q 037935          855 DFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQ  930 (1085)
Q Consensus       855 ~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~  930 (1085)
                       +..  +++|++|++++|.++...+..+..+++|+.|++++|++++..+..       ..+++|+.+++.+.+.+.
T Consensus       240 -~~~--l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~-------~~l~~L~~l~l~~N~~lc  305 (313)
T 1ogq_A          240 -VGL--SKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG-------GNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             -CCC--CTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCS-------TTGGGSCGGGTCSSSEEE
T ss_pred             -ccc--cCCCCEEECcCCcccCcCChHHhcCcCCCEEECcCCcccccCCCC-------ccccccChHHhcCCCCcc
Confidence             333  688889999988888554466788889999999999877554322       346667777777755454

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.77  E-value=3.3e-18  Score=202.75  Aligned_cols=256  Identities=21%  Similarity=0.125  Sum_probs=170.6

Q ss_pred             CCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCE
Q 037935          514 PQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEE  593 (1085)
Q Consensus       514 ~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~  593 (1085)
                      .++++|++.++.   ...+|..++   ++|++|+|++|.++.+|.   .+++|++|+|++| .++.+|.    .+++|++
T Consensus        40 ~~l~~L~ls~n~---L~~lp~~l~---~~L~~L~L~~N~l~~lp~---~l~~L~~L~Ls~N-~l~~lp~----~l~~L~~  105 (622)
T 3g06_A           40 NGNAVLNVGESG---LTTLPDCLP---AHITTLVIPDNNLTSLPA---LPPELRTLEVSGN-QLTSLPV----LPPGLLE  105 (622)
T ss_dssp             HCCCEEECCSSC---CSCCCSCCC---TTCSEEEECSCCCSCCCC---CCTTCCEEEECSC-CCSCCCC----CCTTCCE
T ss_pred             CCCcEEEecCCC---cCccChhhC---CCCcEEEecCCCCCCCCC---cCCCCCEEEcCCC-cCCcCCC----CCCCCCE
Confidence            357778887776   567776533   678888888888887776   5678888888888 7777775    5677888


Q ss_pred             EeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccceeeEEecCCCcccccccccccccc
Q 037935          594 LYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQT  673 (1085)
Q Consensus       594 L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~  673 (1085)
                      |++++|.+...            +.   .+++|+.|++++|.+..+|..                               
T Consensus       106 L~Ls~N~l~~l------------~~---~l~~L~~L~L~~N~l~~lp~~-------------------------------  139 (622)
T 3g06_A          106 LSIFSNPLTHL------------PA---LPSGLCKLWIFGNQLTSLPVL-------------------------------  139 (622)
T ss_dssp             EEECSCCCCCC------------CC---CCTTCCEEECCSSCCSCCCCC-------------------------------
T ss_pred             EECcCCcCCCC------------CC---CCCCcCEEECCCCCCCcCCCC-------------------------------
Confidence            88888776321            11   456777777777766655542                               


Q ss_pred             cccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHH
Q 037935          674 FNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQE  753 (1085)
Q Consensus       674 ~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~  753 (1085)
                                                           +++|++|++++| .+..++.     .+++|+.|++++|. +..
T Consensus       140 -------------------------------------l~~L~~L~Ls~N-~l~~l~~-----~~~~L~~L~L~~N~-l~~  175 (622)
T 3g06_A          140 -------------------------------------PPGLQELSVSDN-QLASLPA-----LPSELCKLWAYNNQ-LTS  175 (622)
T ss_dssp             -------------------------------------CTTCCEEECCSS-CCSCCCC-----CCTTCCEEECCSSC-CSC
T ss_pred             -------------------------------------CCCCCEEECcCC-cCCCcCC-----ccCCCCEEECCCCC-CCC
Confidence                                                 235555666554 2333321     23556666666554 222


Q ss_pred             HhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccc
Q 037935          754 IISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKK  833 (1085)
Q Consensus       754 i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~  833 (1085)
                      ++           ..+++|+.|+++++. +..++     ..+++|+.|.+.+|. +..+|                   .
T Consensus       176 l~-----------~~~~~L~~L~Ls~N~-l~~l~-----~~~~~L~~L~L~~N~-l~~l~-------------------~  218 (622)
T 3g06_A          176 LP-----------MLPSGLQELSVSDNQ-LASLP-----TLPSELYKLWAYNNR-LTSLP-------------------A  218 (622)
T ss_dssp             CC-----------CCCTTCCEEECCSSC-CSCCC-----CCCTTCCEEECCSSC-CSSCC-------------------C
T ss_pred             Cc-----------ccCCCCcEEECCCCC-CCCCC-----CccchhhEEECcCCc-ccccC-------------------C
Confidence            21           135666777666642 33222     235788888888773 33332                   2


Q ss_pred             cCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCccccccc
Q 037935          834 ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHAR  913 (1085)
Q Consensus       834 ~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~  913 (1085)
                      .+++|+.|++++|.++.++      ..+++|+.|++++|+++.+|.    .+++|+.|++++|.++.++       ..+.
T Consensus       219 ~~~~L~~L~Ls~N~L~~lp------~~l~~L~~L~Ls~N~L~~lp~----~~~~L~~L~Ls~N~L~~lp-------~~l~  281 (622)
T 3g06_A          219 LPSGLKELIVSGNRLTSLP------VLPSELKELMVSGNRLTSLPM----LPSGLLSLSVYRNQLTRLP-------ESLI  281 (622)
T ss_dssp             CCTTCCEEECCSSCCSCCC------CCCTTCCEEECCSSCCSCCCC----CCTTCCEEECCSSCCCSCC-------GGGG
T ss_pred             CCCCCCEEEccCCccCcCC------CCCCcCcEEECCCCCCCcCCc----ccccCcEEeCCCCCCCcCC-------HHHh
Confidence            2588999999999988754      226889999999999999885    6789999999999987552       2466


Q ss_pred             cccccceeccCCcc
Q 037935          914 KLALIKRLNLTRLN  927 (1085)
Q Consensus       914 ~l~~L~~L~l~~c~  927 (1085)
                      .+++|+.|++++++
T Consensus       282 ~l~~L~~L~L~~N~  295 (622)
T 3g06_A          282 HLSSETTVNLEGNP  295 (622)
T ss_dssp             GSCTTCEEECCSCC
T ss_pred             hccccCEEEecCCC
Confidence            78889999998843

>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}

Probab=99.77  E-value=7.1e-19  Score=192.75  Aligned_cols=126  Identities=18%  Similarity=0.207  Sum_probs=92.4

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC---chhhhccccccEEec
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL---PSSIGQLTKLRMLDL  571 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l---p~~i~~L~~L~~L~L  571 (1085)
                      +.++..++.++.+|..+. ++|+.|++.+|.   +..+|..+|.++++|++|++++|.++.+   |..+..+++|++|++
T Consensus        10 ~~l~c~~~~l~~ip~~~~-~~l~~L~L~~n~---l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L   85 (306)
T 2z66_A           10 TEIRCNSKGLTSVPTGIP-SSATRLELESNK---LQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDL   85 (306)
T ss_dssp             TEEECCSSCCSSCCSCCC-TTCCEEECCSSC---CCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEEC
T ss_pred             CEEEcCCCCcccCCCCCC-CCCCEEECCCCc---cCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEEC
Confidence            356677777777776543 688888888887   6678887788888888888888888765   677778888888888


Q ss_pred             cCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccC
Q 037935          572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDD  636 (1085)
Q Consensus       572 s~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  636 (1085)
                      ++| .+..+|.. +.++++|++|++++|.+...+          ....+..+++|++|++++|.+
T Consensus        86 s~n-~i~~l~~~-~~~l~~L~~L~l~~n~l~~~~----------~~~~~~~l~~L~~L~l~~n~l  138 (306)
T 2z66_A           86 SFN-GVITMSSN-FLGLEQLEHLDFQHSNLKQMS----------EFSVFLSLRNLIYLDISHTHT  138 (306)
T ss_dssp             CSC-SEEEEEEE-EETCTTCCEEECTTSEEESST----------TTTTTTTCTTCCEEECTTSCC
T ss_pred             CCC-ccccChhh-cCCCCCCCEEECCCCcccccc----------cchhhhhccCCCEEECCCCcC
Confidence            888 88888876 478888888888888763211          113355666666666665544

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.76  E-value=5.1e-19  Score=194.45  Aligned_cols=91  Identities=19%  Similarity=0.200  Sum_probs=66.4

Q ss_pred             ccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcc
Q 037935          529 ELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRK  607 (1085)
Q Consensus       529 ~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~  607 (1085)
                      ....+...+..+++|++|+|++|.++.++ ..++++++|++|++++| .++..++  +.++++|++|++++|.+..    
T Consensus        22 l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~--~~~l~~L~~L~Ls~n~l~~----   94 (317)
T 3o53_A           22 LKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSN-VLYETLD--LESLSTLRTLDLNNNYVQE----   94 (317)
T ss_dssp             HHHHHHHHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTS-CCEEEEE--ETTCTTCCEEECCSSEEEE----
T ss_pred             hhhhHHHHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCC-cCCcchh--hhhcCCCCEEECcCCcccc----
Confidence            44455566777778888888888888765 57888888888888888 7777665  5888888888888887631    


Q ss_pred             cCCccccccHHHhhcCCCCcEEEEEeccCCC
Q 037935          608 GNSERSNASLDELMHLQRLTTLEIDVEDDSI  638 (1085)
Q Consensus       608 ~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  638 (1085)
                                  +...++|++|++++|.+..
T Consensus        95 ------------l~~~~~L~~L~l~~n~l~~  113 (317)
T 3o53_A           95 ------------LLVGPSIETLHAANNNISR  113 (317)
T ss_dssp             ------------EEECTTCCEEECCSSCCSE
T ss_pred             ------------ccCCCCcCEEECCCCccCC
Confidence                        2234677777777776553

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.76  E-value=7.1e-20  Score=213.90  Aligned_cols=372  Identities=15%  Similarity=0.061  Sum_probs=190.0

Q ss_pred             CCcceEEEecCCcccCCc--hhhhccccccEEeccCcccccc-----cchhhhhccccCCEEeccCCCcchhhcccCCcc
Q 037935          540 MKKLRVVDLTRVRLFSLP--SSIGQLTKLRMLDLTDCLQLKF-----IVPNILSSFTRLEELYMGSCSIKWEVRKGNSER  612 (1085)
Q Consensus       540 l~~Lr~L~Ls~~~i~~lp--~~i~~L~~L~~L~Ls~~~~l~~-----lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~  612 (1085)
                      .++|++|+|+++.++..+  ..+..+++|++|++++| .++.     ++.. +..+++|++|++++|.+.          
T Consensus         2 ~~~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~-~l~~~~~~~l~~~-l~~~~~L~~L~Ls~n~l~----------   69 (461)
T 1z7x_W            2 SLDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDC-GLTEARCKDISSA-LRVNPALAELNLRSNELG----------   69 (461)
T ss_dssp             CEEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESS-CCCHHHHHHHHHH-HHTCTTCCEEECTTCCCH----------
T ss_pred             CccceehhhhhcccCchhHHHHHhhcCCccEEEccCC-CCCHHHHHHHHHH-HHhCCCcCEEeCCCCcCC----------
Confidence            357999999999987754  34789999999999999 7773     4444 588899999999999873          


Q ss_pred             ccccHHHh-hcCC----CCcEEEEEeccCCCC-----CCcc-cccccceeeEEecCCCccccccccccccccccccccee
Q 037935          613 SNASLDEL-MHLQ----RLTTLEIDVEDDSIL-----PDGL-FTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYI  681 (1085)
Q Consensus       613 ~~~~~~~l-~~L~----~L~~L~l~~~~~~~~-----~~~~-~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l  681 (1085)
                       ...+..+ ..++    +|++|++++|.+...     +..+ .+++|+.|+++.+.-                  ....+
T Consensus        70 -~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i------------------~~~~~  130 (461)
T 1z7x_W           70 -DVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLL------------------GDAGL  130 (461)
T ss_dssp             -HHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBC------------------HHHHH
T ss_pred             -hHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcC------------------chHHH
Confidence             2223333 3355    699999998877632     2222 455566665542210                  00000


Q ss_pred             ehhhhhhcccccccccccccCCCCC-cccccccccEEEEcCCCCCcccc--chhhHhhcccccEEEeccccchHHHhccC
Q 037935          682 FCIVMALELNAINVDEIWHYNQLPA-MVPCFQSLTRLIVWGCDKLKYIF--SASTIQSLEQLQHLEIRLCKSLQEIISEN  758 (1085)
Q Consensus       682 ~~~~~~~~L~~l~L~~~~~~~~~p~-~~~~l~~L~~L~L~~~~~l~~l~--~~~~l~~l~~L~~L~l~~~~~l~~i~~~~  758 (1085)
                      ..                    +.. .....++|++|++++|.......  -...+..+++|++|++++|. +.......
T Consensus       131 ~~--------------------l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~~  189 (461)
T 1z7x_W          131 QL--------------------LCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNND-INEAGVRV  189 (461)
T ss_dssp             HH--------------------HHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSB-CHHHHHHH
T ss_pred             HH--------------------HHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCC-cchHHHHH
Confidence            00                    000 01123457777776664322110  02234556677777776665 22211100


Q ss_pred             CcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCcc
Q 037935          759 RTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNL  838 (1085)
Q Consensus       759 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L  838 (1085)
                      ....  .....++|++|++++                          |..-.. +           ...+......+++|
T Consensus       190 l~~~--l~~~~~~L~~L~L~~--------------------------n~l~~~-~-----------~~~l~~~l~~~~~L  229 (461)
T 1z7x_W          190 LCQG--LKDSPCQLEALKLES--------------------------CGVTSD-N-----------CRDLCGIVASKASL  229 (461)
T ss_dssp             HHHH--HHHSCCCCCEEECTT--------------------------SCCBTT-H-----------HHHHHHHHHHCTTC
T ss_pred             HHHH--HhcCCCCceEEEccC--------------------------CCCcHH-H-----------HHHHHHHHHhCCCc
Confidence            0000  000123455555544                          421110 0           00011122345777


Q ss_pred             ceeeeccCCceeeecccCCc---CccCCceEEEecCCcccccc----hhHHhhccccceEEeecccccEEEecCCccccc
Q 037935          839 EGLALSGKDITMILQDDFPQ---HLFGSLKQLRVGDDDLACFP----LDLLERFHNLEFLYLSDCSYEVVFSNEGYLETH  911 (1085)
Q Consensus       839 ~~L~ls~n~l~~~~~~~~~~---~~~~~L~~L~l~~n~l~~~~----~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~  911 (1085)
                      ++|++++|.+++.....+..   ..+++|++|++++|.++...    ...+..+++|+.|++++|.+...... .+....
T Consensus       230 ~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~-~l~~~l  308 (461)
T 1z7x_W          230 RELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGAR-LLCETL  308 (461)
T ss_dssp             CEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHH-HHHHHH
T ss_pred             cEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHH-HHHHHh
Confidence            77777777765432111110   11567777777777776632    23345677777777777775432100 000000


Q ss_pred             cccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCccc-----ccCccEEEeccccCcccc
Q 037935          912 ARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVS-----FRNLTRLETFACKKLMNL  986 (1085)
Q Consensus       912 l~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~-----l~~L~~L~l~~c~~L~~l  986 (1085)
                      ....++|+.|++++|. ++.............+++|+.|++++| .+....+..+..     .++|++|++++|. +++.
T Consensus       309 ~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-i~~~  385 (461)
T 1z7x_W          309 LEPGCQLESLWVKSCS-FTAACCSHFSSVLAQNRFLLELQISNN-RLEDAGVRELCQGLGQPGSVLRVLWLADCD-VSDS  385 (461)
T ss_dssp             TSTTCCCCEEECTTSC-CBGGGHHHHHHHHHHCSSCCEEECCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CCHH
T ss_pred             ccCCccceeeEcCCCC-CchHHHHHHHHHHhhCCCccEEEccCC-ccccccHHHHHHHHcCCCCceEEEECCCCC-CChh
Confidence            0112467777777653 332211001111123466777777766 333221111111     4577777777763 5531


Q ss_pred             ---cchhhhhhcccccEEEEcCCc
Q 037935          987 ---LTSSKAKSLERLVSLRIFGCP 1007 (1085)
Q Consensus       987 ---~~~~~~~~l~~L~~L~i~~c~ 1007 (1085)
                         ..+..+..+++|++|++++|+
T Consensus       386 ~~~~l~~~l~~~~~L~~L~l~~N~  409 (461)
T 1z7x_W          386 SCSSLAATLLANHSLRELDLSNNC  409 (461)
T ss_dssp             HHHHHHHHHHHCCCCCEEECCSSS
T ss_pred             hHHHHHHHHHhCCCccEEECCCCC
Confidence               013344567777788877764

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.74  E-value=1.1e-18  Score=191.81  Aligned_cols=104  Identities=16%  Similarity=0.157  Sum_probs=86.5

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccC
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL  591 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L  591 (1085)
                      .+++|+.|++++|.   +..+++..|.++++|++|+|++|.++.++. ++.+++|++|++++| .++.+|.     +++|
T Consensus        32 ~~~~L~~L~L~~n~---l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~n-~l~~l~~-----~~~L  101 (317)
T 3o53_A           32 SAWNVKELDLSGNP---LSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNN-YVQELLV-----GPSI  101 (317)
T ss_dssp             TGGGCSEEECTTSC---CCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECCSS-EEEEEEE-----CTTC
T ss_pred             cCCCCCEEECcCCc---cCcCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECcCC-ccccccC-----CCCc
Confidence            56799999999997   677887889999999999999999988775 999999999999999 8888764     4899


Q ss_pred             CEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC
Q 037935          592 EELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL  639 (1085)
Q Consensus       592 ~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  639 (1085)
                      ++|++++|.+...+.              ..+++|++|++++|.+..+
T Consensus       102 ~~L~l~~n~l~~~~~--------------~~~~~L~~L~l~~N~l~~~  135 (317)
T 3o53_A          102 ETLHAANNNISRVSC--------------SRGQGKKNIYLANNKITML  135 (317)
T ss_dssp             CEEECCSSCCSEEEE--------------CCCSSCEEEECCSSCCCSG
T ss_pred             CEEECCCCccCCcCc--------------cccCCCCEEECCCCCCCCc
Confidence            999999999843221              2357788888888876643

>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}

Probab=99.73  E-value=2e-17  Score=181.10  Aligned_cols=143  Identities=16%  Similarity=0.138  Sum_probs=115.0

Q ss_pred             ecCccccCCCccccccceEEEeeccCccccccc--CCCCCcceeeeccCCCcccccc---ChhhhcCCCcceEEEecCCc
Q 037935          478 RNDAVWEWPDGDALKKCYAISLLNSSIHEVSLE--FECPQLEFLHIDPKITFAELNI---PDNFFKGMKKLRVVDLTRVR  552 (1085)
Q Consensus       478 ~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l---~~~~~~~l~~Lr~L~Ls~~~  552 (1085)
                      .+..+...|. ..+.++++|++++|.+..++..  ..+++|++|++.+|.   +..+   +.. +..+++|++|++++|.
T Consensus        15 ~~~~l~~ip~-~~~~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~---l~~~~~~~~~-~~~~~~L~~L~Ls~n~   89 (306)
T 2z66_A           15 NSKGLTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNG---LSFKGCCSQS-DFGTTSLKYLDLSFNG   89 (306)
T ss_dssp             CSSCCSSCCS-CCCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC---CCEEEEEEHH-HHSCSCCCEEECCSCS
T ss_pred             CCCCcccCCC-CCCCCCCEEECCCCccCccCHhHhhccccCCEEECCCCc---cCcccCcccc-cccccccCEEECCCCc
Confidence            3344444443 4567899999999999999874  389999999999987   3333   443 5679999999999999


Q ss_pred             ccCCchhhhccccccEEeccCcccccccch-hhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEE
Q 037935          553 LFSLPSSIGQLTKLRMLDLTDCLQLKFIVP-NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEI  631 (1085)
Q Consensus       553 i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~-~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l  631 (1085)
                      +..+|..+..+++|++|++++| .++.++. ..+.++++|++|++++|.+.           ...+..+..+++|++|++
T Consensus        90 i~~l~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~l~~n~l~-----------~~~~~~~~~l~~L~~L~l  157 (306)
T 2z66_A           90 VITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTHTR-----------VAFNGIFNGLSSLEVLKM  157 (306)
T ss_dssp             EEEEEEEEETCTTCCEEECTTS-EEESSTTTTTTTTCTTCCEEECTTSCCE-----------ECSTTTTTTCTTCCEEEC
T ss_pred             cccChhhcCCCCCCCEEECCCC-cccccccchhhhhccCCCEEECCCCcCC-----------ccchhhcccCcCCCEEEC
Confidence            9999999999999999999999 9998876 55799999999999999873           333455777888888888


Q ss_pred             EeccCC
Q 037935          632 DVEDDS  637 (1085)
Q Consensus       632 ~~~~~~  637 (1085)
                      ++|.+.
T Consensus       158 ~~n~l~  163 (306)
T 2z66_A          158 AGNSFQ  163 (306)
T ss_dssp             TTCEEG
T ss_pred             CCCccc
Confidence            777543

>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*

Probab=99.72  E-value=1.3e-17  Score=180.45  Aligned_cols=219  Identities=17%  Similarity=0.194  Sum_probs=104.4

Q ss_pred             EEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEeccCc
Q 037935          496 AISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDC  574 (1085)
Q Consensus       496 ~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~~  574 (1085)
                      .++..++.+..+|... .++|++|++.+|.   +..++...|.++++|++|++++|.++.+ |..++++++|++|++++|
T Consensus        15 ~~~c~~~~l~~ip~~~-~~~l~~L~l~~n~---i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n   90 (285)
T 1ozn_A           15 TTSCPQQGLQAVPVGI-PAASQRIFLHGNR---ISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN   90 (285)
T ss_dssp             EEECCSSCCSSCCTTC-CTTCSEEECTTSC---CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSC
T ss_pred             EEEcCcCCcccCCcCC-CCCceEEEeeCCc---CCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCC
Confidence            3444444444444332 2455555555554   3444444455555555555555555544 344555555555555555


Q ss_pred             ccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--cccccceee
Q 037935          575 LQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLERFD  652 (1085)
Q Consensus       575 ~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~L~  652 (1085)
                      ..++.+++..+.++++|++|++++|.+.           ...+..+.++++|++|++++|.+..++...  .+++|+.|+
T Consensus        91 ~~l~~~~~~~~~~l~~L~~L~l~~n~l~-----------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  159 (285)
T 1ozn_A           91 AQLRSVDPATFHGLGRLHTLHLDRCGLQ-----------ELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLF  159 (285)
T ss_dssp             TTCCCCCTTTTTTCTTCCEEECTTSCCC-----------CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCccccCHHHhcCCcCCCEEECCCCcCC-----------EECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEE
Confidence            2255544333455555555555555542           112233444555555555555555444332  344455544


Q ss_pred             EEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchh
Q 037935          653 ISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSAS  732 (1085)
Q Consensus       653 l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~  732 (1085)
                      ++.+.                  +.......+..+..|+.+++..+......|.++..+++|+.|++++|.. ..+ +..
T Consensus       160 l~~n~------------------l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l-~~~-~~~  219 (285)
T 1ozn_A          160 LHGNR------------------ISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNL-SAL-PTE  219 (285)
T ss_dssp             CCSSC------------------CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC-SCC-CHH
T ss_pred             CCCCc------------------ccccCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCCCCcC-CcC-CHH
Confidence            43211                  0000000011112223333333333334456666777777777777643 333 234


Q ss_pred             hHhhcccccEEEecccc
Q 037935          733 TIQSLEQLQHLEIRLCK  749 (1085)
Q Consensus       733 ~l~~l~~L~~L~l~~~~  749 (1085)
                      .+..+++|+.|++++|+
T Consensus       220 ~~~~l~~L~~L~l~~N~  236 (285)
T 1ozn_A          220 ALAPLRALQYLRLNDNP  236 (285)
T ss_dssp             HHTTCTTCCEEECCSSC
T ss_pred             HcccCcccCEEeccCCC
Confidence            56777777777777775

>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*

Probab=99.69  E-value=3.4e-16  Score=169.27  Aligned_cols=64  Identities=23%  Similarity=0.416  Sum_probs=53.8

Q ss_pred             cCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeeccccc
Q 037935          834 ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYE  899 (1085)
Q Consensus       834 ~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~  899 (1085)
                      .+++|++|++++|.++...+..+..  +++|+.|++++|.++.++...+..+++|+.|++++|++.
T Consensus       175 ~l~~L~~L~l~~n~l~~~~~~~~~~--l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~  238 (285)
T 1ozn_A          175 GLHSLDRLLLHQNRVAHVHPHAFRD--LGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWV  238 (285)
T ss_dssp             TCTTCCEEECCSSCCCEECTTTTTT--CTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             CccccCEEECCCCcccccCHhHccC--cccccEeeCCCCcCCcCCHHHcccCcccCEEeccCCCcc
Confidence            3678888899998888877766665  789999999999999988888888999999999999854

>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*

Probab=99.68  E-value=2e-16  Score=170.26  Aligned_cols=57  Identities=23%  Similarity=0.434  Sum_probs=43.8

Q ss_pred             eeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeeccccc
Q 037935          840 GLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYE  899 (1085)
Q Consensus       840 ~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~  899 (1085)
                      .|++++|.++.+.+..+..   .+|++|++++|.++.++...+..+++|+.|++++|++.
T Consensus       181 ~L~ls~n~l~~~~~~~~~~---~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~  237 (276)
T 2z62_A          181 SLDLSLNPMNFIQPGAFKE---IRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWD  237 (276)
T ss_dssp             EEECCSSCCCEECTTSSCS---CCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSSCBC
T ss_pred             eeecCCCcccccCccccCC---CcccEEECCCCceeecCHhHhcccccccEEEccCCccc
Confidence            5677777777766655543   47888888888888888777788888899999888854

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.68  E-value=1.1e-17  Score=183.24  Aligned_cols=58  Identities=17%  Similarity=0.181  Sum_probs=39.7

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeeccccc
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYE  899 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~  899 (1085)
                      +++|++|++++|.++.++.. +    +++|++|++++|+++.+|.  +..+++|+.|++++|+++
T Consensus       252 l~~L~~L~Ls~N~l~~ip~~-~----~~~L~~L~Ls~N~l~~~p~--~~~l~~L~~L~L~~N~l~  309 (312)
T 1wwl_A          252 PSQLNSLNLSFTGLKQVPKG-L----PAKLSVLDLSYNRLDRNPS--PDELPQVGNLSLKGNPFL  309 (312)
T ss_dssp             CTTCCEEECTTSCCSSCCSS-C----CSEEEEEECCSSCCCSCCC--TTTSCEEEEEECTTCTTT
T ss_pred             cCCCCEEECCCCccChhhhh-c----cCCceEEECCCCCCCCChh--HhhCCCCCEEeccCCCCC
Confidence            56777777777777644332 1    2577777777777777754  567777777777777754

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.67  E-value=1.5e-16  Score=185.03  Aligned_cols=57  Identities=23%  Similarity=0.362  Sum_probs=29.9

Q ss_pred             cceEEEecCCcccCCc-hhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCc
Q 037935          542 KLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       542 ~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      +|++|+|++|.++.+| ..|+++++|++|+|++| .++..++  ++++++|++|++++|.+
T Consensus        35 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~--l~~l~~L~~L~Ls~N~l   92 (487)
T 3oja_A           35 NVKELDLSGNPLSQISAADLAPFTKLELLNLSSN-VLYETLD--LESLSTLRTLDLNNNYV   92 (487)
T ss_dssp             GCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTS-CCEEEEE--CTTCTTCCEEECCSSEE
T ss_pred             CccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCC-CCCCCcc--cccCCCCCEEEecCCcC
Confidence            4555555555555542 34555555555555555 4544443  35555555555555544

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.66  E-value=6.7e-16  Score=165.21  Aligned_cols=197  Identities=19%  Similarity=0.264  Sum_probs=149.5

Q ss_pred             cceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchh-hhccccccEEec
Q 037935          493 KCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS-IGQLTKLRMLDL  571 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~L  571 (1085)
                      ..+.++++++.+..+|..+. ++++.|++.+|.   +..++...|.++++|++|++++|.++.+|.. +.++++|++|++
T Consensus        17 ~~~~l~~~~~~l~~ip~~~~-~~l~~L~l~~n~---l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l   92 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSNIP-ADTKKLDLQSNK---LSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWV   92 (270)
T ss_dssp             TTTEEECTTSCCSSCCSCCC-TTCSEEECCSSC---CSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEEC
T ss_pred             CCCEEEccCCCCCccCCCCC-CCCCEEECcCCC---CCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEEC
Confidence            46788999999998887653 789999999987   6778877799999999999999999998765 488999999999


Q ss_pred             cCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--cccccc
Q 037935          572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLE  649 (1085)
Q Consensus       572 s~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~  649 (1085)
                      ++| .++.+|...|.++++|++|++++|.+.           ...+..+..+++|++|++++|.+..++...  .+++|+
T Consensus        93 ~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~-----------~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  160 (270)
T 2o6q_A           93 TDN-KLQALPIGVFDQLVNLAELRLDRNQLK-----------SLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLK  160 (270)
T ss_dssp             CSS-CCCCCCTTTTTTCSSCCEEECCSSCCC-----------CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             CCC-cCCcCCHhHcccccCCCEEECCCCccC-----------eeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccc
Confidence            999 899999888899999999999999884           233445788999999999999888877653  566666


Q ss_pred             eeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCcccc
Q 037935          650 RFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIF  729 (1085)
Q Consensus       650 ~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~  729 (1085)
                      .|+++.+.                                          .....+..+..+++|+.|++++|. +..++
T Consensus       161 ~L~L~~n~------------------------------------------l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~  197 (270)
T 2o6q_A          161 ELRLYNNQ------------------------------------------LKRVPEGAFDKLTELKTLKLDNNQ-LKRVP  197 (270)
T ss_dssp             EEECCSSC------------------------------------------CSCCCTTTTTTCTTCCEEECCSSC-CSCCC
T ss_pred             eeEecCCc------------------------------------------CcEeChhHhccCCCcCEEECCCCc-CCcCC
Confidence            66654221                                          111122345566777788887763 44442


Q ss_pred             chhhHhhcccccEEEecccc
Q 037935          730 SASTIQSLEQLQHLEIRLCK  749 (1085)
Q Consensus       730 ~~~~l~~l~~L~~L~l~~~~  749 (1085)
                       ...+..+++|+.|++++|+
T Consensus       198 -~~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          198 -EGAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             -TTTTTTCTTCCEEECCSSC
T ss_pred             -HHHhccccCCCEEEecCCC
Confidence             3446677777777777765

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.65  E-value=4e-16  Score=181.53  Aligned_cols=81  Identities=19%  Similarity=0.224  Sum_probs=62.6

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccC
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL  591 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L  591 (1085)
                      .+++|++|++++|.   +..+++..|.++++|++|+|++|.++..++ ++.+++|++|+|++| .++.+|.     .++|
T Consensus        32 ~~~~L~~L~Ls~n~---l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N-~l~~l~~-----~~~L  101 (487)
T 3oja_A           32 SAWNVKELDLSGNP---LSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNN-YVQELLV-----GPSI  101 (487)
T ss_dssp             TGGGCCEEECCSSC---CCCCCGGGGTTCTTCCEEECTTSCCEEEEE-CTTCTTCCEEECCSS-EEEEEEE-----CTTC
T ss_pred             cCCCccEEEeeCCc---CCCCCHHHHhCCCCCCEEEeeCCCCCCCcc-cccCCCCCEEEecCC-cCCCCCC-----CCCc
Confidence            34578888888886   566776678888888888888888877654 788888888888888 7877764     2678


Q ss_pred             CEEeccCCCcc
Q 037935          592 EELYMGSCSIK  602 (1085)
Q Consensus       592 ~~L~L~~~~~~  602 (1085)
                      ++|++++|.+.
T Consensus       102 ~~L~L~~N~l~  112 (487)
T 3oja_A          102 ETLHAANNNIS  112 (487)
T ss_dssp             CEEECCSSCCC
T ss_pred             CEEECcCCcCC
Confidence            88888888773

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.62  E-value=1.9e-15  Score=161.78  Aligned_cols=62  Identities=21%  Similarity=0.442  Sum_probs=40.4

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccc
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSY  898 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l  898 (1085)
                      +++|++|++++|.++.+++..|..  +++|++|++++|.++.++...+..+++|+.|++++|++
T Consensus       156 l~~L~~L~L~~n~l~~~~~~~~~~--l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          156 LTSLKELRLYNNQLKRVPEGAFDK--LTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             CTTCCEEECCSSCCSCCCTTTTTT--CTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             CcccceeEecCCcCcEeChhHhcc--CCCcCEEECCCCcCCcCCHHHhccccCCCEEEecCCCe
Confidence            455666666666655555544443  56677777777777777666666777777777777764

>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

Probab=99.61  E-value=2.2e-15  Score=164.27  Aligned_cols=60  Identities=17%  Similarity=0.233  Sum_probs=38.7

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccE
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEV  900 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~  900 (1085)
                      +++|+.|++++|.+++..+  +..  +++|++|++++|.++.+++  +..+++|+.|++++|+++.
T Consensus       172 l~~L~~L~l~~n~l~~~~~--l~~--l~~L~~L~L~~N~l~~~~~--l~~l~~L~~L~l~~N~i~~  231 (308)
T 1h6u_A          172 LSKLTTLKADDNKISDISP--LAS--LPNLIEVHLKNNQISDVSP--LANTSNLFIVTLTNQTITN  231 (308)
T ss_dssp             CTTCCEEECCSSCCCCCGG--GGG--CTTCCEEECTTSCCCBCGG--GTTCTTCCEEEEEEEEEEC
T ss_pred             CCCCCEEECCCCccCcChh--hcC--CCCCCEEEccCCccCcccc--ccCCCCCCEEEccCCeeec
Confidence            4556666666666555433  222  5677777777777776663  5677788888888877654

>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*

Probab=99.61  E-value=2.4e-15  Score=157.72  Aligned_cols=202  Identities=15%  Similarity=0.128  Sum_probs=155.1

Q ss_pred             CccceeeeccCCceeeecccCCcCccCCceEEEecCCc-ccccchhHHhhccccceEEeec-ccccEEEecCCccccccc
Q 037935          836 PNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDD-LACFPLDLLERFHNLEFLYLSD-CSYEVVFSNEGYLETHAR  913 (1085)
Q Consensus       836 ~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~-~~l~~~~~~~~~~~~~l~  913 (1085)
                      ++|++|++++|.++.+++..|..  +++|++|++++|. ++.++...|..+++|+.|++++ |.++.+++      ..+.
T Consensus        31 ~~l~~L~l~~n~l~~i~~~~~~~--l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~------~~f~  102 (239)
T 2xwt_C           31 PSTQTLKLIETHLRTIPSHAFSN--LPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDP------DALK  102 (239)
T ss_dssp             TTCCEEEEESCCCSEECTTTTTT--CTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECT------TSEE
T ss_pred             CcccEEEEeCCcceEECHHHccC--CCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCH------HHhC
Confidence            58999999999999888777765  7999999999886 8998887888899999999998 77887642      3456


Q ss_pred             cccccceeccCCcccccccccCCCchhhhHhhhhc---eeeeeccccccccCCCCcccccCcc-EEEeccccCcccccch
Q 037935          914 KLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQ---ILRVLHCQNLLSLLPSSSVSFRNLT-RLETFACKKLMNLLTS  989 (1085)
Q Consensus       914 ~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~---~L~i~~c~~l~~~~~~~l~~l~~L~-~L~l~~c~~L~~l~~~  989 (1085)
                      .+++|+.|++++ +.++.++.  +    ..+++|+   .|++++|+.+..+++..+..+++|+ +|+++++ +++.++ .
T Consensus       103 ~l~~L~~L~l~~-n~l~~lp~--~----~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n-~l~~i~-~  173 (239)
T 2xwt_C          103 ELPLLKFLGIFN-TGLKMFPD--L----TKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNN-GFTSVQ-G  173 (239)
T ss_dssp             CCTTCCEEEEEE-ECCCSCCC--C----TTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSC-CCCEEC-T
T ss_pred             CCCCCCEEeCCC-CCCccccc--c----ccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCC-CCcccC-H
Confidence            688899999988 45666654  1    2456676   9999998788888887788899999 9999875 577663 3


Q ss_pred             hhhhhcccccEEEEcCCcccccccccccccccccccceee-ccccccccccccccceecCCCccccCCCcCceeeccCCC
Q 037935          990 SKAKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVF-SKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPK 1068 (1085)
Q Consensus       990 ~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~-~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~ 1068 (1085)
                      ..+.. ++|++|++++|++++.++...         ...+ ++|+.|++++ +.++.+|..    .+++|+.|++.+|+.
T Consensus       174 ~~~~~-~~L~~L~L~~n~~l~~i~~~~---------~~~l~~~L~~L~l~~-N~l~~l~~~----~~~~L~~L~l~~~~~  238 (239)
T 2xwt_C          174 YAFNG-TKLDAVYLNKNKYLTVIDKDA---------FGGVYSGPSLLDVSQ-TSVTALPSK----GLEHLKELIARNTWT  238 (239)
T ss_dssp             TTTTT-CEEEEEECTTCTTCCEECTTT---------TTTCSBCCSEEECTT-CCCCCCCCT----TCTTCSEEECTTC--
T ss_pred             hhcCC-CCCCEEEcCCCCCcccCCHHH---------hhccccCCcEEECCC-CccccCChh----HhccCceeeccCccC
Confidence            33444 789999999987677764411         1125 8899999998 457888765    478999999999876


Q ss_pred             c
Q 037935         1069 M 1069 (1085)
Q Consensus      1069 l 1069 (1085)
                      |
T Consensus       239 l  239 (239)
T 2xwt_C          239 L  239 (239)
T ss_dssp             -
T ss_pred             C
Confidence            4

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.60  E-value=2.7e-15  Score=167.12  Aligned_cols=100  Identities=19%  Similarity=0.129  Sum_probs=74.5

Q ss_pred             CccceeeeccCCceeeecccCCcCccCCceEEEec-CCcccccchhHHhhccccceEEeecccccEEEecCCcccccccc
Q 037935          836 PNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVG-DDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARK  914 (1085)
Q Consensus       836 ~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~-~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~  914 (1085)
                      ..++.|++++|.++.++...|.   ..+|++|+++ +|.++.+|...|..+++|+.|++++|+++.++..         .
T Consensus       154 ~~l~~L~L~~N~i~~i~~~~f~---~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~---------~  221 (350)
T 4ay9_X          154 FESVILWLNKNGIQEIHNSAFN---GTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSY---------G  221 (350)
T ss_dssp             SSCEEEECCSSCCCEECTTSST---TEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSS---------S
T ss_pred             hhhhhhccccccccCCChhhcc---ccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChh---------h
Confidence            5688899999999988877665   4789999997 7899999988899999999999999998876531         1


Q ss_pred             ccccceeccCCcccccccccCCCchhhhHhhhhceeeee
Q 037935          915 LALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVL  953 (1085)
Q Consensus       915 l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~  953 (1085)
                      +.+|+.|.+.++++++.++.-      ..+++|+.+++.
T Consensus       222 ~~~L~~L~~l~~~~l~~lP~l------~~l~~L~~l~l~  254 (350)
T 4ay9_X          222 LENLKKLRARSTYNLKKLPTL------EKLVALMEASLT  254 (350)
T ss_dssp             CTTCCEEECTTCTTCCCCCCT------TTCCSCCEEECS
T ss_pred             hccchHhhhccCCCcCcCCCc------hhCcChhhCcCC
Confidence            345666666666666666531      135566666654

>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*

Probab=99.60  E-value=1.7e-15  Score=158.97  Aligned_cols=134  Identities=19%  Similarity=0.208  Sum_probs=94.2

Q ss_pred             ccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCc-ccCCch-hhhccccccEEeccC-cccc
Q 037935          501 NSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVR-LFSLPS-SIGQLTKLRMLDLTD-CLQL  577 (1085)
Q Consensus       501 ~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~-i~~lp~-~i~~L~~L~~L~Ls~-~~~l  577 (1085)
                      ...+..+|. + .++|+.|++.+|.   +..++...|.++++|++|++++|. ++.+|. .+.++++|++|++++ | .+
T Consensus        20 c~~l~~ip~-~-~~~l~~L~l~~n~---l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n-~l   93 (239)
T 2xwt_C           20 CKDIQRIPS-L-PPSTQTLKLIETH---LRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTR-NL   93 (239)
T ss_dssp             ECSCSSCCC-C-CTTCCEEEEESCC---CSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEET-TC
T ss_pred             ccCccccCC-C-CCcccEEEEeCCc---ceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCC-Ce
Confidence            334666666 2 3578888888876   667777778888888888888886 777764 677888888888887 6 88


Q ss_pred             cccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCc---EEEEEec-cCCCCCCcc--cccccc-e
Q 037935          578 KFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLT---TLEIDVE-DDSILPDGL--FTKKLE-R  650 (1085)
Q Consensus       578 ~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~---~L~l~~~-~~~~~~~~~--~l~~L~-~  650 (1085)
                      +.+|+..|.++++|++|++++|.+...            +. +..+++|+   +|++++| .+..++...  .+++|+ .
T Consensus        94 ~~i~~~~f~~l~~L~~L~l~~n~l~~l------------p~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~  160 (239)
T 2xwt_C           94 TYIDPDALKELPLLKFLGIFNTGLKMF------------PD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLT  160 (239)
T ss_dssp             CEECTTSEECCTTCCEEEEEEECCCSC------------CC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEE
T ss_pred             eEcCHHHhCCCCCCCEEeCCCCCCccc------------cc-cccccccccccEEECCCCcchhhcCcccccchhcceeE
Confidence            888877678888888888888876321            11 45555665   8888887 776666542  444555 5


Q ss_pred             eeE
Q 037935          651 FDI  653 (1085)
Q Consensus       651 L~l  653 (1085)
                      |++
T Consensus       161 L~l  163 (239)
T 2xwt_C          161 LKL  163 (239)
T ss_dssp             EEC
T ss_pred             EEc
Confidence            544

>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*

Probab=99.59  E-value=4.2e-15  Score=159.83  Aligned_cols=205  Identities=15%  Similarity=0.115  Sum_probs=130.6

Q ss_pred             ccccceEEEeeccCcccccc--cCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccc
Q 037935          490 ALKKCYAISLLNSSIHEVSL--EFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKL  566 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L  566 (1085)
                      .+..+++|++++|.+..++.  ...+++|++|++.+|.   +..++...|.++++|++|++++|.++.++ ..+.++++|
T Consensus        26 l~~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~---l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  102 (276)
T 2z62_A           26 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE---IQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSL  102 (276)
T ss_dssp             SCTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCC---CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTC
T ss_pred             CCCCccEEECCCCcccccCHhHhccccCCcEEECCCCc---CCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccc
Confidence            34567777887777777664  2367777788777775   55666666777777888888877777754 567777778


Q ss_pred             cEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--c
Q 037935          567 RMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--F  644 (1085)
Q Consensus       567 ~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~  644 (1085)
                      ++|++++| .+..++...++++++|++|++++|.+..          ...+..+.++++|++|++++|.+..++...  .
T Consensus       103 ~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~----------~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  171 (276)
T 2z62_A          103 QKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQS----------FKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRV  171 (276)
T ss_dssp             CEEECTTS-CCCCSTTCCCTTCTTCCEEECCSSCCCC----------CCCCGGGGGCTTCCEEECCSSCCCEECGGGGHH
T ss_pred             cEEECCCC-CccccCchhcccCCCCCEEECcCCccce----------ecCchhhccCCCCCEEECCCCCCCcCCHHHhhh
Confidence            88888777 7777766446777778888877777631          113456677777777777777776655432  3


Q ss_pred             ccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCC
Q 037935          645 TKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDK  724 (1085)
Q Consensus       645 l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~  724 (1085)
                      +.+|+.+.+                                      .+++..+.... +|.......+|+.|++++|. 
T Consensus       172 l~~L~~l~l--------------------------------------~L~ls~n~l~~-~~~~~~~~~~L~~L~L~~n~-  211 (276)
T 2z62_A          172 LHQMPLLNL--------------------------------------SLDLSLNPMNF-IQPGAFKEIRLKELALDTNQ-  211 (276)
T ss_dssp             HHTCTTCCE--------------------------------------EEECCSSCCCE-ECTTSSCSCCEEEEECCSSC-
T ss_pred             hhhccccce--------------------------------------eeecCCCcccc-cCccccCCCcccEEECCCCc-
Confidence            344442211                                      11122221111 22222233478888888865 


Q ss_pred             CccccchhhHhhcccccEEEecccc
Q 037935          725 LKYIFSASTIQSLEQLQHLEIRLCK  749 (1085)
Q Consensus       725 l~~l~~~~~l~~l~~L~~L~l~~~~  749 (1085)
                      ++.++ ...+..+++|+.|++++|+
T Consensus       212 l~~~~-~~~~~~l~~L~~L~l~~N~  235 (276)
T 2z62_A          212 LKSVP-DGIFDRLTSLQKIWLHTNP  235 (276)
T ss_dssp             CSCCC-TTTTTTCCSCCEEECCSSC
T ss_pred             eeecC-HhHhcccccccEEEccCCc
Confidence            45543 3456788888888888776

>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

Probab=99.59  E-value=1e-14  Score=158.99  Aligned_cols=143  Identities=21%  Similarity=0.252  Sum_probs=110.7

Q ss_pred             ccccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEE
Q 037935          490 ALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRML  569 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L  569 (1085)
                      ...++++|++.++.+..++....+++|++|++++|.   +..++.  |.++++|++|++++|.++.+| .+..+++|++|
T Consensus        39 ~l~~L~~L~l~~~~i~~l~~~~~l~~L~~L~L~~n~---i~~~~~--~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L  112 (308)
T 1h6u_A           39 DLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQ---ITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTL  112 (308)
T ss_dssp             HHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC---CCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEE
T ss_pred             HcCCcCEEEeeCCCccCchhhhccCCCCEEEccCCc---CCCChh--HccCCCCCEEEccCCcCCCch-hhcCCCCCCEE
Confidence            355788899988888888766678889999998886   566665  788889999999999888876 68888999999


Q ss_pred             eccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccc
Q 037935          570 DLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLE  649 (1085)
Q Consensus       570 ~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~  649 (1085)
                      ++++| .++.+|.  +.++++|++|++++|.+..             ...+..+++|++|++++|.+..++.-..+++|+
T Consensus       113 ~l~~n-~l~~~~~--l~~l~~L~~L~l~~n~l~~-------------~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~  176 (308)
T 1h6u_A          113 DLTST-QITDVTP--LAGLSNLQVLYLDLNQITN-------------ISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLT  176 (308)
T ss_dssp             ECTTS-CCCCCGG--GTTCTTCCEEECCSSCCCC-------------CGGGGGCTTCCEEECCSSCCCCCGGGTTCTTCC
T ss_pred             ECCCC-CCCCchh--hcCCCCCCEEECCCCccCc-------------CccccCCCCccEEEccCCcCCCChhhcCCCCCC
Confidence            99998 8888876  6888999999999888731             122778888888888888877665522455555


Q ss_pred             eeeEE
Q 037935          650 RFDIS  654 (1085)
Q Consensus       650 ~L~l~  654 (1085)
                      .|+++
T Consensus       177 ~L~l~  181 (308)
T 1h6u_A          177 TLKAD  181 (308)
T ss_dssp             EEECC
T ss_pred             EEECC
Confidence            55553

>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

Probab=99.58  E-value=6.1e-16  Score=172.00  Aligned_cols=154  Identities=13%  Similarity=0.149  Sum_probs=109.5

Q ss_pred             CCcceeeeccCCCccccccChhhhcCC--CcceEEEecCCcccCCchhhhccccccEEeccCcccccc--cchhhhhccc
Q 037935          514 PQLEFLHIDPKITFAELNIPDNFFKGM--KKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKF--IVPNILSSFT  589 (1085)
Q Consensus       514 ~~Lr~L~l~~~~~~~~~~l~~~~~~~l--~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~--lp~~~~~~L~  589 (1085)
                      ..++.+++.++..      .+..+..+  +++++|++++|.+...+..+.++++|++|++++| .+..  +|. .+.+++
T Consensus        47 ~~~~~l~l~~~~~------~~~~~~~~~~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~-~l~~~~~~~-~~~~~~  118 (336)
T 2ast_B           47 SLWQTLDLTGKNL------HPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNS-VIEVSTLHG-ILSQCS  118 (336)
T ss_dssp             TTSSEEECTTCBC------CHHHHHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTC-EECHHHHHH-HHTTBC
T ss_pred             hhheeeccccccC------CHHHHHhhhhccceEEEcCCccccccchhhccCCCCCEEEccCC-CcCHHHHHH-HHhhCC
Confidence            3477888887652      24556666  8899999999998887767788999999999998 6764  444 458899


Q ss_pred             cCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEec-cCCCCCCcccccccceeeEEecCCCccccccccc
Q 037935          590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVE-DDSILPDGLFTKKLERFDISIGDGSFDSTKIIGN  668 (1085)
Q Consensus       590 ~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~-~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~  668 (1085)
                      +|++|++++|.+           ....+..+.++++|++|++++| .++..                             
T Consensus       119 ~L~~L~L~~~~l-----------~~~~~~~l~~~~~L~~L~L~~~~~l~~~-----------------------------  158 (336)
T 2ast_B          119 KLQNLSLEGLRL-----------SDPIVNTLAKNSNLVRLNLSGCSGFSEF-----------------------------  158 (336)
T ss_dssp             CCSEEECTTCBC-----------CHHHHHHHTTCTTCSEEECTTCBSCCHH-----------------------------
T ss_pred             CCCEEeCcCccc-----------CHHHHHHHhcCCCCCEEECCCCCCCCHH-----------------------------
Confidence            999999999976           3445667788888888888776 22210                             


Q ss_pred             ccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcc-cccEEEecc
Q 037935          669 DWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLE-QLQHLEIRL  747 (1085)
Q Consensus       669 ~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~-~L~~L~l~~  747 (1085)
                                                        .+|..+..+++|++|++++|..++.......+..++ +|++|++++
T Consensus       159 ----------------------------------~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~  204 (336)
T 2ast_B          159 ----------------------------------ALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSG  204 (336)
T ss_dssp             ----------------------------------HHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCS
T ss_pred             ----------------------------------HHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCC
Confidence                                              011123456788888888884554321134577888 888888888


Q ss_pred             cc
Q 037935          748 CK  749 (1085)
Q Consensus       748 ~~  749 (1085)
                      |.
T Consensus       205 ~~  206 (336)
T 2ast_B          205 YR  206 (336)
T ss_dssp             CG
T ss_pred             Cc
Confidence            85

>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

Probab=99.58  E-value=8.2e-15  Score=157.99  Aligned_cols=196  Identities=18%  Similarity=0.191  Sum_probs=143.3

Q ss_pred             cccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEe
Q 037935          491 LKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLD  570 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~  570 (1085)
                      ..+++.+++.++.++.+|..+. ++++.|++++|.   +..++...|.++++|++|+|++|.++.+|.. +.+++|++|+
T Consensus         9 l~~l~~l~~~~~~l~~ip~~~~-~~l~~L~L~~N~---l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L~   83 (290)
T 1p9a_G            9 VASHLEVNCDKRNLTALPPDLP-KDTTILHLSENL---LYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGTLD   83 (290)
T ss_dssp             STTCCEEECTTSCCSSCCSCCC-TTCCEEECTTSC---CSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCEEE
T ss_pred             cCCccEEECCCCCCCcCCCCCC-CCCCEEEcCCCc---CCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCEEE
Confidence            4467888888888888887653 789999999887   6667767788999999999999999888754 7889999999


Q ss_pred             ccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--ccccc
Q 037935          571 LTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKL  648 (1085)
Q Consensus       571 Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L  648 (1085)
                      +++| .++.+|.. +.++++|++|++++|.+..           ..+..+..+++|++|++++|.+..++...  .+++|
T Consensus        84 Ls~N-~l~~l~~~-~~~l~~L~~L~l~~N~l~~-----------l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L  150 (290)
T 1p9a_G           84 LSHN-QLQSLPLL-GQTLPALTVLDVSFNRLTS-----------LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKL  150 (290)
T ss_dssp             CCSS-CCSSCCCC-TTTCTTCCEEECCSSCCCC-----------CCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTC
T ss_pred             CCCC-cCCcCchh-hccCCCCCEEECCCCcCcc-----------cCHHHHcCCCCCCEEECCCCCCCccChhhcccccCC
Confidence            9999 88888876 4889999999999998842           23345788889999999999888777654  45666


Q ss_pred             ceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccc
Q 037935          649 ERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYI  728 (1085)
Q Consensus       649 ~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l  728 (1085)
                      +.|+++.+.                                          .....+..+..+++|+.|+|++|. ++.+
T Consensus       151 ~~L~L~~N~------------------------------------------l~~l~~~~~~~l~~L~~L~L~~N~-l~~i  187 (290)
T 1p9a_G          151 EKLSLANNN------------------------------------------LTELPAGLLNGLENLDTLLLQENS-LYTI  187 (290)
T ss_dssp             CEEECTTSC------------------------------------------CSCCCTTTTTTCTTCCEEECCSSC-CCCC
T ss_pred             CEEECCCCc------------------------------------------CCccCHHHhcCcCCCCEEECCCCc-CCcc
Confidence            666553221                                          111112234556777777777653 4444


Q ss_pred             cchhhHhhcccccEEEecccc
Q 037935          729 FSASTIQSLEQLQHLEIRLCK  749 (1085)
Q Consensus       729 ~~~~~l~~l~~L~~L~l~~~~  749 (1085)
                      |.  .+..+++|+.|.+.+|+
T Consensus       188 p~--~~~~~~~L~~l~L~~Np  206 (290)
T 1p9a_G          188 PK--GFFGSHLLPFAFLHGNP  206 (290)
T ss_dssp             CT--TTTTTCCCSEEECCSCC
T ss_pred             Ch--hhcccccCCeEEeCCCC
Confidence            32  35556677777777665

>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

Probab=99.57  E-value=9.4e-15  Score=157.49  Aligned_cols=203  Identities=22%  Similarity=0.267  Sum_probs=128.8

Q ss_pred             hcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCcccccc
Q 037935          537 FKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNAS  616 (1085)
Q Consensus       537 ~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~  616 (1085)
                      +.++++|+.+++++++++.+|..+.  +++++|++++| .++.+++..|.++++|++|++++|.+...+.          
T Consensus         6 ~~~l~~l~~l~~~~~~l~~ip~~~~--~~l~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~----------   72 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLTALPPDLP--KDTTILHLSEN-LLYTFSLATLMPYTRLTQLNLDRAELTKLQV----------   72 (290)
T ss_dssp             EECSTTCCEEECTTSCCSSCCSCCC--TTCCEEECTTS-CCSEEEGGGGTTCTTCCEEECTTSCCCEEEC----------
T ss_pred             ccccCCccEEECCCCCCCcCCCCCC--CCCCEEEcCCC-cCCccCHHHhhcCCCCCEEECCCCccCcccC----------
Confidence            5667788888888888888876654  67888888888 7877776667888888888888887632211          


Q ss_pred             HHHhhcCCCCcEEEEEeccCCCCCCcccccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccc
Q 037935          617 LDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVD  696 (1085)
Q Consensus       617 ~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~  696 (1085)
                         ...+++|++|++++|.+..+|.                                                       
T Consensus        73 ---~~~l~~L~~L~Ls~N~l~~l~~-------------------------------------------------------   94 (290)
T 1p9a_G           73 ---DGTLPVLGTLDLSHNQLQSLPL-------------------------------------------------------   94 (290)
T ss_dssp             ---CSCCTTCCEEECCSSCCSSCCC-------------------------------------------------------
T ss_pred             ---CCCCCcCCEEECCCCcCCcCch-------------------------------------------------------
Confidence               1466677777777776554332                                                       


Q ss_pred             cccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEe
Q 037935          697 EIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLK  776 (1085)
Q Consensus       697 ~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~  776 (1085)
                                .+..+++|+.|++++|. ++.++ +..+..+++|++|++++|. +.                        
T Consensus        95 ----------~~~~l~~L~~L~l~~N~-l~~l~-~~~~~~l~~L~~L~L~~N~-l~------------------------  137 (290)
T 1p9a_G           95 ----------LGQTLPALTVLDVSFNR-LTSLP-LGALRGLGELQELYLKGNE-LK------------------------  137 (290)
T ss_dssp             ----------CTTTCTTCCEEECCSSC-CCCCC-SSTTTTCTTCCEEECTTSC-CC------------------------
T ss_pred             ----------hhccCCCCCEEECCCCc-CcccC-HHHHcCCCCCCEEECCCCC-CC------------------------
Confidence                      23345667777776653 33332 2345556666666655543 10                        


Q ss_pred             cCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccC
Q 037935          777 LDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDF  856 (1085)
Q Consensus       777 l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~  856 (1085)
                              .+...                                         .+..+++|+.|++++|.++.++...|
T Consensus       138 --------~~~~~-----------------------------------------~~~~l~~L~~L~L~~N~l~~l~~~~~  168 (290)
T 1p9a_G          138 --------TLPPG-----------------------------------------LLTPTPKLEKLSLANNNLTELPAGLL  168 (290)
T ss_dssp             --------CCCTT-----------------------------------------TTTTCTTCCEEECTTSCCSCCCTTTT
T ss_pred             --------ccChh-----------------------------------------hcccccCCCEEECCCCcCCccCHHHh
Confidence                    00000                                         01225667777777777776665555


Q ss_pred             CcCccCCceEEEecCCcccccchhHHhhccccceEEeeccccc
Q 037935          857 PQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYE  899 (1085)
Q Consensus       857 ~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~  899 (1085)
                      ..  +++|+.|++++|+++.+|...+ .+++|+.|++++|++.
T Consensus       169 ~~--l~~L~~L~L~~N~l~~ip~~~~-~~~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          169 NG--LENLDTLLLQENSLYTIPKGFF-GSHLLPFAFLHGNPWL  208 (290)
T ss_dssp             TT--CTTCCEEECCSSCCCCCCTTTT-TTCCCSEEECCSCCBC
T ss_pred             cC--cCCCCEEECCCCcCCccChhhc-ccccCCeEEeCCCCcc
Confidence            44  6777777777777777775543 4567888888877743

>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

Probab=99.56  E-value=1.7e-14  Score=152.41  Aligned_cols=133  Identities=22%  Similarity=0.330  Sum_probs=110.3

Q ss_pred             cceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEec
Q 037935          493 KCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDL  571 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L  571 (1085)
                      ..++++++++.+..+|..+. ++++.|++.+|.   +..++...|.++++|++|+|++|.++.++ ..+.++++|++|++
T Consensus        15 ~~~~l~~~~~~l~~~p~~~~-~~l~~L~L~~n~---l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L   90 (251)
T 3m19_A           15 GKKEVDCQGKSLDSVPSGIP-ADTEKLDLQSTG---LATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGL   90 (251)
T ss_dssp             GGTEEECTTCCCSSCCSCCC-TTCCEEECTTSC---CCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCeEEecCCCCccccCCCCC-CCCCEEEccCCC---cCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEEC
Confidence            35678888888998887664 789999999987   67777777899999999999999998875 45789999999999


Q ss_pred             cCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCC
Q 037935          572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPD  641 (1085)
Q Consensus       572 s~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  641 (1085)
                      ++| .++.+|+..|+++++|++|++++|.+..           .....+..+++|++|++++|.+..++.
T Consensus        91 ~~n-~l~~~~~~~~~~l~~L~~L~L~~N~l~~-----------~~~~~~~~l~~L~~L~Ls~N~l~~~~~  148 (251)
T 3m19_A           91 ANN-QLASLPLGVFDHLTQLDKLYLGGNQLKS-----------LPSGVFDRLTKLKELRLNTNQLQSIPA  148 (251)
T ss_dssp             TTS-CCCCCCTTTTTTCTTCCEEECCSSCCCC-----------CCTTTTTTCTTCCEEECCSSCCCCCCT
T ss_pred             CCC-cccccChhHhcccCCCCEEEcCCCcCCC-----------cChhHhccCCcccEEECcCCcCCccCH
Confidence            999 8999998888999999999999998842           223346788899999999888776554

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.56  E-value=1.3e-14  Score=161.66  Aligned_cols=107  Identities=14%  Similarity=0.251  Sum_probs=64.7

Q ss_pred             ceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCch-hhhccccccEEeccCcccc-cccchhhhhccccCCE-
Q 037935          517 EFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLTDCLQL-KFIVPNILSSFTRLEE-  593 (1085)
Q Consensus       517 r~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~Ls~~~~l-~~lp~~~~~~L~~L~~-  593 (1085)
                      ++++.+++.   ...+|.++   .+++++|+|++|+|+.+|. .|.++++|++|+|++| .+ +.+|.+.|.++++|++ 
T Consensus        12 ~~v~C~~~~---Lt~iP~~l---~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N-~i~~~i~~~~f~~L~~l~~~   84 (350)
T 4ay9_X           12 RVFLCQESK---VTEIPSDL---PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQN-DVLEVIEADVFSNLPKLHEI   84 (350)
T ss_dssp             TEEEEESTT---CCSCCTTC---CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECC-TTCCEECTTSBCSCTTCCEE
T ss_pred             CEEEecCCC---CCccCcCc---CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCC-CCCCccChhHhhcchhhhhh
Confidence            344444444   45566543   2456777777777777764 4677777777777777 44 4566666667776665 


Q ss_pred             EeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCC
Q 037935          594 LYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPD  641 (1085)
Q Consensus       594 L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  641 (1085)
                      +.+.+|.+..           ..+..+..+++|++|++++|.+..++.
T Consensus        85 l~~~~N~l~~-----------l~~~~f~~l~~L~~L~l~~n~l~~~~~  121 (350)
T 4ay9_X           85 RIEKANNLLY-----------INPEAFQNLPNLQYLLISNTGIKHLPD  121 (350)
T ss_dssp             EEEEETTCCE-----------ECTTSBCCCTTCCEEEEEEECCSSCCC
T ss_pred             hcccCCcccc-----------cCchhhhhccccccccccccccccCCc
Confidence            3444555532           223446677777777777777665554

>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

Probab=99.56  E-value=1.7e-15  Score=168.36  Aligned_cols=177  Identities=18%  Similarity=0.152  Sum_probs=124.5

Q ss_pred             cceEEEeeccCcccccccC-CC--CCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC--Cchhhhcccccc
Q 037935          493 KCYAISLLNSSIHEVSLEF-EC--PQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS--LPSSIGQLTKLR  567 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~-~~--~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~--lp~~i~~L~~L~  567 (1085)
                      ..++++++++.+.  +..+ .+  ++++.|.+.++.   ....+.. +.++++|++|++++|.++.  +|..+..+++|+
T Consensus        48 ~~~~l~l~~~~~~--~~~~~~~~~~~l~~L~l~~n~---l~~~~~~-~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~  121 (336)
T 2ast_B           48 LWQTLDLTGKNLH--PDVTGRLLSQGVIAFRCPRSF---MDQPLAE-HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQ  121 (336)
T ss_dssp             TSSEEECTTCBCC--HHHHHHHHHTTCSEEECTTCE---ECSCCCS-CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCS
T ss_pred             hheeeccccccCC--HHHHHhhhhccceEEEcCCcc---ccccchh-hccCCCCCEEEccCCCcCHHHHHHHHhhCCCCC
Confidence            3677888877654  2111 33  789999998886   4444444 4468999999999998875  788889999999


Q ss_pred             EEeccCcccccccchhhhhccccCCEEeccCC-CcchhhcccCCcccc-ccHHHhhcCCCCcEEEEEec-cCCCCCCccc
Q 037935          568 MLDLTDCLQLKFIVPNILSSFTRLEELYMGSC-SIKWEVRKGNSERSN-ASLDELMHLQRLTTLEIDVE-DDSILPDGLF  644 (1085)
Q Consensus       568 ~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~-~~~~~~~~~~~~~~~-~~~~~l~~L~~L~~L~l~~~-~~~~~~~~~~  644 (1085)
                      +|++++| .++......++++++|++|++++| .+           .. ..+..+.++++|++|++++| .+...     
T Consensus       122 ~L~L~~~-~l~~~~~~~l~~~~~L~~L~L~~~~~l-----------~~~~l~~~~~~~~~L~~L~l~~~~~l~~~-----  184 (336)
T 2ast_B          122 NLSLEGL-RLSDPIVNTLAKNSNLVRLNLSGCSGF-----------SEFALQTLLSSCSRLDELNLSWCFDFTEK-----  184 (336)
T ss_dssp             EEECTTC-BCCHHHHHHHTTCTTCSEEECTTCBSC-----------CHHHHHHHHHHCTTCCEEECCCCTTCCHH-----
T ss_pred             EEeCcCc-ccCHHHHHHHhcCCCCCEEECCCCCCC-----------CHHHHHHHHhcCCCCCEEcCCCCCCcChH-----
Confidence            9999999 777443344688999999999999 44           22 23445788999999999887 54310     


Q ss_pred             ccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccc-cccEEEEcCCC
Q 037935          645 TKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQ-SLTRLIVWGCD  723 (1085)
Q Consensus       645 l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~-~L~~L~L~~~~  723 (1085)
                                                                                .+|..+..++ +|++|++++|.
T Consensus       185 ----------------------------------------------------------~~~~~~~~l~~~L~~L~l~~~~  206 (336)
T 2ast_B          185 ----------------------------------------------------------HVQVAVAHVSETITQLNLSGYR  206 (336)
T ss_dssp             ----------------------------------------------------------HHHHHHHHSCTTCCEEECCSCG
T ss_pred             ----------------------------------------------------------HHHHHHHhcccCCCEEEeCCCc
Confidence                                                                      0112244677 99999999985


Q ss_pred             -CCccccchhhHhhcccccEEEeccccc
Q 037935          724 -KLKYIFSASTIQSLEQLQHLEIRLCKS  750 (1085)
Q Consensus       724 -~l~~l~~~~~l~~l~~L~~L~l~~~~~  750 (1085)
                       .+....-+..+..+++|+.|++++|..
T Consensus       207 ~~~~~~~l~~~~~~~~~L~~L~l~~~~~  234 (336)
T 2ast_B          207 KNLQKSDLSTLVRRCPNLVHLDLSDSVM  234 (336)
T ss_dssp             GGSCHHHHHHHHHHCTTCSEEECTTCTT
T ss_pred             ccCCHHHHHHHHhhCCCCCEEeCCCCCc
Confidence             333111123567888888888888863

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.56  E-value=1.1e-15  Score=167.43  Aligned_cols=150  Identities=15%  Similarity=0.169  Sum_probs=100.4

Q ss_pred             cceEEEeeccCccc--ccccC--------CCCCcceeeeccCCCccccccChhhh-cCCCcceEEEecCCcccCCchhhh
Q 037935          493 KCYAISLLNSSIHE--VSLEF--------ECPQLEFLHIDPKITFAELNIPDNFF-KGMKKLRVVDLTRVRLFSLPSSIG  561 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~--l~~~~--------~~~~Lr~L~l~~~~~~~~~~l~~~~~-~~l~~Lr~L~Ls~~~i~~lp~~i~  561 (1085)
                      .+++|+++++.+..  ++...        .+++|++|++++|..  ...+|..+| ..+++|++|+|++|.++.+|..++
T Consensus        64 ~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~  141 (312)
T 1wwl_A           64 IIKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEV--TGTAPPPLLEATGPDLNILNLRNVSWATRDAWLA  141 (312)
T ss_dssp             HHHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBC--BSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHH
T ss_pred             HHhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcc--cchhHHHHHHhcCCCccEEEccCCCCcchhHHHH
Confidence            36666666666643  23222        477888888887763  234565543 778888888888888887777777


Q ss_pred             cc-----ccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHh--hcCCCCcEEEEEec
Q 037935          562 QL-----TKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDEL--MHLQRLTTLEIDVE  634 (1085)
Q Consensus       562 ~L-----~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l--~~L~~L~~L~l~~~  634 (1085)
                      .+     ++|++|++++| .+..+++..|+++++|++|++++|.+....         ..+..+  ..+++|++|++++|
T Consensus       142 ~l~~~~~~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~---------~~~~~~~~~~l~~L~~L~L~~N  211 (312)
T 1wwl_A          142 ELQQWLKPGLKVLSIAQA-HSLNFSCEQVRVFPALSTLDLSDNPELGER---------GLISALCPLKFPTLQVLALRNA  211 (312)
T ss_dssp             HHHTTCCTTCCEEEEESC-SCCCCCTTTCCCCSSCCEEECCSCTTCHHH---------HHHHHSCTTSCTTCCEEECTTS
T ss_pred             HHHHhhcCCCcEEEeeCC-CCccchHHHhccCCCCCEEECCCCCcCcch---------HHHHHHHhccCCCCCEEECCCC
Confidence            77     78888888888 788777666688888888888888753110         012333  67788888888888


Q ss_pred             cCCCCCCc---c--cccccceeeEE
Q 037935          635 DDSILPDG---L--FTKKLERFDIS  654 (1085)
Q Consensus       635 ~~~~~~~~---~--~l~~L~~L~l~  654 (1085)
                      .+..++..   +  .+++|+.|+++
T Consensus       212 ~l~~~~~~~~~~~~~l~~L~~L~Ls  236 (312)
T 1wwl_A          212 GMETPSGVCSALAAARVQLQGLDLS  236 (312)
T ss_dssp             CCCCHHHHHHHHHHTTCCCSEEECT
T ss_pred             cCcchHHHHHHHHhcCCCCCEEECC
Confidence            77644322   1  34566666664

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.56  E-value=9.5e-15  Score=156.34  Aligned_cols=147  Identities=24%  Similarity=0.306  Sum_probs=105.2

Q ss_pred             ccccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCch-hhhccccccE
Q 037935          490 ALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRM  568 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~  568 (1085)
                      ...+++.+++.++.+..++....+++|++|++.+|.   ...++  .+.++++|++|++++|.++.+|. .++++++|++
T Consensus        39 ~l~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~---l~~~~--~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  113 (272)
T 3rfs_A           39 ELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNK---LHDIS--ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKE  113 (272)
T ss_dssp             HHTTCCEEECTTSCCCCCTTGGGCTTCCEEECTTSC---CCCCG--GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCE
T ss_pred             cccceeeeeeCCCCcccccccccCCCCcEEECCCCC---CCCch--hhcCCCCCCEEECCCCccCccChhHhcCCcCCCE
Confidence            455678888888888777766677888888888876   44443  37778888888888888887764 3678888888


Q ss_pred             EeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--ccc
Q 037935          569 LDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTK  646 (1085)
Q Consensus       569 L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~  646 (1085)
                      |++++| .++.+|+..++++++|++|++++|.+.           ...+..+.++++|++|++++|.+..++...  .++
T Consensus       114 L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~-----------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~  181 (272)
T 3rfs_A          114 LVLVEN-QLQSLPDGVFDKLTNLTYLNLAHNQLQ-----------SLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLT  181 (272)
T ss_dssp             EECTTS-CCCCCCTTTTTTCTTCCEEECCSSCCC-----------CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             EECCCC-cCCccCHHHhccCCCCCEEECCCCccC-----------ccCHHHhccCccCCEEECCCCCcCccCHHHhcCCc
Confidence            888888 788888776788888888888888773           222334667788888888888777655432  334


Q ss_pred             ccceeeE
Q 037935          647 KLERFDI  653 (1085)
Q Consensus       647 ~L~~L~l  653 (1085)
                      +|+.|++
T Consensus       182 ~L~~L~L  188 (272)
T 3rfs_A          182 QLKDLRL  188 (272)
T ss_dssp             TCCEEEC
T ss_pred             cCCEEEC
Confidence            4444443

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.55  E-value=6.1e-15  Score=157.85  Aligned_cols=143  Identities=20%  Similarity=0.264  Sum_probs=111.6

Q ss_pred             ceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccC
Q 037935          494 CYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~  573 (1085)
                      +..+.+..+.+........+++|+.|.+.++.   +..++.  +..+++|++|++++|.++.++ .++++++|++|++++
T Consensus        21 l~~l~l~~~~~~~~~~~~~l~~L~~L~l~~~~---i~~~~~--l~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~   94 (272)
T 3rfs_A           21 TIKANLKKKSVTDAVTQNELNSIDQIIANNSD---IKSVQG--IQYLPNVRYLALGGNKLHDIS-ALKELTNLTYLILTG   94 (272)
T ss_dssp             HHHHHHTCSCTTSEECHHHHTTCCEEECTTSC---CCCCTT--GGGCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECTT
T ss_pred             HHHHHhcCcccccccccccccceeeeeeCCCC---cccccc--cccCCCCcEEECCCCCCCCch-hhcCCCCCCEEECCC
Confidence            33444444555444444467899999999887   555554  788999999999999999876 789999999999999


Q ss_pred             cccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--ccccccee
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLERF  651 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~L  651 (1085)
                      | .++.+|+..++++++|++|++++|.+.           ...+..+..+++|++|++++|.+..++...  .+++|+.|
T Consensus        95 n-~l~~~~~~~~~~l~~L~~L~L~~n~l~-----------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  162 (272)
T 3rfs_A           95 N-QLQSLPNGVFDKLTNLKELVLVENQLQ-----------SLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTEL  162 (272)
T ss_dssp             S-CCCCCCTTTTTTCTTCCEEECTTSCCC-----------CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             C-ccCccChhHhcCCcCCCEEECCCCcCC-----------ccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEE
Confidence            9 999999888899999999999999984           233344788999999999999888776643  45555555


Q ss_pred             eEE
Q 037935          652 DIS  654 (1085)
Q Consensus       652 ~l~  654 (1085)
                      +++
T Consensus       163 ~l~  165 (272)
T 3rfs_A          163 DLS  165 (272)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            553

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.50  E-value=9.3e-15  Score=165.62  Aligned_cols=257  Identities=15%  Similarity=0.107  Sum_probs=143.1

Q ss_pred             cccChhhhcCCCcceEEEecCCcccC-----CchhhhccccccEEeccCcccccc----cchhh------hhccccCCEE
Q 037935          530 LNIPDNFFKGMKKLRVVDLTRVRLFS-----LPSSIGQLTKLRMLDLTDCLQLKF----IVPNI------LSSFTRLEEL  594 (1085)
Q Consensus       530 ~~l~~~~~~~l~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~----lp~~~------~~~L~~L~~L  594 (1085)
                      ..++. .+..+++|++|+|++|.+..     ++..+.++++|++|+|++| .+..    +|.++      +.++++|++|
T Consensus        22 ~~l~~-~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~-~~~~l~~~~~~~~~~l~~~l~~~~~L~~L   99 (386)
T 2ca6_A           22 KSVFA-VLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDI-FTGRVKDEIPEALRLLLQALLKCPKLHTV   99 (386)
T ss_dssp             HTTSH-HHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSC-CTTSCGGGSHHHHHHHHHHHTTCTTCCEE
T ss_pred             HHHHH-HHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCccc-ccCccccchhHHHHHHHHHHhhCCcccEE
Confidence            34443 36667888888888887765     3334667888888888887 4442    34332      3577888888


Q ss_pred             eccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccceeeEEecCCCccccccccccccccc
Q 037935          595 YMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTF  674 (1085)
Q Consensus       595 ~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~  674 (1085)
                      +|++|.+...       .....+..+.++++|++|++++|.+......                                
T Consensus       100 ~Ls~n~l~~~-------~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~--------------------------------  140 (386)
T 2ca6_A          100 RLSDNAFGPT-------AQEPLIDFLSKHTPLEHLYLHNNGLGPQAGA--------------------------------  140 (386)
T ss_dssp             ECCSCCCCTT-------THHHHHHHHHHCTTCCEEECCSSCCHHHHHH--------------------------------
T ss_pred             ECCCCcCCHH-------HHHHHHHHHHhCCCCCEEECcCCCCCHHHHH--------------------------------
Confidence            8888876210       0012455667777888887777754311100                                


Q ss_pred             ccccceeehhhhhhcccccccccccccCCCCCccccc---------ccccEEEEcCCCCC-ccccc-hhhHhhcccccEE
Q 037935          675 NIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCF---------QSLTRLIVWGCDKL-KYIFS-ASTIQSLEQLQHL  743 (1085)
Q Consensus       675 ~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l---------~~L~~L~L~~~~~l-~~l~~-~~~l~~l~~L~~L  743 (1085)
                                                  .++..+..+         ++|++|++++|... ..++. ...+..+++|++|
T Consensus       141 ----------------------------~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L  192 (386)
T 2ca6_A          141 ----------------------------KIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTV  192 (386)
T ss_dssp             ----------------------------HHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEE
T ss_pred             ----------------------------HHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEE
Confidence                                        000111122         68888888877543 12211 0245677788888


Q ss_pred             EeccccchHH----HhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCC
Q 037935          744 EIRLCKSLQE----IISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQ  819 (1085)
Q Consensus       744 ~l~~~~~l~~----i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~  819 (1085)
                      ++++|..-..    +...       ....+++|+.|+++++. +....                     ...++      
T Consensus       193 ~L~~n~l~~~g~~~l~~~-------~l~~~~~L~~L~Ls~n~-l~~~g---------------------~~~l~------  237 (386)
T 2ca6_A          193 KMVQNGIRPEGIEHLLLE-------GLAYCQELKVLDLQDNT-FTHLG---------------------SSALA------  237 (386)
T ss_dssp             ECCSSCCCHHHHHHHHHT-------TGGGCTTCCEEECCSSC-CHHHH---------------------HHHHH------
T ss_pred             ECcCCCCCHhHHHHHHHH-------HhhcCCCccEEECcCCC-CCcHH---------------------HHHHH------
Confidence            8877752110    1000       01124445555544432 10000                     01111      


Q ss_pred             CCCCCCCCcccccccCCccceeeeccCCceeeecccCCc----CccCCceEEEecCCcccc-----cchhHHhhccccce
Q 037935          820 FGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDFPQ----HLFGSLKQLRVGDDDLAC-----FPLDLLERFHNLEF  890 (1085)
Q Consensus       820 ~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~----~~~~~L~~L~l~~n~l~~-----~~~~~~~~l~~L~~  890 (1085)
                                ..+..+++|++|++++|.+++.....++.    ..+++|++|++++|.++.     ++...+.++++|+.
T Consensus       238 ----------~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~  307 (386)
T 2ca6_A          238 ----------IALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLF  307 (386)
T ss_dssp             ----------HHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCE
T ss_pred             ----------HHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceE
Confidence                      11234677888888888876542221111    125778888888888877     66555466788888


Q ss_pred             EEeecccccE
Q 037935          891 LYLSDCSYEV  900 (1085)
Q Consensus       891 L~l~~~~l~~  900 (1085)
                      |++++|+++.
T Consensus       308 L~l~~N~l~~  317 (386)
T 2ca6_A          308 LELNGNRFSE  317 (386)
T ss_dssp             EECTTSBSCT
T ss_pred             EEccCCcCCc
Confidence            8888888553

>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

Probab=99.48  E-value=2e-13  Score=147.30  Aligned_cols=125  Identities=26%  Similarity=0.309  Sum_probs=72.8

Q ss_pred             cccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEe
Q 037935          491 LKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLD  570 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~  570 (1085)
                      ..+++.|++.+|.+..++....+++|++|++++|.   ...++.  +.++++|++|++++|.++.+|. ++.+++|++|+
T Consensus        45 l~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~---l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~  118 (291)
T 1h6t_A           45 LNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK---LTDIKP--LANLKNLGWLFLDENKVKDLSS-LKDLKKLKSLS  118 (291)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC---CCCCGG--GTTCTTCCEEECCSSCCCCGGG-GTTCTTCCEEE
T ss_pred             cCcccEEEccCCCcccChhHhcCCCCCEEEccCCc---cCCCcc--cccCCCCCEEECCCCcCCCChh-hccCCCCCEEE
Confidence            34566666666666666554456666666666665   344443  5566666666666666666543 66666666666


Q ss_pred             ccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          571 LTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       571 Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      +++| .++.++.  +.++++|++|++++|.+.           .  +..+..+++|++|++++|.+.
T Consensus       119 L~~n-~i~~~~~--l~~l~~L~~L~l~~n~l~-----------~--~~~l~~l~~L~~L~L~~N~l~  169 (291)
T 1h6t_A          119 LEHN-GISDING--LVHLPQLESLYLGNNKIT-----------D--ITVLSRLTKLDTLSLEDNQIS  169 (291)
T ss_dssp             CTTS-CCCCCGG--GGGCTTCCEEECCSSCCC-----------C--CGGGGGCTTCSEEECCSSCCC
T ss_pred             CCCC-cCCCChh--hcCCCCCCEEEccCCcCC-----------c--chhhccCCCCCEEEccCCccc
Confidence            6666 5665542  466666666666666552           1  134555666666666655544

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.48  E-value=4.1e-14  Score=160.29  Aligned_cols=122  Identities=16%  Similarity=0.145  Sum_probs=78.6

Q ss_pred             cccccccC-CCCCcceeeeccCCCccccccC----hhhhcCCCcceEEEecCCcccC----Cchhh-------hcccccc
Q 037935          504 IHEVSLEF-ECPQLEFLHIDPKITFAELNIP----DNFFKGMKKLRVVDLTRVRLFS----LPSSI-------GQLTKLR  567 (1085)
Q Consensus       504 ~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~----~~~~~~l~~Lr~L~Ls~~~i~~----lp~~i-------~~L~~L~  567 (1085)
                      +..++..+ .+++|++|++++|.   +....    ...|.++++|++|+|++|.+..    +|..+       ..+++|+
T Consensus        21 ~~~l~~~l~~~~~L~~L~L~~n~---i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~   97 (386)
T 2ca6_A           21 EKSVFAVLLEDDSVKEIVLSGNT---IGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLH   97 (386)
T ss_dssp             HHTTSHHHHHCSCCCEEECTTSE---ECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCC
T ss_pred             HHHHHHHHhcCCCccEEECCCCC---CCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCccc
Confidence            33443333 56788888888875   22221    1236678888888888875543    34444       6788888


Q ss_pred             EEeccCcccccc-----cchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcC---------CCCcEEEEEe
Q 037935          568 MLDLTDCLQLKF-----IVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHL---------QRLTTLEIDV  633 (1085)
Q Consensus       568 ~L~Ls~~~~l~~-----lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L---------~~L~~L~l~~  633 (1085)
                      +|+|++| .++.     +|.. +.++++|++|+|++|.+.....       ......+..+         ++|++|++++
T Consensus        98 ~L~Ls~n-~l~~~~~~~l~~~-l~~~~~L~~L~L~~n~l~~~~~-------~~l~~~l~~l~~~~~~~~~~~L~~L~L~~  168 (386)
T 2ca6_A           98 TVRLSDN-AFGPTAQEPLIDF-LSKHTPLEHLYLHNNGLGPQAG-------AKIARALQELAVNKKAKNAPPLRSIICGR  168 (386)
T ss_dssp             EEECCSC-CCCTTTHHHHHHH-HHHCTTCCEEECCSSCCHHHHH-------HHHHHHHHHHHHHHHHHTCCCCCEEECCS
T ss_pred             EEECCCC-cCCHHHHHHHHHH-HHhCCCCCEEECcCCCCCHHHH-------HHHHHHHHHHhhhhhcccCCCCcEEECCC
Confidence            8888888 7766     5544 4888888888888888732111       1122234444         7888888888


Q ss_pred             ccCC
Q 037935          634 EDDS  637 (1085)
Q Consensus       634 ~~~~  637 (1085)
                      |.+.
T Consensus       169 n~l~  172 (386)
T 2ca6_A          169 NRLE  172 (386)
T ss_dssp             SCCT
T ss_pred             CCCC
Confidence            8765

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.47  E-value=5.7e-14  Score=157.30  Aligned_cols=93  Identities=19%  Similarity=0.264  Sum_probs=53.6

Q ss_pred             hhhhcCCCcceEEEecCCcccCCc-----hhhhccc-cccEEeccCcccccccchhhhhcc-----ccCCEEeccCCCcc
Q 037935          534 DNFFKGMKKLRVVDLTRVRLFSLP-----SSIGQLT-KLRMLDLTDCLQLKFIVPNILSSF-----TRLEELYMGSCSIK  602 (1085)
Q Consensus       534 ~~~~~~l~~Lr~L~Ls~~~i~~lp-----~~i~~L~-~L~~L~Ls~~~~l~~lp~~~~~~L-----~~L~~L~L~~~~~~  602 (1085)
                      +.++...++|++|+|++|.++..+     ..+.+++ +|++|+|++| .++......+..+     ++|++|++++|.+.
T Consensus        15 ~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~   93 (362)
T 3goz_A           15 EEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGN-SLGFKNSDELVQILAAIPANVTSLNLSGNFLS   93 (362)
T ss_dssp             HHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSS-CGGGSCHHHHHHHHHTSCTTCCEEECCSSCGG
T ss_pred             HHHHhCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCC-CCCHHHHHHHHHHHhccCCCccEEECcCCcCC
Confidence            344444555677777776666654     4555666 6777777766 6665544444554     66777777776652


Q ss_pred             hhhcccCCccccccHH----HhhcC-CCCcEEEEEeccCCC
Q 037935          603 WEVRKGNSERSNASLD----ELMHL-QRLTTLEIDVEDDSI  638 (1085)
Q Consensus       603 ~~~~~~~~~~~~~~~~----~l~~L-~~L~~L~l~~~~~~~  638 (1085)
                                 ...+.    .+..+ ++|++|++++|.+..
T Consensus        94 -----------~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~  123 (362)
T 3goz_A           94 -----------YKSSDELVKTLAAIPFTITVLDLGWNDFSS  123 (362)
T ss_dssp             -----------GSCHHHHHHHHHTSCTTCCEEECCSSCGGG
T ss_pred             -----------hHHHHHHHHHHHhCCCCccEEECcCCcCCc
Confidence                       22222    23344 567777776666543

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.47  E-value=7.9e-14  Score=152.50  Aligned_cols=93  Identities=14%  Similarity=0.111  Sum_probs=57.9

Q ss_pred             CCcceEEEecCCcccC--Cch--hhhccccccEEeccCcccccccchhhh--hccccCCEEeccCCCcchhhcccCCccc
Q 037935          540 MKKLRVVDLTRVRLFS--LPS--SIGQLTKLRMLDLTDCLQLKFIVPNIL--SSFTRLEELYMGSCSIKWEVRKGNSERS  613 (1085)
Q Consensus       540 l~~Lr~L~Ls~~~i~~--lp~--~i~~L~~L~~L~Ls~~~~l~~lp~~~~--~~L~~L~~L~L~~~~~~~~~~~~~~~~~  613 (1085)
                      ...++.|.+.++.+..  +..  ..-.+++|++|++++| .+....+..+  +++++|++|++++|.+....+       
T Consensus        63 ~~~l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~-------  134 (310)
T 4glp_A           63 ALRVRRLTVGAAQVPAQLLVGALRVLAYSRLKELTLEDL-KITGTMPPLPLEATGLALSSLRLRNVSWATGRS-------  134 (310)
T ss_dssp             SCCCCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEEESC-CCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTS-------
T ss_pred             hcceeEEEEeCCcCCHHHHHHHHHhcccCceeEEEeeCC-EeccchhhhhhhccCCCCCEEEeecccccchhh-------
Confidence            3457778888776643  111  1234567888888888 6665444334  778888888888888732100       


Q ss_pred             cccHHHhhcCCCCcEEEEEeccCCCCC
Q 037935          614 NASLDELMHLQRLTTLEIDVEDDSILP  640 (1085)
Q Consensus       614 ~~~~~~l~~L~~L~~L~l~~~~~~~~~  640 (1085)
                      ......+..+++|++|++++|.+..++
T Consensus       135 ~~~~~~~~~~~~L~~L~Ls~n~l~~~~  161 (310)
T 4glp_A          135 WLAELQQWLKPGLKVLSIAQAHSPAFS  161 (310)
T ss_dssp             SHHHHHTTBCSCCCEEEEECCSSCCCC
T ss_pred             hhHHHHhhhccCCCEEEeeCCCcchhh
Confidence            001133456788888888888765444

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.46  E-value=2.6e-14  Score=160.11  Aligned_cols=80  Identities=19%  Similarity=0.113  Sum_probs=42.4

Q ss_pred             EEecCCcccCC-chhhhccccccEEeccCcccccccch----hhhhccc-cCCEEeccCCCcchhhcccCCccccccHHH
Q 037935          546 VDLTRVRLFSL-PSSIGQLTKLRMLDLTDCLQLKFIVP----NILSSFT-RLEELYMGSCSIKWEVRKGNSERSNASLDE  619 (1085)
Q Consensus       546 L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~~l~~lp~----~~~~~L~-~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~  619 (1085)
                      +++++|+++.. |..+....+|++|+|++| .++..+.    ..+.+++ +|++|++++|.+           ....+..
T Consensus         3 ~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l-----------~~~~~~~   70 (362)
T 3goz_A            3 YKLTLHPGSNPVEEFTSIPHGVTSLDLSLN-NLYSISTVELIQAFANTPASVTSLNLSGNSL-----------GFKNSDE   70 (362)
T ss_dssp             EECCCCTTCCHHHHHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTCCTTCCEEECCSSCG-----------GGSCHHH
T ss_pred             cccccccchHHHHHHHhCCCCceEEEccCC-CCChHHHHHHHHHHHhCCCceeEEECcCCCC-----------CHHHHHH
Confidence            45556666543 333333444666666666 5665554    3445555 566666666655           2223333


Q ss_pred             hhcC-----CCCcEEEEEeccCC
Q 037935          620 LMHL-----QRLTTLEIDVEDDS  637 (1085)
Q Consensus       620 l~~L-----~~L~~L~l~~~~~~  637 (1085)
                      +..+     ++|++|++++|.+.
T Consensus        71 l~~~l~~~~~~L~~L~Ls~n~l~   93 (362)
T 3goz_A           71 LVQILAAIPANVTSLNLSGNFLS   93 (362)
T ss_dssp             HHHHHHTSCTTCCEEECCSSCGG
T ss_pred             HHHHHhccCCCccEEECcCCcCC
Confidence            3332     56666666666544

>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

Probab=99.46  E-value=1.2e-13  Score=142.05  Aligned_cols=146  Identities=16%  Similarity=0.271  Sum_probs=121.9

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEeccC
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~  573 (1085)
                      +.++..++.+..+|..+. ++++.|++.+|.   +..++...|..+++|++|+|++|.++.+ |..|.++++|++|+|++
T Consensus        14 ~~v~c~~~~l~~iP~~l~-~~l~~L~l~~n~---i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~   89 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNLP-ETITEIRLEQNT---IKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYG   89 (220)
T ss_dssp             TEEECTTSCCSSCCSSCC-TTCCEEECCSSC---CCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCS
T ss_pred             CEEEcCCCCcCcCCCccC-cCCCEEECCCCc---CCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCC
Confidence            467777888888887654 789999999887   6778877789999999999999999886 67899999999999999


Q ss_pred             cccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--ccccccee
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLERF  651 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~L  651 (1085)
                      | .++.+|.++|.++++|++|+|++|.+.           ...+..+..+++|++|++++|.+..++...  .+++|+.|
T Consensus        90 N-~l~~l~~~~f~~l~~L~~L~L~~N~l~-----------~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L  157 (220)
T 2v9t_B           90 N-KITELPKSLFEGLFSLQLLLLNANKIN-----------CLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTM  157 (220)
T ss_dssp             S-CCCCCCTTTTTTCTTCCEEECCSSCCC-----------CCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEE
T ss_pred             C-cCCccCHhHccCCCCCCEEECCCCCCC-----------EeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEE
Confidence            9 999999988889999999999999883           334456888999999999999998888753  67888888


Q ss_pred             eEEec
Q 037935          652 DISIG  656 (1085)
Q Consensus       652 ~l~~~  656 (1085)
                      ++..+
T Consensus       158 ~L~~N  162 (220)
T 2v9t_B          158 HLAQN  162 (220)
T ss_dssp             ECCSS
T ss_pred             EeCCC
Confidence            87543

>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

Probab=99.45  E-value=3e-13  Score=142.78  Aligned_cols=163  Identities=20%  Similarity=0.289  Sum_probs=137.3

Q ss_pred             ecCccccCCCccccccceEEEeeccCccccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC
Q 037935          478 RNDAVWEWPDGDALKKCYAISLLNSSIHEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS  555 (1085)
Q Consensus       478 ~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~  555 (1085)
                      .+..+...|. ..+..++.|++++|.+..++..  ..+++|++|++++|.   +..++...|.++++|++|+|++|.++.
T Consensus        22 ~~~~l~~~p~-~~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~---l~~~~~~~~~~l~~L~~L~L~~n~l~~   97 (251)
T 3m19_A           22 QGKSLDSVPS-GIPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQ---LQTLSAGVFDDLTELGTLGLANNQLAS   97 (251)
T ss_dssp             TTCCCSSCCS-CCCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC---CCCCCTTTTTTCTTCCEEECTTSCCCC
T ss_pred             CCCCccccCC-CCCCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCc---CCccCHhHhccCCcCCEEECCCCcccc
Confidence            3444444443 3457899999999999888753  378999999999997   677888889999999999999999999


Q ss_pred             Cc-hhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEec
Q 037935          556 LP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVE  634 (1085)
Q Consensus       556 lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  634 (1085)
                      +| ..++.+++|++|+|++| .++.+|+..|.++++|++|++++|.+.           ...+..+..+++|++|++++|
T Consensus        98 ~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~-----------~~~~~~~~~l~~L~~L~L~~N  165 (251)
T 3m19_A           98 LPLGVFDHLTQLDKLYLGGN-QLKSLPSGVFDRLTKLKELRLNTNQLQ-----------SIPAGAFDKLTNLQTLSLSTN  165 (251)
T ss_dssp             CCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC-----------CCCTTTTTTCTTCCEEECCSS
T ss_pred             cChhHhcccCCCCEEEcCCC-cCCCcChhHhccCCcccEEECcCCcCC-----------ccCHHHcCcCcCCCEEECCCC
Confidence            87 46799999999999999 999999988899999999999999984           223345888999999999999


Q ss_pred             cCCCCCCcc--cccccceeeEEec
Q 037935          635 DDSILPDGL--FTKKLERFDISIG  656 (1085)
Q Consensus       635 ~~~~~~~~~--~l~~L~~L~l~~~  656 (1085)
                      .+..++...  .+++|+.|++..+
T Consensus       166 ~l~~~~~~~~~~l~~L~~L~l~~N  189 (251)
T 3m19_A          166 QLQSVPHGAFDRLGKLQTITLFGN  189 (251)
T ss_dssp             CCSCCCTTTTTTCTTCCEEECCSC
T ss_pred             cCCccCHHHHhCCCCCCEEEeeCC
Confidence            999888754  7889999988654

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.44  E-value=1.7e-13  Score=140.09  Aligned_cols=143  Identities=20%  Similarity=0.305  Sum_probs=103.4

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCch-hhhccccccEEeccC
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLTD  573 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~Ls~  573 (1085)
                      +.+...++.+..+|... .++|+.|++.+|.   +..++...|.++++|++|++++|.++.+|. .+..+++|++|++++
T Consensus        10 ~~v~c~~~~l~~~p~~~-~~~l~~L~l~~n~---l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~   85 (208)
T 2o6s_A           10 TTVECYSQGRTSVPTGI-PAQTTYLDLETNS---LKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLST   85 (208)
T ss_dssp             TEEECCSSCCSSCCSCC-CTTCSEEECCSSC---CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEecCCCccCCCCCC-CCCCcEEEcCCCc---cCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCC
Confidence            34566666677776554 4678888888886   567777778888888888888888888765 457888888888888


Q ss_pred             cccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--ccccccee
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLERF  651 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~L  651 (1085)
                      | .++.+|...++++++|++|++++|.+..           .....+.++++|++|++++|.+..++...  .+++|+.|
T Consensus        86 n-~l~~~~~~~~~~l~~L~~L~L~~N~l~~-----------~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L  153 (208)
T 2o6s_A           86 N-QLQSLPNGVFDKLTQLKELALNTNQLQS-----------LPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYI  153 (208)
T ss_dssp             S-CCCCCCTTTTTTCTTCCEEECCSSCCCC-----------CCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEE
T ss_pred             C-cCCccCHhHhcCccCCCEEEcCCCcCcc-----------cCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEE
Confidence            8 8888888777888888888888887732           22334677888888888888777665532  33444444


Q ss_pred             eE
Q 037935          652 DI  653 (1085)
Q Consensus       652 ~l  653 (1085)
                      ++
T Consensus       154 ~l  155 (208)
T 2o6s_A          154 WL  155 (208)
T ss_dssp             EC
T ss_pred             Ee
Confidence            43

>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

Probab=99.43  E-value=1.3e-13  Score=148.63  Aligned_cols=135  Identities=16%  Similarity=0.190  Sum_probs=100.1

Q ss_pred             EEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCccc
Q 037935          497 ISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQ  576 (1085)
Q Consensus       497 Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~  576 (1085)
                      +.+....+..+.....+++|+.|++.+|.   +..++.  +..+++|++|++++|.++.++. ++++++|++|++++| .
T Consensus        29 ~~l~~~~~~~~~~~~~l~~L~~L~l~~~~---i~~~~~--~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n-~  101 (291)
T 1h6t_A           29 DNLKKKSVTDAVTQNELNSIDQIIANNSD---IKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDEN-K  101 (291)
T ss_dssp             HHTTCSCTTSEECHHHHHTCCEEECTTSC---CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-C
T ss_pred             HHhcCCCcccccchhhcCcccEEEccCCC---cccChh--HhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCCC-c
Confidence            33444444444433467889999998886   566654  7788999999999999998876 889999999999999 8


Q ss_pred             ccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccceeeE
Q 037935          577 LKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDI  653 (1085)
Q Consensus       577 l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l  653 (1085)
                      ++.+|.  ++++++|++|++++|.+..             +..+..+++|+.|++++|.+..++.-..+++|+.|++
T Consensus       102 l~~~~~--l~~l~~L~~L~L~~n~i~~-------------~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L  163 (291)
T 1h6t_A          102 VKDLSS--LKDLKKLKSLSLEHNGISD-------------INGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSL  163 (291)
T ss_dssp             CCCGGG--GTTCTTCCEEECTTSCCCC-------------CGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEEC
T ss_pred             CCCChh--hccCCCCCEEECCCCcCCC-------------ChhhcCCCCCCEEEccCCcCCcchhhccCCCCCEEEc
Confidence            888776  6899999999999998731             2457788899999999888776532224444444444

>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

Probab=99.40  E-value=7.3e-13  Score=156.84  Aligned_cols=100  Identities=26%  Similarity=0.286  Sum_probs=49.3

Q ss_pred             cceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEecc
Q 037935          493 KCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLT  572 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls  572 (1085)
                      .++.|++.++.+..++....+++|+.|++++|.   +..+++  |..+++|++|+|++|.+..+| .++.+++|++|+|+
T Consensus        44 ~L~~L~l~~n~i~~l~~l~~l~~L~~L~Ls~N~---l~~~~~--l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls  117 (605)
T 1m9s_A           44 SIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK---LTDIKP--LTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSLSLE  117 (605)
T ss_dssp             TCCCCBCTTCCCCCCTTGGGCTTCCEEECTTSC---CCCCGG--GGGCTTCCEEECCSSCCCCCT-TSTTCTTCCEEECT
T ss_pred             CCCEEECcCCCCCCChHHccCCCCCEEEeeCCC---CCCChh--hccCCCCCEEECcCCCCCCCh-hhccCCCCCEEEec
Confidence            445555555555544443345555555555544   333333  444555555555555555444 34555555555555


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCc
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      +| .+..++.  +..|++|++|+|++|.+
T Consensus       118 ~N-~l~~l~~--l~~l~~L~~L~Ls~N~l  143 (605)
T 1m9s_A          118 HN-GISDING--LVHLPQLESLYLGNNKI  143 (605)
T ss_dssp             TS-CCCCCGG--GGGCTTCSEEECCSSCC
T ss_pred             CC-CCCCCcc--ccCCCccCEEECCCCcc
Confidence            55 4444432  35555555555555544

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.40  E-value=5.7e-13  Score=148.91  Aligned_cols=177  Identities=17%  Similarity=0.161  Sum_probs=141.0

Q ss_pred             ceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhc-CCCcceEEEecCCcccCCc-hhhhccccccEEec
Q 037935          494 CYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFK-GMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDL  571 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~-~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L  571 (1085)
                      .+.++++++.+..+|..+ .+.++.|++++|.   +..++...|. ++++|++|+|++|.|+.+| ..|.++++|++|+|
T Consensus        20 ~~~l~c~~~~l~~iP~~~-~~~l~~L~Ls~N~---l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~L   95 (361)
T 2xot_A           20 SNILSCSKQQLPNVPQSL-PSYTALLDLSHNN---LSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDL   95 (361)
T ss_dssp             TTEEECCSSCCSSCCSSC-CTTCSEEECCSSC---CCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CCEEEeCCCCcCccCccC-CCCCCEEECCCCC---CCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEEC
Confidence            357888889999998765 3579999999997   7788888787 8999999999999999986 56999999999999


Q ss_pred             cCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCccccccccee
Q 037935          572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERF  651 (1085)
Q Consensus       572 s~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L  651 (1085)
                      ++| .++.+++..|.++.+|++|+|++|.+.           ...+..+..+++|+.|++++|.+..+|....       
T Consensus        96 s~N-~l~~~~~~~~~~l~~L~~L~L~~N~i~-----------~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~-------  156 (361)
T 2xot_A           96 SSN-HLHTLDEFLFSDLQALEVLLLYNNHIV-----------VVDRNAFEDMAQLQKLYLSQNQISRFPVELI-------  156 (361)
T ss_dssp             CSS-CCCEECTTTTTTCTTCCEEECCSSCCC-----------EECTTTTTTCTTCCEEECCSSCCCSCCGGGT-------
T ss_pred             CCC-cCCcCCHHHhCCCcCCCEEECCCCccc-----------EECHHHhCCcccCCEEECCCCcCCeeCHHHh-------
Confidence            999 999999988899999999999999984           3344568899999999999998887665320       


Q ss_pred             eEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccch
Q 037935          652 DISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSA  731 (1085)
Q Consensus       652 ~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~  731 (1085)
                                                                            ..+..+++|+.|+|++| .+..+ +.
T Consensus       157 ------------------------------------------------------~~~~~l~~L~~L~L~~N-~l~~l-~~  180 (361)
T 2xot_A          157 ------------------------------------------------------KDGNKLPKLMLLDLSSN-KLKKL-PL  180 (361)
T ss_dssp             ------------------------------------------------------C----CTTCCEEECCSS-CCCCC-CH
T ss_pred             ------------------------------------------------------cCcccCCcCCEEECCCC-CCCcc-CH
Confidence                                                                  00124668888888876 45555 34


Q ss_pred             hhHhhccc--ccEEEecccc
Q 037935          732 STIQSLEQ--LQHLEIRLCK  749 (1085)
Q Consensus       732 ~~l~~l~~--L~~L~l~~~~  749 (1085)
                      ..+..++.  |+.|++.+|+
T Consensus       181 ~~~~~l~~~~l~~l~l~~N~  200 (361)
T 2xot_A          181 TDLQKLPAWVKNGLYLHNNP  200 (361)
T ss_dssp             HHHHHSCHHHHTTEECCSSC
T ss_pred             HHhhhccHhhcceEEecCCC
Confidence            56777776  4788888876

>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}

Probab=99.39  E-value=1.1e-12  Score=136.03  Aligned_cols=145  Identities=19%  Similarity=0.249  Sum_probs=118.4

Q ss_pred             ceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCch-hhhccccccEEecc
Q 037935          494 CYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLT  572 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~Ls  572 (1085)
                      ...++.+++.+..+|..+. ++|+.|++++|.   +..+++..|.++++|++|+|++|.+..+|. .+.++++|++|+|+
T Consensus        21 ~~~v~c~~~~l~~ip~~~~-~~L~~L~Ls~n~---i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls   96 (229)
T 3e6j_A           21 GTTVDCRSKRHASVPAGIP-TNAQILYLHDNQ---ITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLG   96 (229)
T ss_dssp             TTEEECTTSCCSSCCSCCC-TTCSEEECCSSC---CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEeEccCCCcCccCCCCC-CCCCEEEcCCCc---cCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECC
Confidence            4557777888888887653 889999999887   667766778889999999999999988874 46889999999999


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--cccccce
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLER  650 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~  650 (1085)
                      +| .++.+|+..|..+++|++|++++|.+.            ..+..+..+++|++|++++|.+..++...  .+++|+.
T Consensus        97 ~N-~l~~l~~~~~~~l~~L~~L~Ls~N~l~------------~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~  163 (229)
T 3e6j_A           97 TN-QLTVLPSAVFDRLVHLKELFMCCNKLT------------ELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTH  163 (229)
T ss_dssp             SS-CCCCCCTTTTTTCTTCCEEECCSSCCC------------SCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             CC-cCCccChhHhCcchhhCeEeccCCccc------------ccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCE
Confidence            99 899998887889999999999999873            23455688899999999999988888653  6788888


Q ss_pred             eeEEe
Q 037935          651 FDISI  655 (1085)
Q Consensus       651 L~l~~  655 (1085)
                      |++..
T Consensus       164 L~l~~  168 (229)
T 3e6j_A          164 AYLFG  168 (229)
T ss_dssp             EECTT
T ss_pred             EEeeC
Confidence            87754

>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

Probab=99.39  E-value=3.6e-13  Score=159.47  Aligned_cols=187  Identities=15%  Similarity=0.180  Sum_probs=139.8

Q ss_pred             cceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEecc
Q 037935          493 KCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLT  572 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls  572 (1085)
                      .+.++.+..+.+..+.....+++|+.|.+.+|.   +..++.  |..+++|++|+|++|.+..+|. ++.+++|++|+|+
T Consensus        22 ~l~~l~l~~~~i~~~~~~~~L~~L~~L~l~~n~---i~~l~~--l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls   95 (605)
T 1m9s_A           22 ETIKDNLKKKSVTDAVTQNELNSIDQIIANNSD---IKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLD   95 (605)
T ss_dssp             HHHHHHTTCSCTTSEECHHHHTTCCCCBCTTCC---CCCCTT--GGGCTTCCEEECTTSCCCCCGG-GGGCTTCCEEECC
T ss_pred             HHHHHhccCCCcccccchhcCCCCCEEECcCCC---CCCChH--HccCCCCCEEEeeCCCCCCChh-hccCCCCCEEECc
Confidence            344445555555555554567899999999887   666664  7889999999999999999886 9999999999999


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccceee
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFD  652 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~  652 (1085)
                      +| .+..+|.  +.++++|++|+|++|.+..             +..+..+++|+.|++++|.+..++.-..+++|+.|+
T Consensus        96 ~N-~l~~l~~--l~~l~~L~~L~Ls~N~l~~-------------l~~l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L~  159 (605)
T 1m9s_A           96 EN-KIKDLSS--LKDLKKLKSLSLEHNGISD-------------INGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLS  159 (605)
T ss_dssp             SS-CCCCCTT--STTCTTCCEEECTTSCCCC-------------CGGGGGCTTCSEEECCSSCCCCCGGGGSCTTCSEEE
T ss_pred             CC-CCCCChh--hccCCCCCEEEecCCCCCC-------------CccccCCCccCEEECCCCccCCchhhcccCCCCEEE
Confidence            99 9998874  6999999999999998831             245889999999999999888774333666777766


Q ss_pred             EEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchh
Q 037935          653 ISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSAS  732 (1085)
Q Consensus       653 l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~  732 (1085)
                      ++.+.                                          .....|  +..+++|+.|+|++|. +..++   
T Consensus       160 Ls~N~------------------------------------------l~~~~~--l~~l~~L~~L~Ls~N~-i~~l~---  191 (605)
T 1m9s_A          160 LEDNQ------------------------------------------ISDIVP--LAGLTKLQNLYLSKNH-ISDLR---  191 (605)
T ss_dssp             CCSSC------------------------------------------CCCCGG--GTTCTTCCEEECCSSC-CCBCG---
T ss_pred             CcCCc------------------------------------------CCCchh--hccCCCCCEEECcCCC-CCCCh---
Confidence            64321                                          111112  5567788888888764 44442   


Q ss_pred             hHhhcccccEEEecccc
Q 037935          733 TIQSLEQLQHLEIRLCK  749 (1085)
Q Consensus       733 ~l~~l~~L~~L~l~~~~  749 (1085)
                      .+..+++|+.|++++|.
T Consensus       192 ~l~~l~~L~~L~L~~N~  208 (605)
T 1m9s_A          192 ALAGLKNLDVLELFSQE  208 (605)
T ss_dssp             GGTTCTTCSEEECCSEE
T ss_pred             HHccCCCCCEEEccCCc
Confidence            37778888888888776

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.38  E-value=7.1e-13  Score=136.32  Aligned_cols=146  Identities=12%  Similarity=0.195  Sum_probs=111.7

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCcccccc-ChhhhcCCCcceEEEecCCcccCCch-hhhccccccEEecc
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNI-PDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLT  572 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l-~~~~~~~l~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~Ls  572 (1085)
                      +.++++++.+..+|..+ .+.++.|++++|.   +..+ +..+|.++++|++|+|++|.++.++. .|+++++|++|+|+
T Consensus        14 ~~l~~s~n~l~~iP~~~-~~~~~~L~L~~N~---l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls   89 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHI-PQYTAELRLNNNE---FTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLT   89 (220)
T ss_dssp             TEEECCSSCCSSCCSCC-CTTCSEEECCSSC---CCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CEeEeCCCCcccCccCC-CCCCCEEEcCCCc---CCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECC
Confidence            46788888888887654 3567888888887   5555 44567888888888888888888764 78888888888888


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCC-cc-cccccce
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPD-GL-FTKKLER  650 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~-~~-~l~~L~~  650 (1085)
                      +| .++.+|++.|+++++|++|++++|.+.           ...+..+..+++|++|++++|.+..++. .+ .+++|+.
T Consensus        90 ~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~-----------~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~  157 (220)
T 2v70_A           90 SN-RLENVQHKMFKGLESLKTLMLRSNRIT-----------CVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLST  157 (220)
T ss_dssp             SS-CCCCCCGGGGTTCSSCCEEECTTSCCC-----------CBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCE
T ss_pred             CC-ccCccCHhHhcCCcCCCEEECCCCcCC-----------eECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCE
Confidence            88 888888877788888888888888873           3334557788888888888888887743 33 6778888


Q ss_pred             eeEEec
Q 037935          651 FDISIG  656 (1085)
Q Consensus       651 L~l~~~  656 (1085)
                      |++..+
T Consensus       158 L~L~~N  163 (220)
T 2v70_A          158 LNLLAN  163 (220)
T ss_dssp             EECCSC
T ss_pred             EEecCc
Confidence            877543

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.38  E-value=3.2e-11  Score=134.64  Aligned_cols=271  Identities=14%  Similarity=0.119  Sum_probs=161.0

Q ss_pred             CCCCccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc------CHHHHH
Q 037935          157 NKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP------DIKKIQ  230 (1085)
Q Consensus       157 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~------~~~~~~  230 (1085)
                      ...+..|+||+.+++++.+++..+  +++.|+|++|+|||||++++++..      + .+|+++....      +...+.
T Consensus         8 ~~~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~~~~~   78 (350)
T 2qen_A            8 KTRREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITREELI   78 (350)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCHHHHH
T ss_pred             CCChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCHHHHH
Confidence            344567999999999999988754  799999999999999999998764      2 6788775432      566777


Q ss_pred             HHHHHHhCC-----------------CCC--CchHHHHHHHHHHHHHcCCcEEEEEeCCCCccc---------ccccc--
Q 037935          231 GEIAEKLGL-----------------ELS--DEAEYRRASRLYERLKNENKILVILDNIWKYLD---------LDTIG--  280 (1085)
Q Consensus       231 ~~i~~~l~~-----------------~~~--~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~---------~~~~~--  280 (1085)
                      +.+.+.+..                 ...  ..........+.+.....++++||+||++....         +..+.  
T Consensus        79 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~  158 (350)
T 2qen_A           79 KELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYA  158 (350)
T ss_dssp             HHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHH
Confidence            777666542                 000  011112222222222222499999999976432         11000  


Q ss_pred             -------------cc---cC------C-----CCC-CcEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCC
Q 037935          281 -------------IP---FG------N-----DHE-GYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGG  332 (1085)
Q Consensus       281 -------------~~---~~------~-----~~~-gs~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~g  332 (1085)
                                   ..   +.      .     .+. ...+-+.||+.+|+.+++........ ...-.+.+..|++.++|
T Consensus       159 ~~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~-~~~~~~~~~~i~~~tgG  237 (350)
T 2qen_A          159 YDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVN-LDVPENEIEEAVELLDG  237 (350)
T ss_dssp             HHHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTT-CCCCHHHHHHHHHHHTT
T ss_pred             HHhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHhCC
Confidence                         00   00      0     011 12566699999999999987642111 11225678899999999


Q ss_pred             chHHHHHHHHHHh-cCCHHHHH-HHHHHhcCCCCCCCCCCcccchhhHHHHHhcC---ChHHHHHHHHhccccCCCCCHH
Q 037935          333 LPIALTTVARALR-NKSLHEWK-NALRELQTPSVVNFEGVPAETYSSIELSFKYL---KGEQLKKIFLLCSLIGNSFYLI  407 (1085)
Q Consensus       333 lPlai~~~~~~l~-~~~~~~w~-~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L---~~~~~k~cf~~~s~fp~~i~~~  407 (1085)
                      .|+++..++..+. ..+...+. .+.+.               +...+.-.+..+   ++ ..+..+..+|. . .++..
T Consensus       238 ~P~~l~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~l~~l~~~~~-~~~~~l~~la~-g-~~~~~  299 (350)
T 2qen_A          238 IPGWLVVFGVEYLRNGDFGRAMKRTLEV---------------AKGLIMGELEELRRRSP-RYVDILRAIAL-G-YNRWS  299 (350)
T ss_dssp             CHHHHHHHHHHHHHHCCHHHHHHHHHHH---------------HHHHHHHHHHHHHHHCH-HHHHHHHHHHT-T-CCSHH
T ss_pred             CHHHHHHHHHHHhccccHhHHHHHHHHH---------------HHHHHHHHHHHHHhCCh-hHHHHHHHHHh-C-CCCHH
Confidence            9999999887643 23333221 11111               111111112222   54 67888888887 2 25656


Q ss_pred             HHHHHHhh-cCCCCCCchHHHHHHHHHHHHHHHhHcccceecCCcceEEE-cHHHHHHHH
Q 037935          408 DLLRYSMG-LGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYM-HDVVCDVAV  465 (1085)
Q Consensus       408 ~li~~w~~-~g~~~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~~~~~~~m-Hdl~~~~~~  465 (1085)
                      .+....-. .|    +.+..+    ...+++.|.+.+++...+  +.|++ |.+++++.+
T Consensus       300 ~l~~~~~~~~~----~~~~~~----~~~~l~~L~~~gli~~~~--~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          300 LIRDYLAVKGT----KIPEPR----LYALLENLKKMNWIVEED--NTYKIADPVVATVLR  349 (350)
T ss_dssp             HHHHHHHHTTC----CCCHHH----HHHHHHHHHHTTSEEEET--TEEEESSHHHHHHHT
T ss_pred             HHHHHHHHHhC----CCCHHH----HHHHHHHHHhCCCEEecC--CEEEEecHHHHHHHc
Confidence            66554321 11    111222    334588999999997652  44554 778887654

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.37  E-value=1.5e-12  Score=133.12  Aligned_cols=134  Identities=19%  Similarity=0.251  Sum_probs=116.6

Q ss_pred             cccccceEEEeeccCccccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchh-hhcccc
Q 037935          489 DALKKCYAISLLNSSIHEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS-IGQLTK  565 (1085)
Q Consensus       489 ~~~~~~r~Lsl~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~-i~~L~~  565 (1085)
                      ....++++|++++|.+..++..  ..+++|++|++.+|.   ...++...|.++++|++|++++|.++.+|.. ++++++
T Consensus        25 ~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~---l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  101 (208)
T 2o6s_A           25 GIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNK---LQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQ  101 (208)
T ss_dssp             CCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC---CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             CCCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCc---cCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccC
Confidence            3456899999999999988764  388999999999997   6788888899999999999999999998754 689999


Q ss_pred             ccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          566 LRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       566 L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      |++|++++| .++.+|+..+.++++|++|++++|.+.           ......+..+++|++|++++|.+.
T Consensus       102 L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~l~-----------~~~~~~~~~l~~L~~L~l~~N~~~  161 (208)
T 2o6s_A          102 LKELALNTN-QLQSLPDGVFDKLTQLKDLRLYQNQLK-----------SVPDGVFDRLTSLQYIWLHDNPWD  161 (208)
T ss_dssp             CCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCS-----------CCCTTTTTTCTTCCEEECCSCCBC
T ss_pred             CCEEEcCCC-cCcccCHhHhccCCcCCEEECCCCccc-----------eeCHHHhccCCCccEEEecCCCee
Confidence            999999999 999999987899999999999999884           222344788999999999999654

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.37  E-value=1.5e-12  Score=131.57  Aligned_cols=62  Identities=18%  Similarity=0.273  Sum_probs=28.2

Q ss_pred             hcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccc-cchhhhhccccCCEEeccCCCc
Q 037935          537 FKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKF-IVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       537 ~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~-lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      +..+++|++|++++|.++.++ .+..+++|++|++++| .++. .|.. ++++++|++|++++|.+
T Consensus        62 l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n-~l~~~~~~~-l~~l~~L~~L~Ls~n~i  124 (197)
T 4ezg_A           62 IEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGK-DVTSDKIPN-LSGLTSLTLLDISHSAH  124 (197)
T ss_dssp             GGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECT-TCBGGGSCC-CTTCTTCCEEECCSSBC
T ss_pred             HhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECC-ccCcccChh-hcCCCCCCEEEecCCcc
Confidence            344444555555544444333 3444455555555554 4443 2222 34455555555555444

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.35  E-value=2.7e-12  Score=129.66  Aligned_cols=149  Identities=15%  Similarity=0.124  Sum_probs=124.0

Q ss_pred             cccccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC-Cchhhhcccccc
Q 037935          489 DALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS-LPSSIGQLTKLR  567 (1085)
Q Consensus       489 ~~~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~-lp~~i~~L~~L~  567 (1085)
                      ....++++|+++++.+..++....+++|++|++.+|.   ...++  .+..+++|++|++++|.++. .|..++++++|+
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~---~~~~~--~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~  115 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIH---ATNYN--PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLT  115 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCC---CSCCG--GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCC
T ss_pred             hhcCCccEEeccCCCccChHHHhcCCCCCEEEccCCC---CCcch--hhhcCCCCCEEEeECCccCcccChhhcCCCCCC
Confidence            3456799999999999988866689999999999985   45544  48889999999999999986 677899999999


Q ss_pred             EEeccCcccccccchhhhhccccCCEEeccCCC-cchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCccccc
Q 037935          568 MLDLTDCLQLKFIVPNILSSFTRLEELYMGSCS-IKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTK  646 (1085)
Q Consensus       568 ~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~-~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~  646 (1085)
                      +|++++| .++......++++++|++|++++|. +.            .. ..+..+++|++|++++|.+..++.-..++
T Consensus       116 ~L~Ls~n-~i~~~~~~~l~~l~~L~~L~L~~n~~i~------------~~-~~l~~l~~L~~L~l~~n~i~~~~~l~~l~  181 (197)
T 4ezg_A          116 LLDISHS-AHDDSILTKINTLPKVNSIDLSYNGAIT------------DI-MPLKTLPELKSLNIQFDGVHDYRGIEDFP  181 (197)
T ss_dssp             EEECCSS-BCBGGGHHHHTTCSSCCEEECCSCTBCC------------CC-GGGGGCSSCCEEECTTBCCCCCTTGGGCS
T ss_pred             EEEecCC-ccCcHhHHHHhhCCCCCEEEccCCCCcc------------cc-HhhcCCCCCCEEECCCCCCcChHHhccCC
Confidence            9999999 8886444456999999999999998 42            12 35889999999999999998887444888


Q ss_pred             ccceeeEEec
Q 037935          647 KLERFDISIG  656 (1085)
Q Consensus       647 ~L~~L~l~~~  656 (1085)
                      +|+.|++..+
T Consensus       182 ~L~~L~l~~N  191 (197)
T 4ezg_A          182 KLNQLYAFSQ  191 (197)
T ss_dssp             SCCEEEECBC
T ss_pred             CCCEEEeeCc
Confidence            9999988643

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.35  E-value=5.6e-13  Score=141.30  Aligned_cols=125  Identities=20%  Similarity=0.234  Sum_probs=74.0

Q ss_pred             cccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEe
Q 037935          491 LKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLD  570 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~  570 (1085)
                      ..++..+.+..+.+..++....+++|++|++.+|.   +..++  .+..+++|++|++++|.++.+|. ++++++|++|+
T Consensus        18 l~~l~~l~l~~~~i~~~~~~~~l~~L~~L~l~~n~---i~~l~--~l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~   91 (263)
T 1xeu_A           18 LANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSN---IQSLA--GMQFFTNLKELHLSHNQISDLSP-LKDLTKLEELS   91 (263)
T ss_dssp             HHHHHHHHHTCSCTTSEECHHHHTTCSEEECTTSC---CCCCT--TGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEE
T ss_pred             HHHHHHHHhcCCCcccccchhhcCcCcEEECcCCC---cccch--HHhhCCCCCEEECCCCccCCChh-hccCCCCCEEE
Confidence            33444555555555555543455666666666665   44555  25666666666666666666665 66666666666


Q ss_pred             ccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCC
Q 037935          571 LTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI  638 (1085)
Q Consensus       571 Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  638 (1085)
                      +++| .++.+|..  .. .+|++|++++|.+..             +..+..+++|+.|++++|.++.
T Consensus        92 L~~N-~l~~l~~~--~~-~~L~~L~L~~N~l~~-------------~~~l~~l~~L~~L~Ls~N~i~~  142 (263)
T 1xeu_A           92 VNRN-RLKNLNGI--PS-ACLSRLFLDNNELRD-------------TDSLIHLKNLEILSIRNNKLKS  142 (263)
T ss_dssp             CCSS-CCSCCTTC--CC-SSCCEEECCSSCCSB-------------SGGGTTCTTCCEEECTTSCCCB
T ss_pred             CCCC-ccCCcCcc--cc-CcccEEEccCCccCC-------------ChhhcCcccccEEECCCCcCCC
Confidence            6666 66666652  33 666666666666521             1235566666666666665543

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.34  E-value=6.1e-12  Score=147.05  Aligned_cols=180  Identities=21%  Similarity=0.242  Sum_probs=128.4

Q ss_pred             cceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEecc
Q 037935          493 KCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLT  572 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls  572 (1085)
                      +++.|++++|.+..+|..+ +++|++|++++|.   +..+|    ..+++|++|++++|.++.+|. +++  +|++|+++
T Consensus        60 ~L~~L~Ls~n~L~~lp~~l-~~~L~~L~Ls~N~---l~~ip----~~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~Ls  128 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPDNL-PPQITVLEITQNA---LISLP----ELPASLEYLDACDNRLSTLPE-LPA--SLKHLDVD  128 (571)
T ss_dssp             TCSEEECCSSCCSCCCSCC-CTTCSEEECCSSC---CSCCC----CCCTTCCEEECCSSCCSCCCC-CCT--TCCEEECC
T ss_pred             CccEEEeCCCCCCccCHhH-cCCCCEEECcCCC---Ccccc----cccCCCCEEEccCCCCCCcch-hhc--CCCEEECC
Confidence            5778888888888887755 4788999998887   56777    346888899999998888887 655  88999999


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccceee
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFD  652 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~  652 (1085)
                      +| .++.+|.    .+++|++|++++|.+..            .+.   .+++|++|++++|.+..+|. +. ++|+.|+
T Consensus       129 ~N-~l~~lp~----~l~~L~~L~Ls~N~l~~------------lp~---~l~~L~~L~Ls~N~L~~lp~-l~-~~L~~L~  186 (571)
T 3cvr_A          129 NN-QLTMLPE----LPALLEYINADNNQLTM------------LPE---LPTSLEVLSVRNNQLTFLPE-LP-ESLEALD  186 (571)
T ss_dssp             SS-CCSCCCC----CCTTCCEEECCSSCCSC------------CCC---CCTTCCEEECCSSCCSCCCC-CC-TTCCEEE
T ss_pred             CC-cCCCCCC----cCccccEEeCCCCccCc------------CCC---cCCCcCEEECCCCCCCCcch-hh-CCCCEEE
Confidence            88 8888886    57888999999888732            111   46788889999888888877 54 7777777


Q ss_pred             EEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccc-----cccccEEEEcCCCCCcc
Q 037935          653 ISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPC-----FQSLTRLIVWGCDKLKY  727 (1085)
Q Consensus       653 l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~-----l~~L~~L~L~~~~~l~~  727 (1085)
                      ++.+.                                          . ..+|. +..     .+.|+.|+|++| .++.
T Consensus       187 Ls~N~------------------------------------------L-~~lp~-~~~~L~~~~~~L~~L~Ls~N-~l~~  221 (571)
T 3cvr_A          187 VSTNL------------------------------------------L-ESLPA-VPVRNHHSEETEIFFRCREN-RITH  221 (571)
T ss_dssp             CCSSC------------------------------------------C-SSCCC-CC--------CCEEEECCSS-CCCC
T ss_pred             CcCCC------------------------------------------C-Cchhh-HHHhhhcccccceEEecCCC-ccee
Confidence            75331                                          0 01232 221     122388888776 4455


Q ss_pred             ccchhhHhhcccccEEEeccccchH
Q 037935          728 IFSASTIQSLEQLQHLEIRLCKSLQ  752 (1085)
Q Consensus       728 l~~~~~l~~l~~L~~L~l~~~~~l~  752 (1085)
                      +|.  .+..+++|+.|++++|....
T Consensus       222 lp~--~l~~l~~L~~L~L~~N~l~~  244 (571)
T 3cvr_A          222 IPE--NILSLDPTCTIILEDNPLSS  244 (571)
T ss_dssp             CCG--GGGGSCTTEEEECCSSSCCH
T ss_pred             cCH--HHhcCCCCCEEEeeCCcCCC
Confidence            533  35668888888888887433

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.34  E-value=2.5e-12  Score=140.46  Aligned_cols=151  Identities=11%  Similarity=0.066  Sum_probs=108.5

Q ss_pred             ccceEEEeeccCcccc-ccc---CCCCCcceeeeccCCCccccc---cChhhhcCCCcceEEEecCCcccCCc-hhhhcc
Q 037935          492 KKCYAISLLNSSIHEV-SLE---FECPQLEFLHIDPKITFAELN---IPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQL  563 (1085)
Q Consensus       492 ~~~r~Lsl~~~~~~~l-~~~---~~~~~Lr~L~l~~~~~~~~~~---l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L  563 (1085)
                      ..++.|++++|.+... +..   ..+++|++|++++|..  ...   ++...+..+++|++|+|++|.+..+| ..++++
T Consensus        91 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i--~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l  168 (310)
T 4glp_A           91 SRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSW--ATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAF  168 (310)
T ss_dssp             SCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCC--SSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCC
T ss_pred             CceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccc--cchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccC
Confidence            3589999999988654 333   4688999999999873  112   22234557999999999999998875 678899


Q ss_pred             ccccEEeccCcccccc---cchh-hhhccccCCEEeccCCCcchhhcccCCccccccHHH-hhcCCCCcEEEEEeccCCC
Q 037935          564 TKLRMLDLTDCLQLKF---IVPN-ILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDE-LMHLQRLTTLEIDVEDDSI  638 (1085)
Q Consensus       564 ~~L~~L~Ls~~~~l~~---lp~~-~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~-l~~L~~L~~L~l~~~~~~~  638 (1085)
                      ++|++|+|++| .+..   ++.. .++++++|++|++++|.+...+         ..+.. +..+++|++|++++|.+..
T Consensus       169 ~~L~~L~Ls~N-~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~---------~~~~~l~~~l~~L~~L~Ls~N~l~~  238 (310)
T 4glp_A          169 PALTSLDLSDN-PGLGERGLMAALCPHKFPAIQNLALRNTGMETPT---------GVCAALAAAGVQPHSLDLSHNSLRA  238 (310)
T ss_dssp             TTCCEEECCSC-TTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHH---------HHHHHHHHHTCCCSSEECTTSCCCC
T ss_pred             CCCCEEECCCC-CCccchhhhHHHhhhcCCCCCEEECCCCCCCchH---------HHHHHHHhcCCCCCEEECCCCCCCc
Confidence            99999999999 6543   3322 2378999999999999884211         11222 5788999999999999887


Q ss_pred             C-CCcc-c---ccccceeeEE
Q 037935          639 L-PDGL-F---TKKLERFDIS  654 (1085)
Q Consensus       639 ~-~~~~-~---l~~L~~L~l~  654 (1085)
                      . |..+ .   +++|+.|+++
T Consensus       239 ~~p~~~~~~~~~~~L~~L~Ls  259 (310)
T 4glp_A          239 TVNPSAPRCMWSSALNSLNLS  259 (310)
T ss_dssp             CCCSCCSSCCCCTTCCCEECC
T ss_pred             cchhhHHhccCcCcCCEEECC
Confidence            6 4443 2   2455555553

>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

Probab=99.33  E-value=3.5e-12  Score=125.20  Aligned_cols=139  Identities=22%  Similarity=0.233  Sum_probs=113.2

Q ss_pred             ccccceEEEeeccCcc--cccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC-Cchhhhcccc
Q 037935          490 ALKKCYAISLLNSSIH--EVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS-LPSSIGQLTK  565 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~--~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~-lp~~i~~L~~  565 (1085)
                      .+.++++|++++|.+.  .+|..+ .+++|++|++.+|.   +..+  ..|..+++|++|++++|.++. +|..++++++
T Consensus        22 ~~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~---l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~   96 (168)
T 2ell_A           22 TPAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVG---LISV--SNLPKLPKLKKLELSENRIFGGLDMLAEKLPN   96 (168)
T ss_dssp             CTTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSC---CCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTT
T ss_pred             CcccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCC---CCCh--hhhccCCCCCEEECcCCcCchHHHHHHhhCCC
Confidence            3467999999999988  788764 78999999999987   4555  458889999999999999998 7888888999


Q ss_pred             ccEEeccCcccccccch-hhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCc
Q 037935          566 LRMLDLTDCLQLKFIVP-NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDG  642 (1085)
Q Consensus       566 L~~L~Ls~~~~l~~lp~-~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  642 (1085)
                      |++|++++| .++.+|. ..++++++|++|++++|.+...++        .....+..+++|++|+++.|....+|..
T Consensus        97 L~~L~Ls~N-~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~--------~~~~~~~~l~~L~~L~l~~n~~~~~~~~  165 (168)
T 2ell_A           97 LTHLNLSGN-KLKDISTLEPLKKLECLKSLDLFNCEVTNLND--------YRESVFKLLPQLTYLDGYDREDQEAPDS  165 (168)
T ss_dssp             CCEEECBSS-SCCSSGGGGGGSSCSCCCEEECCSSGGGTSTT--------HHHHHHTTCSSCCEETTEETTSCBCCSS
T ss_pred             CCEEeccCC-ccCcchhHHHHhcCCCCCEEEeeCCcCcchHH--------HHHHHHHhCccCcEecCCCCChhhcccc
Confidence            999999999 9998873 346899999999999998742110        0114688899999999999988877754

>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

Probab=99.32  E-value=3.3e-12  Score=131.29  Aligned_cols=144  Identities=15%  Similarity=0.215  Sum_probs=121.2

Q ss_pred             ecCccccCCCccccccceEEEeeccCccccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC
Q 037935          478 RNDAVWEWPDGDALKKCYAISLLNSSIHEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS  555 (1085)
Q Consensus       478 ~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~  555 (1085)
                      .+..+...|. ..+..++.|++++|.+..++..  ..+++|+.|++++|.   +..+++..|.++++|++|+|++|.++.
T Consensus        19 ~~~~l~~iP~-~l~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~---i~~~~~~~~~~l~~L~~L~Ls~N~l~~   94 (220)
T 2v9t_B           19 RGKGLTEIPT-NLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQ---ISELAPDAFQGLRSLNSLVLYGNKITE   94 (220)
T ss_dssp             TTSCCSSCCS-SCCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSC---CCEECTTTTTTCSSCCEEECCSSCCCC
T ss_pred             CCCCcCcCCC-ccCcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCc---CCCcCHHHhhCCcCCCEEECCCCcCCc
Confidence            3444444443 3457899999999999988753  378999999999998   677777779999999999999999999


Q ss_pred             Cchh-hhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEec
Q 037935          556 LPSS-IGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVE  634 (1085)
Q Consensus       556 lp~~-i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  634 (1085)
                      +|.. +.++++|++|+|++| .++.+++..|.++++|++|+|++|.+..           .....+..+++|+.|++++|
T Consensus        95 l~~~~f~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~~-----------~~~~~~~~l~~L~~L~L~~N  162 (220)
T 2v9t_B           95 LPKSLFEGLFSLQLLLLNAN-KINCLRVDAFQDLHNLNLLSLYDNKLQT-----------IAKGTFSPLRAIQTMHLAQN  162 (220)
T ss_dssp             CCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCSC-----------CCTTTTTTCTTCCEEECCSS
T ss_pred             cCHhHccCCCCCCEEECCCC-CCCEeCHHHcCCCCCCCEEECCCCcCCE-----------ECHHHHhCCCCCCEEEeCCC
Confidence            9865 689999999999999 9999988888999999999999999843           23345788999999999998


Q ss_pred             cCC
Q 037935          635 DDS  637 (1085)
Q Consensus       635 ~~~  637 (1085)
                      .+.
T Consensus       163 ~~~  165 (220)
T 2v9t_B          163 PFI  165 (220)
T ss_dssp             CEE
T ss_pred             CcC
Confidence            764

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.31  E-value=5.1e-12  Score=129.88  Aligned_cols=144  Identities=17%  Similarity=0.188  Sum_probs=121.2

Q ss_pred             ecCccccCCCccccccceEEEeeccCcccccc---cCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCccc
Q 037935          478 RNDAVWEWPDGDALKKCYAISLLNSSIHEVSL---EFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLF  554 (1085)
Q Consensus       478 ~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~---~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~  554 (1085)
                      .+..+...|. ..+..++.|++++|.+..++.   ...+++|++|++.+|.   +..++...|.++++|++|+|++|.++
T Consensus        19 s~n~l~~iP~-~~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~---i~~i~~~~~~~l~~L~~L~Ls~N~l~   94 (220)
T 2v70_A           19 SNQKLNKIPE-HIPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNK---ITDIEEGAFEGASGVNEILLTSNRLE   94 (220)
T ss_dssp             CSSCCSSCCS-CCCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSC---CCEECTTTTTTCTTCCEEECCSSCCC
T ss_pred             CCCCcccCcc-CCCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCc---CCEECHHHhCCCCCCCEEECCCCccC
Confidence            3444444443 456678999999999998843   2388999999999998   77888878999999999999999999


Q ss_pred             CCch-hhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEe
Q 037935          555 SLPS-SIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDV  633 (1085)
Q Consensus       555 ~lp~-~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~  633 (1085)
                      .+|. .++++++|++|+|++| .++.+++..|.++++|++|+|++|.+.           ...+..+..+++|+.|++++
T Consensus        95 ~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~-----------~~~~~~~~~l~~L~~L~L~~  162 (220)
T 2v70_A           95 NVQHKMFKGLESLKTLMLRSN-RITCVGNDSFIGLSSVRLLSLYDNQIT-----------TVAPGAFDTLHSLSTLNLLA  162 (220)
T ss_dssp             CCCGGGGTTCSSCCEEECTTS-CCCCBCTTSSTTCTTCSEEECTTSCCC-----------CBCTTTTTTCTTCCEEECCS
T ss_pred             ccCHhHhcCCcCCCEEECCCC-cCCeECHhHcCCCccCCEEECCCCcCC-----------EECHHHhcCCCCCCEEEecC
Confidence            9865 5899999999999999 999997777899999999999999984           33456688999999999999


Q ss_pred             ccCC
Q 037935          634 EDDS  637 (1085)
Q Consensus       634 ~~~~  637 (1085)
                      |.+.
T Consensus       163 N~l~  166 (220)
T 2v70_A          163 NPFN  166 (220)
T ss_dssp             CCEE
T ss_pred             cCCc
Confidence            9765

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.31  E-value=7.8e-11  Score=134.75  Aligned_cols=281  Identities=14%  Similarity=0.098  Sum_probs=167.7

Q ss_pred             CccccchHHHHHHHHHHh-c----c--CCceEEEE--EcCCCCcHHHHHHHHHHHHhhc---cCCC-EEEEEEeCCCcCH
Q 037935          160 YEAFESRVSTLKSIQNAL-T----D--VNVSIIGV--YGMGGIGKTTLVKEFARQAREK---KLFD-RVVFSEVSQTPDI  226 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l-~----~--~~~~vi~I--~G~~G~GKTtLa~~v~~~~~~~---~~f~-~~~wv~~~~~~~~  226 (1085)
                      +..|+||+.+++++.+++ .    .  ...+.+.|  +|++|+||||||+.+++.....   .+|+ .++|+++....+.
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCH
Confidence            367999999999999988 4    2  24567777  9999999999999999876542   1233 3678888777889


Q ss_pred             HHHHHHHHHHhCCCCCC--chHHHHHHHHHHHHH-cCCcEEEEEeCCCCccc--------ccccccccCC----C-----
Q 037935          227 KKIQGEIAEKLGLELSD--EAEYRRASRLYERLK-NENKILVILDNIWKYLD--------LDTIGIPFGN----D-----  286 (1085)
Q Consensus       227 ~~~~~~i~~~l~~~~~~--~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~~~--------~~~~~~~~~~----~-----  286 (1085)
                      ..++..++.+++.....  .+.......+.+.+. .+++++||+||++....        +..+...+..    +     
T Consensus       101 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v  180 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  180 (412)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceE
Confidence            99999999999765321  122233344444443 37899999999976321        1111111100    0     


Q ss_pred             ------------------------CCCcEEEecCCCHHHHHHHHHHhcCCC-CCCCCchHHHHHHHHHhC------CchH
Q 037935          287 ------------------------HEGYNFLIGNLSEEEAWRLFKIMNGDD-VENCKFKPTAINVAQACG------GLPI  335 (1085)
Q Consensus       287 ------------------------~~gs~ilv~~l~~~~~~~lf~~~~~~~-~~~~~~~~~~~~i~~~~~------glPl  335 (1085)
                                              .-+.++-+.|++.++++++|..++... ....-..+....|++.++      |.|.
T Consensus       181 ~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~G~p~  260 (412)
T 1w5s_A          181 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSAR  260 (412)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHH
T ss_pred             EEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCCCcHH
Confidence                                    012234458999999999998764210 111223567889999999      9997


Q ss_pred             HHHHHHHHH---h---c---CCHHHHHHHHHHhcCCCCCCCCCCcccchhhHHHHHhcCChHHHHHHHHhccccC---C-
Q 037935          336 ALTTVARAL---R---N---KSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIG---N-  402 (1085)
Q Consensus       336 ai~~~~~~l---~---~---~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~fp---~-  402 (1085)
                      .+..++...   .   +   .+...+..++.....             ...+.-++..||+ +.+.++..++.+.   . 
T Consensus       261 ~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~-------------~~~~~~~l~~l~~-~~~~~l~aia~l~~~~~~  326 (412)
T 1w5s_A          261 RAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA-------------ASIQTHELEALSI-HELIILRLIAEATLGGME  326 (412)
T ss_dssp             HHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC-------------------CCSSSSSCH-HHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc-------------cchHHHHHHcCCH-HHHHHHHHHHHHHhcCCC
Confidence            655554322   1   1   145555555543210             1122335677886 6788888887643   2 


Q ss_pred             CCCHHHHHHHHh--h---cCCCCCCchHHHHHHHHHHHHHHHhHcccceec----CCcceEEEcHHH
Q 037935          403 SFYLIDLLRYSM--G---LGLFHGVNKMEDARNKLYALVHELRDCCLLLEG----DRNETFYMHDVV  460 (1085)
Q Consensus       403 ~i~~~~li~~w~--~---~g~~~~~~~~~~~~~~~~~~~~~L~~~~ll~~~----~~~~~~~mHdl~  460 (1085)
                      .++..++...+.  +   .|.  ..-+.    ..+.+++++|.+.+++...    ++.+.|++|++.
T Consensus       327 ~~~~~~~~~~~~~~~~~~~~~--~~~~~----~~~~~~l~~L~~~gli~~~~~~~~~~g~~~~~~l~  387 (412)
T 1w5s_A          327 WINAGLLRQRYEDASLTMYNV--KPRGY----TQYHIYLKHLTSLGLVDAKPSGRGMRGRTTLFRLA  387 (412)
T ss_dssp             SBCHHHHHHHHHHHHHHHSCC--CCCCH----HHHHHHHHHHHHTTSEEEECC-------CCEEEEC
T ss_pred             CccHHHHHHHHHHHHHhhcCC--CCCCH----HHHHHHHHHHHhCCCEEeecccCCCCCceeEEEeC
Confidence            277766655442  2   121  00111    2234568999999999653    233345455433

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.30  E-value=1.1e-10  Score=130.83  Aligned_cols=270  Identities=16%  Similarity=0.178  Sum_probs=155.3

Q ss_pred             CCCccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-----cCHHHHHHH
Q 037935          158 KGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-----PDIKKIQGE  232 (1085)
Q Consensus       158 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-----~~~~~~~~~  232 (1085)
                      ..+..|+||+.+++.+.+ +..   +++.|+|++|+|||||++++.+....     ..+|+++...     .+...+...
T Consensus        10 ~~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~   80 (357)
T 2fna_A           10 DNRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLE   80 (357)
T ss_dssp             CSGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHH
T ss_pred             CCHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHHHHH
Confidence            345679999999999999 765   69999999999999999999987642     2578888643     344555555


Q ss_pred             HHHHhC--------------C------CC-C-Cch----HHHHHHHHHHHHHc-C-CcEEEEEeCCCCcc-----cc---
Q 037935          233 IAEKLG--------------L------EL-S-DEA----EYRRASRLYERLKN-E-NKILVILDNIWKYL-----DL---  276 (1085)
Q Consensus       233 i~~~l~--------------~------~~-~-~~~----~~~~~~~~~~~l~~-~-~~~LlvlDdv~~~~-----~~---  276 (1085)
                      +.+.+.              .      +. . ...    .......+.+.+.. . ++++||+||++...     +|   
T Consensus        81 l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~  160 (357)
T 2fna_A           81 LQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPA  160 (357)
T ss_dssp             HHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHH
T ss_pred             HHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHH
Confidence            544331              0      00 0 000    00113334444432 1 49999999997631     11   


Q ss_pred             -----c---cccc-----c---c------CC-----CCC-CcEEEecCCCHHHHHHHHHHhcCC-CCCCCCchHHHHHHH
Q 037935          277 -----D---TIGI-----P---F------GN-----DHE-GYNFLIGNLSEEEAWRLFKIMNGD-DVENCKFKPTAINVA  327 (1085)
Q Consensus       277 -----~---~~~~-----~---~------~~-----~~~-gs~ilv~~l~~~~~~~lf~~~~~~-~~~~~~~~~~~~~i~  327 (1085)
                           +   .+..     .   +      ..     .+. ...|-+.||+.+++.+++...... ......   . ..|+
T Consensus       161 l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~---~-~~i~  236 (357)
T 2fna_A          161 LAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD---Y-EVVY  236 (357)
T ss_dssp             HHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC---H-HHHH
T ss_pred             HHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc---H-HHHH
Confidence                 1   0000     0   0      00     011 235666999999999999876421 111111   1 8899


Q ss_pred             HHhCCchHHHHHHHHHHh-cCCHHHHHHH-HHHhcCCCCCCCCCCcccchhhHH-HHHh--cCChHHHHHHHHhccccCC
Q 037935          328 QACGGLPIALTTVARALR-NKSLHEWKNA-LRELQTPSVVNFEGVPAETYSSIE-LSFK--YLKGEQLKKIFLLCSLIGN  402 (1085)
Q Consensus       328 ~~~~glPlai~~~~~~l~-~~~~~~w~~~-~~~l~~~~~~~~~~~~~~~~~~l~-~sy~--~L~~~~~k~cf~~~s~fp~  402 (1085)
                      +.++|.|+++..++..+. ..+...|..- .+..           ...+...+. +.++  .+++ ..+..+..+|.-+ 
T Consensus       237 ~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~l~~-~~~~~l~~la~g~-  303 (357)
T 2fna_A          237 EKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYA-----------KKLILKEFENFLHGREIARK-RYLNIMRTLSKCG-  303 (357)
T ss_dssp             HHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHH-----------HHHHHHHHHHHHTTCGGGHH-HHHHHHHHHTTCB-
T ss_pred             HHhCCCHHHHHHHHHHHccccchHHHHHHHHHHH-----------HHHHHHHHHHHhhccccccH-HHHHHHHHHHcCC-
Confidence            999999999999987764 3344444211 1100           000111111 1111  5775 6788888888732 


Q ss_pred             CCCHHHHHHHHh-hcCCCCCCchHHHHHHHHHHHHHHHhHcccceecCCcceEE-EcHHHHHHH
Q 037935          403 SFYLIDLLRYSM-GLGLFHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFY-MHDVVCDVA  464 (1085)
Q Consensus       403 ~i~~~~li~~w~-~~g~~~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~~~~~~~-mHdl~~~~~  464 (1085)
                        +...+....- ..|.   ..+..    ...++++.|.+.+++...+  +.|+ .|++++++.
T Consensus       304 --~~~~l~~~~~~~~g~---~~~~~----~~~~~L~~L~~~gli~~~~--~~y~f~~~~~~~~l  356 (357)
T 2fna_A          304 --KWSDVKRALELEEGI---EISDS----EIYNYLTQLTKHSWIIKEG--EKYCPSEPLISLAF  356 (357)
T ss_dssp             --CHHHHHHHHHHHHCS---CCCHH----HHHHHHHHHHHTTSEEESS--SCEEESSHHHHHHT
T ss_pred             --CHHHHHHHHHHhcCC---CCCHH----HHHHHHHHHHhCCCEEecC--CEEEecCHHHHHhh
Confidence              5555443210 1121   01112    2334589999999987653  4465 578888764

>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}

Probab=99.29  E-value=7.8e-12  Score=129.50  Aligned_cols=142  Identities=20%  Similarity=0.187  Sum_probs=120.1

Q ss_pred             CccccCCCccccccceEEEeeccCcccccc-cC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc
Q 037935          480 DAVWEWPDGDALKKCYAISLLNSSIHEVSL-EF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP  557 (1085)
Q Consensus       480 ~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~-~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp  557 (1085)
                      ..+...|. ..+.+++.|++++|.+..++. .+ .+++|++|++.+|.   +..++...|.++++|++|+|++|.++.+|
T Consensus        29 ~~l~~ip~-~~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~---l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~  104 (229)
T 3e6j_A           29 KRHASVPA-GIPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQ---LGALPVGVFDSLTQLTVLDLGTNQLTVLP  104 (229)
T ss_dssp             SCCSSCCS-CCCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC---CCCCCTTTTTTCTTCCEEECCSSCCCCCC
T ss_pred             CCcCccCC-CCCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCC---CCCcChhhcccCCCcCEEECCCCcCCccC
Confidence            33444443 456789999999999998854 33 88999999999998   78888888999999999999999999987


Q ss_pred             h-hhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccC
Q 037935          558 S-SIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDD  636 (1085)
Q Consensus       558 ~-~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  636 (1085)
                      . .+..+++|++|+|++| .++.+|..+ .++++|++|++++|.+..           .....+..+++|+.|++++|.+
T Consensus       105 ~~~~~~l~~L~~L~Ls~N-~l~~lp~~~-~~l~~L~~L~L~~N~l~~-----------~~~~~~~~l~~L~~L~l~~N~~  171 (229)
T 3e6j_A          105 SAVFDRLVHLKELFMCCN-KLTELPRGI-ERLTHLTHLALDQNQLKS-----------IPHGAFDRLSSLTHAYLFGNPW  171 (229)
T ss_dssp             TTTTTTCTTCCEEECCSS-CCCSCCTTG-GGCTTCSEEECCSSCCCC-----------CCTTTTTTCTTCCEEECTTSCB
T ss_pred             hhHhCcchhhCeEeccCC-cccccCccc-ccCCCCCEEECCCCcCCc-----------cCHHHHhCCCCCCEEEeeCCCc
Confidence            5 4689999999999999 999999885 999999999999999842           2234578899999999999976


Q ss_pred             CC
Q 037935          637 SI  638 (1085)
Q Consensus       637 ~~  638 (1085)
                      ..
T Consensus       172 ~c  173 (229)
T 3e6j_A          172 DC  173 (229)
T ss_dssp             CT
T ss_pred             cC
Confidence            54

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.26  E-value=9.2e-12  Score=139.05  Aligned_cols=166  Identities=16%  Similarity=0.181  Sum_probs=130.5

Q ss_pred             EecCccccCCCccccccceEEEeeccCcccccccC---CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcc
Q 037935          477 VRNDAVWEWPDGDALKKCYAISLLNSSIHEVSLEF---ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRL  553 (1085)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~~~---~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i  553 (1085)
                      ..+..+...|. ..+..++.|++++|.+..++...   .+++|++|++++|.   +..++...|.++++|++|+|++|.+
T Consensus        25 c~~~~l~~iP~-~~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~---i~~i~~~~~~~l~~L~~L~Ls~N~l  100 (361)
T 2xot_A           25 CSKQQLPNVPQ-SLPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNH---LNFISSEAFVPVPNLRYLDLSSNHL  100 (361)
T ss_dssp             CCSSCCSSCCS-SCCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSC---CCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             eCCCCcCccCc-cCCCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCc---CCccChhhccCCCCCCEEECCCCcC
Confidence            34445555543 45667999999999999887643   78999999999998   7888888899999999999999999


Q ss_pred             cCCch-hhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEE
Q 037935          554 FSLPS-SIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEID  632 (1085)
Q Consensus       554 ~~lp~-~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~  632 (1085)
                      +.+|. .|.++++|++|+|++| .+..+++..|.++++|++|+|++|.+...+.        .....+..+++|+.|+++
T Consensus       101 ~~~~~~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~--------~~~~~~~~l~~L~~L~L~  171 (361)
T 2xot_A          101 HTLDEFLFSDLQALEVLLLYNN-HIVVVDRNAFEDMAQLQKLYLSQNQISRFPV--------ELIKDGNKLPKLMLLDLS  171 (361)
T ss_dssp             CEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCCSCCG--------GGTC----CTTCCEEECC
T ss_pred             CcCCHHHhCCCcCCCEEECCCC-cccEECHHHhCCcccCCEEECCCCcCCeeCH--------HHhcCcccCCcCCEEECC
Confidence            99864 6899999999999999 9999987778999999999999999853322        111122679999999999


Q ss_pred             eccCCCCCCcc--cccc--cceeeEEe
Q 037935          633 VEDDSILPDGL--FTKK--LERFDISI  655 (1085)
Q Consensus       633 ~~~~~~~~~~~--~l~~--L~~L~l~~  655 (1085)
                      +|.+..++...  .+..  ++.|++..
T Consensus       172 ~N~l~~l~~~~~~~l~~~~l~~l~l~~  198 (361)
T 2xot_A          172 SNKLKKLPLTDLQKLPAWVKNGLYLHN  198 (361)
T ss_dssp             SSCCCCCCHHHHHHSCHHHHTTEECCS
T ss_pred             CCCCCccCHHHhhhccHhhcceEEecC
Confidence            99999888543  3443  35666643

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.24  E-value=2.2e-11  Score=128.93  Aligned_cols=145  Identities=21%  Similarity=0.170  Sum_probs=119.9

Q ss_pred             cccccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccE
Q 037935          489 DALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRM  568 (1085)
Q Consensus       489 ~~~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~  568 (1085)
                      ....+++.|++.+|.+..++....+++|++|++++|.   +..++.  |.++++|++|++++|+++.+|... . ++|++
T Consensus        38 ~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L~~N~---i~~~~~--l~~l~~L~~L~L~~N~l~~l~~~~-~-~~L~~  110 (263)
T 1xeu_A           38 KELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQ---ISDLSP--LKDLTKLEELSVNRNRLKNLNGIP-S-ACLSR  110 (263)
T ss_dssp             HHHTTCSEEECTTSCCCCCTTGGGCTTCCEEECCSSC---CCCCGG--GTTCSSCCEEECCSSCCSCCTTCC-C-SSCCE
T ss_pred             hhcCcCcEEECcCCCcccchHHhhCCCCCEEECCCCc---cCCChh--hccCCCCCEEECCCCccCCcCccc-c-CcccE
Confidence            3456789999999999988866688999999999987   666766  888999999999999999987533 3 99999


Q ss_pred             EeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCccccccc
Q 037935          569 LDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKL  648 (1085)
Q Consensus       569 L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L  648 (1085)
                      |++++| .++.++.  ++++++|++|++++|.+.           .  +..+..+++|+.|++++|.+..++.-..+++|
T Consensus       111 L~L~~N-~l~~~~~--l~~l~~L~~L~Ls~N~i~-----------~--~~~l~~l~~L~~L~L~~N~i~~~~~l~~l~~L  174 (263)
T 1xeu_A          111 LFLDNN-ELRDTDS--LIHLKNLEILSIRNNKLK-----------S--IVMLGFLSKLEVLDLHGNEITNTGGLTRLKKV  174 (263)
T ss_dssp             EECCSS-CCSBSGG--GTTCTTCCEEECTTSCCC-----------B--CGGGGGCTTCCEEECTTSCCCBCTTSTTCCCC
T ss_pred             EEccCC-ccCCChh--hcCcccccEEECCCCcCC-----------C--ChHHccCCCCCEEECCCCcCcchHHhccCCCC
Confidence            999999 8998874  699999999999999873           1  13588899999999999998887433378889


Q ss_pred             ceeeEEec
Q 037935          649 ERFDISIG  656 (1085)
Q Consensus       649 ~~L~l~~~  656 (1085)
                      +.|+++.+
T Consensus       175 ~~L~l~~N  182 (263)
T 1xeu_A          175 NWIDLTGQ  182 (263)
T ss_dssp             CEEEEEEE
T ss_pred             CEEeCCCC
Confidence            99988754

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.24  E-value=9e-12  Score=125.03  Aligned_cols=127  Identities=17%  Similarity=0.251  Sum_probs=107.8

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccCh-hhhcCCCcceEEEecCCcccCC-chhhhccccccEEecc
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPD-NFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLT  572 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~-~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls  572 (1085)
                      +.++++++.+..+|..+. .++++|++.+|.   +..++. .+|.++++|++|+|++|.++.+ |..++++++|++|+|+
T Consensus        11 ~~l~~s~~~l~~ip~~~~-~~l~~L~l~~n~---i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls   86 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDIP-LHTTELLLNDNE---LGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG   86 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC-TTCSEEECCSCC---CCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CEEEcCCCCcCcCccCCC-CCCCEEECCCCc---CCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECC
Confidence            678888999998887653 489999999987   666665 3588999999999999999987 6789999999999999


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      +| .++.+++..|+++++|++|++++|.+.           ...+..+..+++|++|++++|.+.
T Consensus        87 ~N-~l~~~~~~~~~~l~~L~~L~L~~N~l~-----------~~~~~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           87 EN-KIKEISNKMFLGLHQLKTLNLYDNQIS-----------CVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             SC-CCCEECSSSSTTCTTCCEEECCSSCCC-----------EECTTSSTTCTTCCEEECTTCCBC
T ss_pred             CC-cCCccCHHHhcCCCCCCEEECCCCcCC-----------eeCHHHhhcCCCCCEEEeCCCCcc
Confidence            99 999998887799999999999999984           334556788899999999988765

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.23  E-value=1.7e-11  Score=117.45  Aligned_cols=128  Identities=20%  Similarity=0.171  Sum_probs=96.2

Q ss_pred             cccceEEEeeccCcc--cccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccC-Cchhhhccccc
Q 037935          491 LKKCYAISLLNSSIH--EVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFS-LPSSIGQLTKL  566 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~--~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~-lp~~i~~L~~L  566 (1085)
                      +.++++|++++|.+.  .+|..+ .+++|+.|++.+|.   +..+  ..|.++++|++|++++|.++. +|..++++++|
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~---l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L   90 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVG---LTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNL   90 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSC---CCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTC
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCC---CCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCC
Confidence            356888999998887  677654 78889999998886   4555  447888889999999998888 78777888899


Q ss_pred             cEEeccCcccccccch-hhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEE
Q 037935          567 RMLDLTDCLQLKFIVP-NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEID  632 (1085)
Q Consensus       567 ~~L~Ls~~~~l~~lp~-~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~  632 (1085)
                      ++|++++| .++.+|. ..++++++|++|++++|.+...++        .....+..+++|+.|+++
T Consensus        91 ~~L~ls~N-~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~--------~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           91 THLNLSGN-KIKDLSTIEPLKKLENLKSLDLFNCEVTNLND--------YRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             CEEECTTS-CCCSHHHHGGGGGCTTCCEEECTTCGGGGSTT--------HHHHHHHHCTTCCEETTB
T ss_pred             CEEECCCC-cCCChHHHHHHhhCCCCCEEeCcCCcccchHH--------HHHHHHHHCCCcccccCC
Confidence            99999988 7887652 335888889999998888732110        011457778888887653

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.21  E-value=1.1e-11  Score=150.88  Aligned_cols=151  Identities=16%  Similarity=0.143  Sum_probs=92.7

Q ss_pred             cccceEEEeeccCcccccccC-CCCCcceeeeccCCCc-cccccChhhhcCCCcceEEEecCCcccCCchhhhccccccE
Q 037935          491 LKKCYAISLLNSSIHEVSLEF-ECPQLEFLHIDPKITF-AELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRM  568 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~-~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~  568 (1085)
                      ...++++++..+.+...+... ....|+.+.+...... ....++...|..+..|++|+|++|.+..+|..+.++++|++
T Consensus       172 ~~~~~~l~L~~n~~~~~~~~~l~~l~Ls~~~i~~~~~~~n~~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~  251 (727)
T 4b8c_D          172 TPLTPKIELFANGKDEANQALLQHKKLSQYSIDEDDDIENRMVMPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLTR  251 (727)
T ss_dssp             --------------------------------------------------CCCCCCEEECTTSCCSCCCGGGGGCCSCSC
T ss_pred             CCccceEEeeCCCCCcchhhHhhcCccCcccccCccccccceecChhhhccCCCCcEEECCCCCCCCCChhhcCCCCCCE
Confidence            346888999888887765432 3344444443321100 01235667789999999999999999999999999999999


Q ss_pred             EeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-cccc
Q 037935          569 LDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-FTKK  647 (1085)
Q Consensus       569 L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~  647 (1085)
                      |+|++| .++.+|..+ ++|++|++|+|++|.+.            ..+..+++|++|++|++++|.+..+|..+ .+++
T Consensus       252 L~Ls~N-~l~~lp~~~-~~l~~L~~L~Ls~N~l~------------~lp~~~~~l~~L~~L~L~~N~l~~lp~~~~~l~~  317 (727)
T 4b8c_D          252 LYLNGN-SLTELPAEI-KNLSNLRVLDLSHNRLT------------SLPAELGSCFQLKYFYFFDNMVTTLPWEFGNLCN  317 (727)
T ss_dssp             CBCTTS-CCSCCCGGG-GGGTTCCEEECTTSCCS------------SCCSSGGGGTTCSEEECCSSCCCCCCSSTTSCTT
T ss_pred             EEeeCC-cCcccChhh-hCCCCCCEEeCcCCcCC------------ccChhhcCCCCCCEEECCCCCCCccChhhhcCCC
Confidence            999999 999999875 99999999999999983            34556889999999999999999999887 7889


Q ss_pred             cceeeEEe
Q 037935          648 LERFDISI  655 (1085)
Q Consensus       648 L~~L~l~~  655 (1085)
                      |+.|+++.
T Consensus       318 L~~L~L~~  325 (727)
T 4b8c_D          318 LQFLGVEG  325 (727)
T ss_dssp             CCCEECTT
T ss_pred             ccEEeCCC
Confidence            99998854

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.21  E-value=3.2e-11  Score=120.86  Aligned_cols=126  Identities=20%  Similarity=0.229  Sum_probs=91.2

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccC
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~  573 (1085)
                      +.++++++.+..+|..+ .++|++|++.+|.   +..+|. .|.++++|++|+|++|.|+.++ ..|.++++|++|+|++
T Consensus        13 ~~l~~~~~~l~~ip~~~-~~~l~~L~L~~n~---i~~ip~-~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~   87 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGI-PRDVTELYLDGNQ---FTLVPK-ELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSY   87 (193)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCCEEECCSSC---CCSCCG-GGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCCCcCCCCC-CCCCCEEECCCCc---CchhHH-HhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCC
Confidence            45677777777777654 3678888888776   566763 5777888888888888887765 4577888888888888


Q ss_pred             cccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      | .++.+++..|.++++|++|+|++|.+...           ....+..+++|+.|++++|.+.
T Consensus        88 N-~l~~i~~~~f~~l~~L~~L~L~~N~l~~~-----------~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           88 N-RLRCIPPRTFDGLKSLRLLSLHGNDISVV-----------PEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             S-CCCBCCTTTTTTCTTCCEEECCSSCCCBC-----------CTTTTTTCTTCCEEECCSSCEE
T ss_pred             C-ccCEeCHHHhCCCCCCCEEECCCCCCCee-----------ChhhhhcCccccEEEeCCCCee
Confidence            8 78887777678888888888888877422           2234667777888877777543

>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

Probab=99.19  E-value=8.8e-12  Score=123.27  Aligned_cols=104  Identities=15%  Similarity=0.128  Sum_probs=56.5

Q ss_pred             ccceEEEeeccCcccccccCCCC-CcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhh-hccccccEE
Q 037935          492 KKCYAISLLNSSIHEVSLEFECP-QLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSI-GQLTKLRML  569 (1085)
Q Consensus       492 ~~~r~Lsl~~~~~~~l~~~~~~~-~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i-~~L~~L~~L  569 (1085)
                      .+++.|++.+|.+..++....+. +|++|++++|.   +..++  .|.++++|++|++++|.++.+|..+ +.+++|++|
T Consensus        19 ~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~---l~~~~--~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L   93 (176)
T 1a9n_A           19 VRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNE---IRKLD--GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTEL   93 (176)
T ss_dssp             TSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSC---CCEEC--CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEE
T ss_pred             CCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCC---CCccc--ccccCCCCCEEECCCCcccccCcchhhcCCCCCEE
Confidence            34566666666655554433333 56666666554   33332  2555566666666666665555333 556666666


Q ss_pred             eccCcccccccch-hhhhccccCCEEeccCCCc
Q 037935          570 DLTDCLQLKFIVP-NILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       570 ~Ls~~~~l~~lp~-~~~~~L~~L~~L~L~~~~~  601 (1085)
                      ++++| .++.+|. ..++++++|++|++++|.+
T Consensus        94 ~L~~N-~i~~~~~~~~l~~l~~L~~L~l~~N~i  125 (176)
T 1a9n_A           94 ILTNN-SLVELGDLDPLASLKSLTYLCILRNPV  125 (176)
T ss_dssp             ECCSC-CCCCGGGGGGGGGCTTCCEEECCSSGG
T ss_pred             ECCCC-cCCcchhhHhhhcCCCCCEEEecCCCC
Confidence            66666 5555554 1235556666666666655

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.19  E-value=4.8e-11  Score=118.13  Aligned_cols=129  Identities=19%  Similarity=0.262  Sum_probs=103.6

Q ss_pred             ceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchh-hhccccccEEecc
Q 037935          494 CYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS-IGQLTKLRMLDLT  572 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~Ls  572 (1085)
                      .+.+++.++.+..+|... .++|++|++.+|.   ...++...|.++++|++|++++|.++.+|.. ++.+++|++|+++
T Consensus         9 ~~~l~~~~~~l~~~p~~~-~~~l~~L~l~~n~---l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~   84 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPTGI-PSSATRLELESNK---LQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLH   84 (177)
T ss_dssp             TTEEECCSSCCSSCCTTC-CTTCSEEECCSSC---CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEEEecCCCCccCCCCC-CCCCcEEEeCCCc---ccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECC
Confidence            356777788888887554 3789999999887   6677877788899999999999999888754 6889999999999


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCC
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI  638 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  638 (1085)
                      +| .++.+|+..+.++++|++|++++|.+...           ....+..+++|++|++++|.+..
T Consensus        85 ~N-~l~~~~~~~~~~l~~L~~L~l~~N~l~~~-----------~~~~~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A           85 EN-KLQSLPNGVFDKLTQLKELALDTNQLKSV-----------PDGIFDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             SS-CCCCCCTTTTTTCTTCCEEECCSSCCSCC-----------CTTTTTTCTTCCEEECCSSCBCC
T ss_pred             CC-CccccCHHHhhCCcccCEEECcCCcceEe-----------CHHHhcCCcccCEEEecCCCeec
Confidence            99 89998888778899999999999987422           22335778889999998887653

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.18  E-value=4.1e-11  Score=120.11  Aligned_cols=122  Identities=16%  Similarity=0.255  Sum_probs=106.0

Q ss_pred             ceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEec
Q 037935          517 EFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYM  596 (1085)
Q Consensus       517 r~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L  596 (1085)
                      +++++.++.   ...+|..++   ++|++|++++|.++.+|..+.++++|++|+|++| .++.+++..|.++++|++|+|
T Consensus        13 ~~l~~~~~~---l~~ip~~~~---~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N-~i~~i~~~~f~~l~~L~~L~L   85 (193)
T 2wfh_A           13 TVVRCSNKG---LKVLPKGIP---RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNN-RISTLSNQSFSNMTQLLTLIL   85 (193)
T ss_dssp             TEEECTTSC---CSSCCSCCC---TTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEEC
T ss_pred             CEEEcCCCC---CCcCCCCCC---CCCCEEECCCCcCchhHHHhhcccCCCEEECCCC-cCCEeCHhHccCCCCCCEEEC
Confidence            577888776   678887643   5899999999999999999999999999999999 999999888899999999999


Q ss_pred             cCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--cccccceeeEEec
Q 037935          597 GSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLERFDISIG  656 (1085)
Q Consensus       597 ~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~L~l~~~  656 (1085)
                      ++|.+.           ...+..+..+++|++|++++|.+..++...  .+++|+.|++..+
T Consensus        86 s~N~l~-----------~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (193)
T 2wfh_A           86 SYNRLR-----------CIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGAN  136 (193)
T ss_dssp             CSSCCC-----------BCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSS
T ss_pred             CCCccC-----------EeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCC
Confidence            999984           334456889999999999999999998864  6889999988643

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.18  E-value=6.1e-11  Score=138.59  Aligned_cols=171  Identities=15%  Similarity=0.160  Sum_probs=133.6

Q ss_pred             ccccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEE
Q 037935          490 ALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRML  569 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L  569 (1085)
                      ...+++.|++++|.+..+|  ..+++|++|++++|.   +..+|.  |.+  +|++|+|++|.++.+|.   .+++|++|
T Consensus        78 l~~~L~~L~Ls~N~l~~ip--~~l~~L~~L~Ls~N~---l~~ip~--l~~--~L~~L~Ls~N~l~~lp~---~l~~L~~L  145 (571)
T 3cvr_A           78 LPPQITVLEITQNALISLP--ELPASLEYLDACDNR---LSTLPE--LPA--SLKHLDVDNNQLTMLPE---LPALLEYI  145 (571)
T ss_dssp             CCTTCSEEECCSSCCSCCC--CCCTTCCEEECCSSC---CSCCCC--CCT--TCCEEECCSSCCSCCCC---CCTTCCEE
T ss_pred             HcCCCCEEECcCCCCcccc--cccCCCCEEEccCCC---CCCcch--hhc--CCCEEECCCCcCCCCCC---cCccccEE
Confidence            3468999999999999998  447999999999997   666887  544  99999999999999997   78999999


Q ss_pred             eccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCccccccc-
Q 037935          570 DLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKL-  648 (1085)
Q Consensus       570 ~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L-  648 (1085)
                      ++++| .++.+|.    .+++|++|++++|.+..            .+. +.  ++|+.|++++|.++.+|. +. .+| 
T Consensus       146 ~Ls~N-~l~~lp~----~l~~L~~L~Ls~N~L~~------------lp~-l~--~~L~~L~Ls~N~L~~lp~-~~-~~L~  203 (571)
T 3cvr_A          146 NADNN-QLTMLPE----LPTSLEVLSVRNNQLTF------------LPE-LP--ESLEALDVSTNLLESLPA-VP-VRNH  203 (571)
T ss_dssp             ECCSS-CCSCCCC----CCTTCCEEECCSSCCSC------------CCC-CC--TTCCEEECCSSCCSSCCC-CC-----
T ss_pred             eCCCC-ccCcCCC----cCCCcCEEECCCCCCCC------------cch-hh--CCCCEEECcCCCCCchhh-HH-Hhhh
Confidence            99999 9999986    57899999999999842            122 33  899999999999998888 42 255 


Q ss_pred             ------ceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCC
Q 037935          649 ------ERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGC  722 (1085)
Q Consensus       649 ------~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~  722 (1085)
                            +.|+++.                                          +... .+|.++..+++|+.|+|++|
T Consensus       204 ~~~~~L~~L~Ls~------------------------------------------N~l~-~lp~~l~~l~~L~~L~L~~N  240 (571)
T 3cvr_A          204 HSEETEIFFRCRE------------------------------------------NRIT-HIPENILSLDPTCTIILEDN  240 (571)
T ss_dssp             ----CCEEEECCS------------------------------------------SCCC-CCCGGGGGSCTTEEEECCSS
T ss_pred             cccccceEEecCC------------------------------------------Ccce-ecCHHHhcCCCCCEEEeeCC
Confidence                  5555532                                          2222 46777778999999999998


Q ss_pred             CCCccccchhhHhhccc
Q 037935          723 DKLKYIFSASTIQSLEQ  739 (1085)
Q Consensus       723 ~~l~~l~~~~~l~~l~~  739 (1085)
                      +.....  +..+..++.
T Consensus       241 ~l~~~~--p~~l~~l~~  255 (571)
T 3cvr_A          241 PLSSRI--RESLSQQTA  255 (571)
T ss_dssp             SCCHHH--HHHHHHHHH
T ss_pred             cCCCcC--HHHHHHhhc
Confidence            765554  334555543

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.16  E-value=2.4e-11  Score=133.86  Aligned_cols=111  Identities=14%  Similarity=0.192  Sum_probs=66.8

Q ss_pred             CCCcceeeeccCCCccccccChhhhcC-CCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhc----
Q 037935          513 CPQLEFLHIDPKITFAELNIPDNFFKG-MKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSS----  587 (1085)
Q Consensus       513 ~~~Lr~L~l~~~~~~~~~~l~~~~~~~-l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~----  587 (1085)
                      ..+++.|.+.++-.  ...+  ..+.. +++|++|||++|.|......-+.++.++++.+..+    .+|...|.+    
T Consensus        24 ~~~l~~L~l~g~i~--~~~~--~~l~~~l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~----~I~~~aF~~~~~~   95 (329)
T 3sb4_A           24 ANSITHLTLTGKLN--AEDF--RHLRDEFPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMAN----FVPAYAFSNVVNG   95 (329)
T ss_dssp             HHHCSEEEEEEEEC--HHHH--HHHHHSCTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTT----EECTTTTEEEETT
T ss_pred             hCceeEEEEecccc--HHHH--HHHHHhhccCeEEecCcceeEEecCcccccccccccccccc----ccCHHHhcccccc
Confidence            34566666665421  1111  12333 67788888888888732111223333555555555    567777778    


Q ss_pred             ----cccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc
Q 037935          588 ----FTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL  643 (1085)
Q Consensus       588 ----L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~  643 (1085)
                          +++|+.|++.+ .+..           .....|..+++|+.++++.|.+..++...
T Consensus        96 ~~~g~~~L~~l~L~~-~i~~-----------I~~~aF~~~~~L~~l~l~~n~i~~i~~~a  143 (329)
T 3sb4_A           96 VTKGKQTLEKVILSE-KIKN-----------IEDAAFKGCDNLKICQIRKKTAPNLLPEA  143 (329)
T ss_dssp             EEEECTTCCC-CBCT-TCCE-----------ECTTTTTTCTTCCEEEBCCSSCCEECTTS
T ss_pred             cccccCCCcEEECCc-cccc-----------hhHHHhhcCcccceEEcCCCCccccchhh
Confidence                88888888887 5532           23345778888888888888777666654

>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

Probab=99.15  E-value=4.2e-11  Score=117.42  Aligned_cols=130  Identities=20%  Similarity=0.200  Sum_probs=108.6

Q ss_pred             CCCCcceeeeccCCCcccc--ccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccc
Q 037935          512 ECPQLEFLHIDPKITFAEL--NIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFT  589 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~--~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~  589 (1085)
                      ..++|++|++.+|.   +.  .+|.. |..+++|++|++++|.++.+ ..++.+++|++|++++| .+...++..+.+++
T Consensus        22 ~~~~L~~L~l~~n~---l~~~~i~~~-~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~   95 (168)
T 2ell_A           22 TPAAVRELVLDNCK---SNDGKIEGL-TAEFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSEN-RIFGGLDMLAEKLP   95 (168)
T ss_dssp             CTTSCSEEECCSCB---CBTTBCSSC-CGGGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESC-CCCSCCCHHHHHCT
T ss_pred             CcccCCEEECCCCC---CChhhHHHH-HHhCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCC-cCchHHHHHHhhCC
Confidence            34889999999997   44  67764 78899999999999999998 78999999999999999 88884455568899


Q ss_pred             cCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCC----cc-cccccceeeEEecC
Q 037935          590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPD----GL-FTKKLERFDISIGD  657 (1085)
Q Consensus       590 ~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~----~~-~l~~L~~L~l~~~~  657 (1085)
                      +|++|++++|.+...          ..+..+..+++|++|++++|.+..++.    .+ .+++|+.|++..+.
T Consensus        96 ~L~~L~Ls~N~l~~~----------~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~  158 (168)
T 2ell_A           96 NLTHLNLSGNKLKDI----------STLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDRE  158 (168)
T ss_dssp             TCCEEECBSSSCCSS----------GGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETT
T ss_pred             CCCEEeccCCccCcc----------hhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCC
Confidence            999999999998421          123678899999999999999998887    33 78899999887653

>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

Probab=99.15  E-value=4.6e-11  Score=118.09  Aligned_cols=135  Identities=16%  Similarity=0.094  Sum_probs=110.9

Q ss_pred             cccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhh
Q 037935          506 EVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNIL  585 (1085)
Q Consensus       506 ~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~  585 (1085)
                      ..+....+++|+.|++.+|.   +..++. +....++|++|++++|.++.+ ..++.+++|++|++++| .++.+|++++
T Consensus        11 ~~~~~~~~~~L~~L~l~~n~---l~~i~~-~~~~~~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N-~l~~~~~~~~   84 (176)
T 1a9n_A           11 QAAQYTNAVRDRELDLRGYK---IPVIEN-LGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNN-RICRIGEGLD   84 (176)
T ss_dssp             TSCEEECTTSCEEEECTTSC---CCSCCC-GGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSS-CCCEECSCHH
T ss_pred             HHHhcCCcCCceEEEeeCCC---CchhHH-hhhcCCCCCEEECCCCCCCcc-cccccCCCCCEEECCCC-cccccCcchh
Confidence            33445578999999999997   566654 334344999999999999988 57899999999999999 9999998878


Q ss_pred             hccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCc----c-cccccceeeEEec
Q 037935          586 SSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDG----L-FTKKLERFDISIG  656 (1085)
Q Consensus       586 ~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~----~-~l~~L~~L~l~~~  656 (1085)
                      +++++|++|++++|.+...+          ....+..+++|+.|++++|.+..+|..    + .+++|+.|++..+
T Consensus        85 ~~l~~L~~L~L~~N~i~~~~----------~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n  150 (176)
T 1a9n_A           85 QALPDLTELILTNNSLVELG----------DLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKV  150 (176)
T ss_dssp             HHCTTCCEEECCSCCCCCGG----------GGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEEC
T ss_pred             hcCCCCCEEECCCCcCCcch----------hhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcC
Confidence            99999999999999983211          123688999999999999999988875    3 7889999988654

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.12  E-value=4.8e-11  Score=114.34  Aligned_cols=126  Identities=19%  Similarity=0.250  Sum_probs=104.5

Q ss_pred             CCCCcceeeeccCCCcccc--ccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccc
Q 037935          512 ECPQLEFLHIDPKITFAEL--NIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFT  589 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~--~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~  589 (1085)
                      ..++|+.|++.+|.   ..  .+|. .|..+++|++|++++|.++.+ ..++++++|++|++++| .++...+..+++++
T Consensus        15 ~~~~l~~L~l~~n~---l~~~~~~~-~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~   88 (149)
T 2je0_A           15 TPSDVKELVLDNSR---SNEGKLEG-LTDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDN-RVSGGLEVLAEKCP   88 (149)
T ss_dssp             CGGGCSEEECTTCB---CBTTBCCS-CCTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSS-CCCSCTHHHHHHCT
T ss_pred             CCccCeEEEccCCc---CChhHHHH-HHhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCC-cccchHHHHhhhCC
Confidence            34789999999997   44  6775 578999999999999999998 78999999999999999 89884444568899


Q ss_pred             cCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCC---c-c-cccccceeeE
Q 037935          590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPD---G-L-FTKKLERFDI  653 (1085)
Q Consensus       590 ~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~---~-~-~l~~L~~L~l  653 (1085)
                      +|++|++++|.+...          ..+..+..+++|++|++++|.+..++.   . + .+++|+.|++
T Consensus        89 ~L~~L~ls~N~i~~~----------~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           89 NLTHLNLSGNKIKDL----------STIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             TCCEEECTTSCCCSH----------HHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETT
T ss_pred             CCCEEECCCCcCCCh----------HHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccC
Confidence            999999999998421          123678999999999999999998887   2 2 6778887765

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.09  E-value=5.1e-09  Score=118.21  Aligned_cols=264  Identities=12%  Similarity=0.039  Sum_probs=157.7

Q ss_pred             ccccchHHHHHHHHHHhc----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhcc----C--CCEEEEEEeCCCc-CHHHH
Q 037935          161 EAFESRVSTLKSIQNALT----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKK----L--FDRVVFSEVSQTP-DIKKI  229 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~--f~~~~wv~~~~~~-~~~~~  229 (1085)
                      +.++||+.+++++.+++.    ....+.+.|+|++|+||||+|+.+++......    .  ...++|+++.... +...+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            669999999999987775    34457899999999999999999999764321    1  2357888887767 88899


Q ss_pred             HHHHHHHh-CCCCC--CchHHHHHHHHHHHHHcCCcEEEEEeCCCCccc--cccc-ccccCCCCC---------------
Q 037935          230 QGEIAEKL-GLELS--DEAEYRRASRLYERLKNENKILVILDNIWKYLD--LDTI-GIPFGNDHE---------------  288 (1085)
Q Consensus       230 ~~~i~~~l-~~~~~--~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~--~~~~-~~~~~~~~~---------------  288 (1085)
                      +..++.++ +....  ..........+.+.+. .++.+||+||++....  +... ...+.....               
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~~~  178 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTR-NIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVRD  178 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHS-SSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTTTT
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhc-cCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCchHh
Confidence            99999888 32211  1122333455555554 4445999999976421  1111 000000001               


Q ss_pred             ----------CcEEEecCCCHHHHHHHHHHhcCC-CCCCCCchHHHHHHHHHhC---CchH-HHHHHHHHH--h----cC
Q 037935          289 ----------GYNFLIGNLSEEEAWRLFKIMNGD-DVENCKFKPTAINVAQACG---GLPI-ALTTVARAL--R----NK  347 (1085)
Q Consensus       289 ----------gs~ilv~~l~~~~~~~lf~~~~~~-~~~~~~~~~~~~~i~~~~~---glPl-ai~~~~~~l--~----~~  347 (1085)
                                +..|-+.|++.++..+++..++.. -....-..+..+.+++.++   |.|. |+..+....  .    ..
T Consensus       179 ~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~~i  258 (384)
T 2qby_B          179 YMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGII  258 (384)
T ss_dssp             TSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSSCC
T ss_pred             hhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCcc
Confidence                      124445999999999999987521 0111222566788888888   8876 444433332  1    23


Q ss_pred             CHHHHHHHHHHhcCCCCCCCCCCcccchhhHHHHHhcCChHHHHHHHHhccccCC-C-CCHHHHHHHHhhcCCCCCCchH
Q 037935          348 SLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIGN-S-FYLIDLLRYSMGLGLFHGVNKM  425 (1085)
Q Consensus       348 ~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~fp~-~-i~~~~li~~w~~~g~~~~~~~~  425 (1085)
                      +.+++..+++...              ...+.-+++.|++ +.+..+..++.... + +. +......-..| ... .+.
T Consensus       259 ~~~~v~~~~~~~~--------------~~~~~~~~~~l~~-~~~~~l~al~~~~~~~~~~-~~~~~~~~~~g-~~~-~~~  320 (384)
T 2qby_B          259 RKEHVDKAIVDYE--------------QERLIEAVKALPF-HYKLALRSLIESEDVMSAH-KMYTDLCNKFK-QKP-LSY  320 (384)
T ss_dssp             CHHHHHHHHHHHH--------------HHHHHHHHHSSCH-HHHHHHHHHHTCCBHHHHH-HHHHHHHHHTT-CCC-CCH
T ss_pred             CHHHHHHHHHHHh--------------cchHHHHHHcCCH-HHHHHHHHHHHhcccChHH-HHHHHHHHHcC-CCC-CCH
Confidence            7778877776431              1345567788986 45555554554111 1 11 11111122223 111 112


Q ss_pred             HHHHHHHHHHHHHHhHccccee
Q 037935          426 EDARNKLYALVHELRDCCLLLE  447 (1085)
Q Consensus       426 ~~~~~~~~~~~~~L~~~~ll~~  447 (1085)
                          ..+.++++.|...+++..
T Consensus       321 ----~~~~~~l~~L~~~gli~~  338 (384)
T 2qby_B          321 ----RRFSDIISELDMFGIVKI  338 (384)
T ss_dssp             ----HHHHHHHHHHHHTTSEEE
T ss_pred             ----HHHHHHHHHHHhCCCEEE
Confidence                234456889999999875

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.08  E-value=1.2e-10  Score=103.46  Aligned_cols=76  Identities=14%  Similarity=0.181  Sum_probs=61.5

Q ss_pred             HHHHhhhhhHHhhhchhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cccHHHHHHHHHHHHHHHHHHHHHH
Q 037935           17 ELVKCLAPPTERQLVYLRKRNYNANLENLKAEMEKLKAERTSIQRRVSEAKEKG-EEIEEKVEKWLVSANGIIDQAAKFV   95 (1085)
Q Consensus        17 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~l~~a~~~~-~~~~~~~~~wl~~~~~~~~~~ed~l   95 (1085)
                      .++++|.+.+.+++..+         .+++++++.|+++|..|++++.+|+.+. +..++.++.|+++||+++||+||++
T Consensus         5 ~ll~KL~~ll~~E~~l~---------~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~i   75 (115)
T 3qfl_A            5 NLIPKLGELLTEEFKLH---------KGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVV   75 (115)
T ss_dssp             SHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH---------hchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555555544         4899999999999999999999998763 3468999999999999999999999


Q ss_pred             HhHhhc
Q 037935           96 EDEEST  101 (1085)
Q Consensus        96 d~~~~~  101 (1085)
                      |+|...
T Consensus        76 D~f~~~   81 (115)
T 3qfl_A           76 DKFLVQ   81 (115)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999643

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.06  E-value=3.5e-10  Score=124.46  Aligned_cols=36  Identities=25%  Similarity=0.340  Sum_probs=23.2

Q ss_pred             cccccEEEEcCCCCCccccchhhHhhcccccEEEecccc
Q 037935          711 FQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCK  749 (1085)
Q Consensus       711 l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~  749 (1085)
                      +++|+.|.|.+  .++.+ +...|..+++|+.|.+.++.
T Consensus       100 ~~~L~~l~L~~--~i~~I-~~~aF~~~~~L~~l~l~~n~  135 (329)
T 3sb4_A          100 KQTLEKVILSE--KIKNI-EDAAFKGCDNLKICQIRKKT  135 (329)
T ss_dssp             CTTCCC-CBCT--TCCEE-CTTTTTTCTTCCEEEBCCSS
T ss_pred             cCCCcEEECCc--cccch-hHHHhhcCcccceEEcCCCC
Confidence            67777777765  45554 33557777777777777665

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.06  E-value=3.5e-10  Score=111.02  Aligned_cols=102  Identities=19%  Similarity=0.290  Sum_probs=71.1

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchh-hhccccccEEeccC
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS-IGQLTKLRMLDLTD  573 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~Ls~  573 (1085)
                      +.++++++.+..+|..+. ++|+.|++++|.   +..+++..|.++++|++|+|++|+++.+|.. +.++++|++|+|++
T Consensus        15 ~~l~~~~n~l~~iP~~~~-~~L~~L~Ls~N~---l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~   90 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGIP-TDKQRLWLNNNQ---ITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLND   90 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC-TTCSEEECCSSC---CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             cEEEeCCCCCCccCCCcC-CCCcEEEeCCCC---ccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCC
Confidence            456777777777766543 677777777776   5566556677777777777777777777654 46777777777777


Q ss_pred             cccccccchhhhhccccCCEEeccCCCc
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      | .++.+|++.|.++++|++|++++|.+
T Consensus        91 N-~l~~l~~~~~~~l~~L~~L~L~~N~~  117 (174)
T 2r9u_A           91 N-HLKSIPRGAFDNLKSLTHIYLYNNPW  117 (174)
T ss_dssp             S-CCCCCCTTTTTTCTTCSEEECCSSCB
T ss_pred             C-ccceeCHHHhccccCCCEEEeCCCCc
Confidence            7 77777776567777777777777766

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.05  E-value=1.6e-10  Score=115.89  Aligned_cols=122  Identities=23%  Similarity=0.261  Sum_probs=102.1

Q ss_pred             ceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchh--hhccccccEEeccCcccccccchhhhhccccCCEE
Q 037935          517 EFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS--IGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEEL  594 (1085)
Q Consensus       517 r~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~--i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L  594 (1085)
                      ++++++++.   ...+|..++.   +|++|++++|.++.+|..  ++++++|++|+|++| .++.+++..|+++++|++|
T Consensus        11 ~~l~~s~~~---l~~ip~~~~~---~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L   83 (192)
T 1w8a_A           11 TTVDCTGRG---LKEIPRDIPL---HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRN-QLTGIEPNAFEGASHIQEL   83 (192)
T ss_dssp             TEEECTTSC---CSSCCSCCCT---TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEE
T ss_pred             CEEEcCCCC---cCcCccCCCC---CCCEEECCCCcCCccCCccccccCCCCCEEECCCC-CCCCcCHhHcCCcccCCEE
Confidence            788898887   6788876433   899999999999998753  899999999999999 9999977778999999999


Q ss_pred             eccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCc-c-cccccceeeEEec
Q 037935          595 YMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDG-L-FTKKLERFDISIG  656 (1085)
Q Consensus       595 ~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~-~-~l~~L~~L~l~~~  656 (1085)
                      ++++|.+..           ..+..+.++++|++|++++|.+..++.. + .+++|+.|++..+
T Consensus        84 ~Ls~N~l~~-----------~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (192)
T 1w8a_A           84 QLGENKIKE-----------ISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             ECCSCCCCE-----------ECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             ECCCCcCCc-----------cCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCC
Confidence            999999843           3334578899999999999999877543 4 7888999988543

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.05  E-value=3.8e-10  Score=110.42  Aligned_cols=103  Identities=20%  Similarity=0.271  Sum_probs=74.0

Q ss_pred             ceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchh-hhccccccEEecc
Q 037935          494 CYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS-IGQLTKLRMLDLT  572 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~L~Ls  572 (1085)
                      .+.++++++.+..+|..+ .++|++|++++|.   +..+++..|.++++|++|+|++|+++.+|.. +.++++|++|+|+
T Consensus        11 ~~~l~~s~n~l~~ip~~~-~~~l~~L~L~~N~---i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~   86 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGI-PTTTQVLYLYDNQ---ITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN   86 (170)
T ss_dssp             TTEEECTTSCCSSCCSCC-CTTCSEEECCSSC---CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEEEeCCCCcCccCccC-CCCCcEEEcCCCc---CCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECC
Confidence            356777777777777655 3677777777776   5666666677777777777777777777643 4677777777777


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCc
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      +| .++.+|++.|.++++|++|+|++|.+
T Consensus        87 ~N-~l~~~~~~~~~~l~~L~~L~L~~N~~  114 (170)
T 3g39_A           87 DN-QLKSIPRGAFDNLKSLTHIWLLNNPW  114 (170)
T ss_dssp             SS-CCCCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             CC-ccCEeCHHHhcCCCCCCEEEeCCCCC
Confidence            77 77777776667777777777777766

>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*

Probab=99.05  E-value=2.7e-10  Score=134.11  Aligned_cols=101  Identities=17%  Similarity=0.197  Sum_probs=50.0

Q ss_pred             ceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccC
Q 037935          494 CYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~  573 (1085)
                      ++.|++++|.++.+|....+++|+.|++++|.   +..+|. .|.++++|++|+|++|.++.+| .++++++|++|+|++
T Consensus       443 L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~---l~~lp~-~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~Ls~  517 (567)
T 1dce_A          443 VRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNR---LRALPP-ALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCN  517 (567)
T ss_dssp             CSEEECTTSCCSSCCCGGGGTTCCEEECCSSC---CCCCCG-GGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCS
T ss_pred             ceEEEecCCCCCCCcCccccccCcEeecCccc---ccccch-hhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCC
Confidence            44555555555555443344555555555544   334443 2444555555555555555554 455555555555555


Q ss_pred             ccccccc--chhhhhccccCCEEeccCCCc
Q 037935          574 CLQLKFI--VPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       574 ~~~l~~l--p~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      | .++.+  |.. ++++++|++|++++|.+
T Consensus       518 N-~l~~~~~p~~-l~~l~~L~~L~L~~N~l  545 (567)
T 1dce_A          518 N-RLQQSAAIQP-LVSCPRLVLLNLQGNSL  545 (567)
T ss_dssp             S-CCCSSSTTGG-GGGCTTCCEEECTTSGG
T ss_pred             C-CCCCCCCcHH-HhcCCCCCEEEecCCcC
Confidence            5 45444  222 35555555555555544

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.04  E-value=7.8e-10  Score=109.34  Aligned_cols=119  Identities=22%  Similarity=0.336  Sum_probs=102.7

Q ss_pred             cCccccCCCccccccceEEEeeccCccccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC
Q 037935          479 NDAVWEWPDGDALKKCYAISLLNSSIHEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL  556 (1085)
Q Consensus       479 ~~~~~~~~~~~~~~~~r~Lsl~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l  556 (1085)
                      +..+...+ ......+++|++.+|.+..++..  ..+++|++|++.+|.   +..++...|..+++|++|++++|.++.+
T Consensus        16 ~~~l~~~p-~~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~---l~~~~~~~~~~l~~L~~L~l~~N~l~~~   91 (177)
T 2o6r_A           16 SKGLTSVP-TGIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQ---IQSLPDGVFDKLTKLTILYLHENKLQSL   91 (177)
T ss_dssp             SSCCSSCC-TTCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC---CCCCCTTTTTTCTTCCEEECCSSCCCCC
T ss_pred             CCCCccCC-CCCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCc---ceEeChhHccCCCccCEEECCCCCcccc
Confidence            33444444 34557899999999999988764  378999999999997   7788888899999999999999999998


Q ss_pred             chh-hhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcc
Q 037935          557 PSS-IGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIK  602 (1085)
Q Consensus       557 p~~-i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~  602 (1085)
                      |.. ++++++|++|++++| .++.+|..++.++++|++|++++|.+.
T Consensus        92 ~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~~~  137 (177)
T 2o6r_A           92 PNGVFDKLTQLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTNPWD  137 (177)
T ss_dssp             CTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             CHHHhhCCcccCEEECcCC-cceEeCHHHhcCCcccCEEEecCCCee
Confidence            754 689999999999999 999999988899999999999999874

>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*

Probab=98.99  E-value=9.3e-10  Score=129.48  Aligned_cols=134  Identities=19%  Similarity=0.268  Sum_probs=112.3

Q ss_pred             EEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcc
Q 037935          496 AISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCL  575 (1085)
Q Consensus       496 ~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~  575 (1085)
                      .+.+.+|.+..++.    ..|++|++++|.   +..+|.  |.++++|++|+|++|.++.+|..++++++|++|+|++| 
T Consensus       427 ~l~l~~n~i~~l~~----~~L~~L~Ls~n~---l~~lp~--~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N-  496 (567)
T 1dce_A          427 SKFLLENSVLKMEY----ADVRVLHLAHKD---LTVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDN-  496 (567)
T ss_dssp             HHHHHHHHHHHHHH----TTCSEEECTTSC---CSSCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS-
T ss_pred             hhhhhcccccccCc----cCceEEEecCCC---CCCCcC--ccccccCcEeecCcccccccchhhhcCCCCCEEECCCC-
Confidence            33344455555543    359999999997   677886  89999999999999999999999999999999999999 


Q ss_pred             cccccchhhhhccccCCEEeccCCCcchhhcccCCcccccc-HHHhhcCCCCcEEEEEeccCCCCCCcc-----cccccc
Q 037935          576 QLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNAS-LDELMHLQRLTTLEIDVEDDSILPDGL-----FTKKLE  649 (1085)
Q Consensus       576 ~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~-~~~l~~L~~L~~L~l~~~~~~~~~~~~-----~l~~L~  649 (1085)
                      .++.+| . ++++++|++|+|++|.+.           ... +..++.+++|+.|++++|.+..+|...     .+++|+
T Consensus       497 ~l~~lp-~-l~~l~~L~~L~Ls~N~l~-----------~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~  563 (567)
T 1dce_A          497 ALENVD-G-VANLPRLQELLLCNNRLQ-----------QSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVS  563 (567)
T ss_dssp             CCCCCG-G-GTTCSSCCEEECCSSCCC-----------SSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCS
T ss_pred             CCCCCc-c-cCCCCCCcEEECCCCCCC-----------CCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccC
Confidence            999998 4 699999999999999983           333 678999999999999999998887654     367787


Q ss_pred             eee
Q 037935          650 RFD  652 (1085)
Q Consensus       650 ~L~  652 (1085)
                      .|+
T Consensus       564 ~L~  566 (567)
T 1dce_A          564 SIL  566 (567)
T ss_dssp             EEE
T ss_pred             ccC
Confidence            775

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.98  E-value=2.5e-10  Score=138.96  Aligned_cols=109  Identities=23%  Similarity=0.242  Sum_probs=62.8

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccC
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL  591 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L  591 (1085)
                      .++.|+.|++++|.   +..+|..+| ++++|++|+|++|.|+.+|..|++|++|++|+|++| .++.+|..+ ++|++|
T Consensus       222 ~l~~L~~L~Ls~n~---l~~l~~~~~-~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N-~l~~lp~~~-~~l~~L  295 (727)
T 4b8c_D          222 DDQLWHALDLSNLQ---IFNISANIF-KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHN-RLTSLPAEL-GSCFQL  295 (727)
T ss_dssp             CCCCCCEEECTTSC---CSCCCGGGG-GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTS-CCSSCCSSG-GGGTTC
T ss_pred             cCCCCcEEECCCCC---CCCCChhhc-CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCC-cCCccChhh-cCCCCC
Confidence            45566666666555   445555544 466666666666666666666666666666666666 565665553 666666


Q ss_pred             CEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCC
Q 037935          592 EELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI  638 (1085)
Q Consensus       592 ~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  638 (1085)
                      ++|+|++|.+.            ..+..+++|++|++|++++|.+..
T Consensus       296 ~~L~L~~N~l~------------~lp~~~~~l~~L~~L~L~~N~l~~  330 (727)
T 4b8c_D          296 KYFYFFDNMVT------------TLPWEFGNLCNLQFLGVEGNPLEK  330 (727)
T ss_dssp             SEEECCSSCCC------------CCCSSTTSCTTCCCEECTTSCCCS
T ss_pred             CEEECCCCCCC------------ccChhhhcCCCccEEeCCCCccCC
Confidence            66666666552            122335556666666666665543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.97  E-value=5.3e-08  Score=110.05  Aligned_cols=267  Identities=14%  Similarity=0.110  Sum_probs=161.5

Q ss_pred             CccccchHHHHHHHHHHhc----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhcc---CC-CEEEEEEeCCCcCHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALT----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKK---LF-DRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~---~f-~~~~wv~~~~~~~~~~~~~  231 (1085)
                      ++.++||+.+++++.+++.    ....+.+.|+|++|+||||+|+.+++......   .. ...+|+++....+...++.
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   97 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVAS   97 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHH
Confidence            3679999999999999885    24567899999999999999999998764320   11 2467888888889999999


Q ss_pred             HHHHHhCCCCCC--chHHHHHHHHHHHHH-cCCcEEEEEeCCCCcccc----cccccccC--CC---CCCc---------
Q 037935          232 EIAEKLGLELSD--EAEYRRASRLYERLK-NENKILVILDNIWKYLDL----DTIGIPFG--ND---HEGY---------  290 (1085)
Q Consensus       232 ~i~~~l~~~~~~--~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~~~~----~~~~~~~~--~~---~~gs---------  290 (1085)
                      .++.+++.....  ....+....+.+.+. .+++.+||+||++.....    +.+...+.  ..   ..+.         
T Consensus        98 ~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~  177 (387)
T 2v1u_A           98 AIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSL  177 (387)
T ss_dssp             HHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCS
T ss_pred             HHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCC
Confidence            999999764322  223333455555553 356899999999864211    11110000  00   1111         


Q ss_pred             -----------------EEEecCCCHHHHHHHHHHhcCCC-CCCCCchHHHHHHHHHhC---CchHHH-HHHHHHHh---
Q 037935          291 -----------------NFLIGNLSEEEAWRLFKIMNGDD-VENCKFKPTAINVAQACG---GLPIAL-TTVARALR---  345 (1085)
Q Consensus       291 -----------------~ilv~~l~~~~~~~lf~~~~~~~-~~~~~~~~~~~~i~~~~~---glPlai-~~~~~~l~---  345 (1085)
                                       .|-+.|++.++..+++..++... ....-..+..+.+++.++   |.|..+ .++.....   
T Consensus       178 ~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a~  257 (387)
T 2v1u_A          178 GFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEIAE  257 (387)
T ss_dssp             TTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHH
T ss_pred             chHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHH
Confidence                             22238999999999998875210 011112345678888888   999433 33222221   


Q ss_pred             --c---CCHHHHHHHHHHhcCCCCCCCCCCcccchhhHHHHHhcCChHHHHHHHHhcc-ccC-CC-CCHHHHHHHH----
Q 037935          346 --N---KSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCS-LIG-NS-FYLIDLLRYS----  413 (1085)
Q Consensus       346 --~---~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s-~fp-~~-i~~~~li~~w----  413 (1085)
                        +   .+.+.+..+++...              ...+.-++..|++ +.+..+..++ ++. ++ +....+.+..    
T Consensus       258 ~~~~~~i~~~~v~~a~~~~~--------------~~~~~~~~~~l~~-~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~  322 (387)
T 2v1u_A          258 RRREERVRREHVYSARAEIE--------------RDRVSEVVRTLPL-HAKLVLLSIMMLEDGGRPASTGEIYERYKELT  322 (387)
T ss_dssp             HTTCSCBCHHHHHHHHHHHH--------------HHHHHHHHHSSCH-HHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHH
T ss_pred             HcCCCCcCHHHHHHHHHHHh--------------hchHHHHHHcCCH-HHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHH
Confidence              1   26777777766431              1234556788986 4454444444 332 22 5556444432    


Q ss_pred             hhcCCCCCCchHHHHHHHHHHHHHHHhHccccee
Q 037935          414 MGLGLFHGVNKMEDARNKLYALVHELRDCCLLLE  447 (1085)
Q Consensus       414 ~~~g~~~~~~~~~~~~~~~~~~~~~L~~~~ll~~  447 (1085)
                      -..|. .. .+    ...+.++++.|...+++..
T Consensus       323 ~~~~~-~~-~~----~~~~~~~l~~L~~~gli~~  350 (387)
T 2v1u_A          323 STLGL-EH-VT----LRRVSGIISELDMLGIVKS  350 (387)
T ss_dssp             HHTTC-CC-CC----HHHHHHHHHHHHHTTSEEE
T ss_pred             HhcCC-CC-CC----HHHHHHHHHHHHhCCCeEE
Confidence            22231 11 11    1233456889999999875

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.97  E-value=7.2e-10  Score=108.76  Aligned_cols=109  Identities=15%  Similarity=0.153  Sum_probs=92.1

Q ss_pred             cceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEeccCcccccccchhhhhccccCCEE
Q 037935          516 LEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEEL  594 (1085)
Q Consensus       516 Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L  594 (1085)
                      -+.+++.++.   ...+|..++   ++|++|+|++|.++.+ |..|+++++|++|+|++| .++.+|..+|.++++|++|
T Consensus        14 ~~~l~~~~n~---l~~iP~~~~---~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L   86 (174)
T 2r9u_A           14 QTLVNCQNIR---LASVPAGIP---TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSN-KLTAIPTGVFDKLTQLTQL   86 (174)
T ss_dssp             SSEEECCSSC---CSSCCSCCC---TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEE
T ss_pred             CcEEEeCCCC---CCccCCCcC---CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCC-CCCccChhHhCCcchhhEE
Confidence            3678888887   678887643   7899999999999998 568999999999999999 9999999888999999999


Q ss_pred             eccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCc
Q 037935          595 YMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDG  642 (1085)
Q Consensus       595 ~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  642 (1085)
                      +|++|.+...           ....+..+++|++|++++|.+...+..
T Consensus        87 ~L~~N~l~~l-----------~~~~~~~l~~L~~L~L~~N~~~c~~~~  123 (174)
T 2r9u_A           87 DLNDNHLKSI-----------PRGAFDNLKSLTHIYLYNNPWDCECRD  123 (174)
T ss_dssp             ECCSSCCCCC-----------CTTTTTTCTTCSEEECCSSCBCTTBGG
T ss_pred             ECCCCcccee-----------CHHHhccccCCCEEEeCCCCccccccc
Confidence            9999998422           223478899999999999988766553

>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

Probab=98.96  E-value=3.4e-11  Score=121.66  Aligned_cols=128  Identities=18%  Similarity=0.187  Sum_probs=99.4

Q ss_pred             ceEEEeecc--CcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEe
Q 037935          494 CYAISLLNS--SIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLD  570 (1085)
Q Consensus       494 ~r~Lsl~~~--~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~  570 (1085)
                      ++...+.+.  .++.++..+ .+++|++|++++|.   +..+|  .|.++++|++|++++|.++.+|..+..+++|++|+
T Consensus        25 l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n~---l~~l~--~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~   99 (198)
T 1ds9_A           25 AEKVELHGMIPPIEKMDATLSTLKACKHLALSTNN---IEKIS--SLSGMENLRILSLGRNLIKKIENLDAVADTLEELW   99 (198)
T ss_dssp             CSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEEE---ESCCC--CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEE
T ss_pred             hheeEeccccCcHhhhhHHHhcCCCCCEEECCCCC---Ccccc--ccccCCCCCEEECCCCCcccccchhhcCCcCCEEE
Confidence            444444443  455555443 78899999999887   56677  47889999999999999999998888889999999


Q ss_pred             ccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC
Q 037935          571 LTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL  639 (1085)
Q Consensus       571 Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  639 (1085)
                      +++| .++.+|.  ++++++|++|++++|.+...          ..+..+..+++|++|++++|.+...
T Consensus       100 L~~N-~l~~l~~--~~~l~~L~~L~l~~N~i~~~----------~~~~~l~~l~~L~~L~l~~N~l~~~  155 (198)
T 1ds9_A          100 ISYN-QIASLSG--IEKLVNLRVLYMSNNKITNW----------GEIDKLAALDKLEDLLLAGNPLYND  155 (198)
T ss_dssp             EEEE-ECCCHHH--HHHHHHSSEEEESEEECCCH----------HHHHHHTTTTTCSEEEECSCHHHHH
T ss_pred             CcCC-cCCcCCc--cccCCCCCEEECCCCcCCch----------hHHHHHhcCCCCCEEEecCCccccc
Confidence            9999 8888873  68999999999999987311          1234688899999999998877544

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.95  E-value=9.4e-10  Score=107.60  Aligned_cols=109  Identities=19%  Similarity=0.218  Sum_probs=91.5

Q ss_pred             CcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEeccCcccccccchhhhhccccCCE
Q 037935          515 QLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEE  593 (1085)
Q Consensus       515 ~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~  593 (1085)
                      ..++++++++.   ...+|..+   .++|++|+|++|.|+.+ |..|+++++|++|+|++| .++.+|++.|.++++|++
T Consensus        10 ~~~~l~~s~n~---l~~ip~~~---~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~f~~l~~L~~   82 (170)
T 3g39_A           10 SGTTVDCSGKS---LASVPTGI---PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNN-QLTVLPAGVFDKLTQLTQ   82 (170)
T ss_dssp             ETTEEECTTSC---CSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCE
T ss_pred             CCCEEEeCCCC---cCccCccC---CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCC-CcCccChhhccCCCCCCE
Confidence            35788898887   67788754   37899999999999998 567999999999999999 999999998899999999


Q ss_pred             EeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCC
Q 037935          594 LYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPD  641 (1085)
Q Consensus       594 L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  641 (1085)
                      |+|++|.+..           .....+..+++|++|++++|.+...+.
T Consensus        83 L~L~~N~l~~-----------~~~~~~~~l~~L~~L~L~~N~~~c~c~  119 (170)
T 3g39_A           83 LSLNDNQLKS-----------IPRGAFDNLKSLTHIWLLNNPWDCACS  119 (170)
T ss_dssp             EECCSSCCCC-----------CCTTTTTTCTTCCEEECCSSCBCTTBG
T ss_pred             EECCCCccCE-----------eCHHHhcCCCCCCEEEeCCCCCCCCch
Confidence            9999999843           233457889999999999998765543

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.94  E-value=1.5e-08  Score=114.57  Aligned_cols=267  Identities=15%  Similarity=0.128  Sum_probs=157.7

Q ss_pred             CccccchHHHHHHHHHHhc----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccC-CCEEEEEEeCCCcCHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALT----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKL-FDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      ++.|+||+.+++.+.+++.    ....+.+.|+|++|+||||||+.+++....... -..++|+++....+...++..++
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~   98 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLL   98 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHT
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999886    345678999999999999999999997754311 12477888877778888888888


Q ss_pred             HHhCCCCCC--chHHHHHHHHHHHHHc-CCcEEEEEeCCCCcc------cccccccccCC-CC-----------------
Q 037935          235 EKLGLELSD--EAEYRRASRLYERLKN-ENKILVILDNIWKYL------DLDTIGIPFGN-DH-----------------  287 (1085)
Q Consensus       235 ~~l~~~~~~--~~~~~~~~~~~~~l~~-~~~~LlvlDdv~~~~------~~~~~~~~~~~-~~-----------------  287 (1085)
                      .+++.....  ....+....+.+.+.. +++.+||+|+++...      .+..+...+.. ..                 
T Consensus        99 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~  178 (386)
T 2qby_A           99 ESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDL  178 (386)
T ss_dssp             TTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGG
T ss_pred             HHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhh
Confidence            887654321  1223334445555542 458999999987532      11111100100 00                 


Q ss_pred             ---------CCcEEEecCCCHHHHHHHHHHhcCCC-CCCCCchHHHHHHHHHhC---CchHHHHHHHHH-Hh-----c--
Q 037935          288 ---------EGYNFLIGNLSEEEAWRLFKIMNGDD-VENCKFKPTAINVAQACG---GLPIALTTVARA-LR-----N--  346 (1085)
Q Consensus       288 ---------~gs~ilv~~l~~~~~~~lf~~~~~~~-~~~~~~~~~~~~i~~~~~---glPlai~~~~~~-l~-----~--  346 (1085)
                               .+..|-+.|++.++..+++..++... ....-..+..+.+++.++   |.|..+..+... ..     +  
T Consensus       179 ~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~~~  258 (386)
T 2qby_A          179 LDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKDT  258 (386)
T ss_dssp             CTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCS
T ss_pred             hCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCCC
Confidence                     01234449999999999999865211 112233567788888887   998744333222 11     1  


Q ss_pred             -CCHHHHHHHHHHhcCCCCCCCCCCcccchhhHHHHHhcCChHHHHHHHHhcccc---CCC-CCHHHHHHHH----hhcC
Q 037935          347 -KSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLI---GNS-FYLIDLLRYS----MGLG  417 (1085)
Q Consensus       347 -~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~f---p~~-i~~~~li~~w----~~~g  417 (1085)
                       .+.+.++.+++...              ...+.-.+..+|+ ..+..+..++..   .+. +....+.+..    -..|
T Consensus       259 ~i~~~~v~~a~~~~~--------------~~~~~~~~~~l~~-~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g  323 (386)
T 2qby_A          259 KVKEEYVYMAKEEIE--------------RDRVRDIILTLPF-HSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLG  323 (386)
T ss_dssp             SCCHHHHHHHHHHHH--------------HHHHHHHHHTSCH-HHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHT
T ss_pred             ccCHHHHHHHHHHHh--------------hchHHHHHHcCCH-HHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcC
Confidence             26666666665421              1245556778886 455555544422   112 4444443321    1112


Q ss_pred             CCCCCchHHHHHHHHHHHHHHHhHccccee
Q 037935          418 LFHGVNKMEDARNKLYALVHELRDCCLLLE  447 (1085)
Q Consensus       418 ~~~~~~~~~~~~~~~~~~~~~L~~~~ll~~  447 (1085)
                      . .. .+.    ..+..+++.|...+++..
T Consensus       324 ~-~~-~~~----~~~~~~l~~L~~~gli~~  347 (386)
T 2qby_A          324 V-EA-VTQ----RRVSDIINELDMVGILTA  347 (386)
T ss_dssp             C-CC-CCH----HHHHHHHHHHHHHTSEEE
T ss_pred             C-CC-CCH----HHHHHHHHHHHhCCCEEE
Confidence            1 11 011    233446788888998864

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.92  E-value=1.2e-07  Score=107.21  Aligned_cols=266  Identities=14%  Similarity=0.096  Sum_probs=162.1

Q ss_pred             ccccchHHHHHHHHHHhcc----CCce--EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTD----VNVS--IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~----~~~~--vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      +.++||+.+++++.+++..    ....  .+.|+|++|+||||+++.+++....... ..++|++++...+...+...++
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~-~~~~~i~~~~~~~~~~~~~~l~   95 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTT-ARFVYINGFIYRNFTAIIGEIA   95 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCC-CEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcC-eeEEEEeCccCCCHHHHHHHHH
Confidence            6799999999999988863    2333  8999999999999999999998764311 2477888888888999999999


Q ss_pred             HHhCCCCCC--chHHHHHHHHHHHHH-cCCcEEEEEeCCCCcc--cccccccccCCCC----CCc---------------
Q 037935          235 EKLGLELSD--EAEYRRASRLYERLK-NENKILVILDNIWKYL--DLDTIGIPFGNDH----EGY---------------  290 (1085)
Q Consensus       235 ~~l~~~~~~--~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~----~gs---------------  290 (1085)
                      ..++.....  .........+.+.+. .+++.+||+||++...  .+..+...+....    .+.               
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l  175 (389)
T 1fnn_A           96 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL  175 (389)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTS
T ss_pred             HHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHh
Confidence            998764321  122333334444433 3678999999997641  1122211110000    111               


Q ss_pred             -----------EEEecCCCHHHHHHHHHHhcCCC-CCCCCchHHHHHHHHHh---------CCchHHHHHHHHHHh----
Q 037935          291 -----------NFLIGNLSEEEAWRLFKIMNGDD-VENCKFKPTAINVAQAC---------GGLPIALTTVARALR----  345 (1085)
Q Consensus       291 -----------~ilv~~l~~~~~~~lf~~~~~~~-~~~~~~~~~~~~i~~~~---------~glPlai~~~~~~l~----  345 (1085)
                                 .|-+.|++.++..+++...+... ....--.+....+++.+         +|.|..+..+.....    
T Consensus       176 ~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a~  255 (389)
T 1fnn_A          176 DPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQ  255 (389)
T ss_dssp             CHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             CHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHHH
Confidence                       23348999999999998876310 01122356788899999         788754444333211    


Q ss_pred             --c---CCHHHHHHHHHHhcCCCCCCCCCCcccchhhHHHHHhcCChHHHHHHHHhccccC---C--CCCHHHHHHHHhh
Q 037935          346 --N---KSLHEWKNALRELQTPSVVNFEGVPAETYSSIELSFKYLKGEQLKKIFLLCSLIG---N--SFYLIDLLRYSMG  415 (1085)
Q Consensus       346 --~---~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~fp---~--~i~~~~li~~w~~  415 (1085)
                        +   .+.+....+.+....              ..+.-.+..|+. +.+.++..++.+.   .  .+....+...+..
T Consensus       256 ~~~~~~i~~~~v~~~~~~~~~--------------~~~~~~l~~l~~-~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~  320 (389)
T 1fnn_A          256 QNGRKHIAPEDVRKSSKEVLF--------------GISEEVLIGLPL-HEKLFLLAIVRSLKISHTPYITFGDAEESYKI  320 (389)
T ss_dssp             HTTCSSCCHHHHHHHHHHHSC--------------CCCHHHHHHSCH-HHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHH
T ss_pred             HhCCCCcCHHHHHHHHHHHhh--------------hhHHHHHHcCCH-HHHHHHHHHHHHHhhccCCCccHHHHHHHHHH
Confidence              1   145555555554321              123344677886 5666666666443   1  2555555554321


Q ss_pred             ----cCCCCCCchHHHHHHHHHHHHHHHhHcccceec
Q 037935          416 ----LGLFHGVNKMEDARNKLYALVHELRDCCLLLEG  448 (1085)
Q Consensus       416 ----~g~~~~~~~~~~~~~~~~~~~~~L~~~~ll~~~  448 (1085)
                          .|...  -+    ...+.+++++|...+++...
T Consensus       321 ~~~~~~~~~--~~----~~~~~~~l~~L~~~gli~~~  351 (389)
T 1fnn_A          321 VCEEYGERP--RV----HSQLWSYLNDLREKGIVETR  351 (389)
T ss_dssp             HHHHTTCCC--CC----HHHHHHHHHHHHHTTSSEEE
T ss_pred             HHHHcCCCC--CC----HHHHHHHHHHHHhCCCeEEe
Confidence                22111  01    13345678999999999753

>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

Probab=98.91  E-value=1.5e-10  Score=116.86  Aligned_cols=106  Identities=20%  Similarity=0.212  Sum_probs=75.8

Q ss_pred             CcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEE
Q 037935          515 QLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEEL  594 (1085)
Q Consensus       515 ~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L  594 (1085)
                      .++.+.+.+... .+..+|. .|..+++|++|++++|.++.+| .++++++|++|++++| .++.+|.. +..+++|++|
T Consensus        24 ~l~~~~l~~~~~-~l~~l~~-~~~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n-~l~~l~~~-~~~~~~L~~L   98 (198)
T 1ds9_A           24 EAEKVELHGMIP-PIEKMDA-TLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRN-LIKKIENL-DAVADTLEEL   98 (198)
T ss_dssp             TCSEEECCBCCT-TCCCCHH-HHHHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEE-EECSCSSH-HHHHHHCSEE
T ss_pred             chheeEeccccC-cHhhhhH-HHhcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCCC-Ccccccch-hhcCCcCCEE
Confidence            444555544321 1344444 4777888888888888888888 7888888888888888 88888865 4777888888


Q ss_pred             eccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCC
Q 037935          595 YMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI  638 (1085)
Q Consensus       595 ~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  638 (1085)
                      ++++|.+.             .+..+..+++|++|++++|.+..
T Consensus        99 ~L~~N~l~-------------~l~~~~~l~~L~~L~l~~N~i~~  129 (198)
T 1ds9_A           99 WISYNQIA-------------SLSGIEKLVNLRVLYMSNNKITN  129 (198)
T ss_dssp             EEEEEECC-------------CHHHHHHHHHSSEEEESEEECCC
T ss_pred             ECcCCcCC-------------cCCccccCCCCCEEECCCCcCCc
Confidence            88888763             12356777778888887776654

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=98.85  E-value=2.1e-08  Score=105.42  Aligned_cols=177  Identities=12%  Similarity=0.143  Sum_probs=102.1

Q ss_pred             CccccchHHHHHHHHHHhccCC-ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          160 YEAFESRVSTLKSIQNALTDVN-VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      ...++||+..++.+..++..+. .+.+.|+|++|+||||+|+.+++.......+..   ..+...   .. ...+.....
T Consensus        22 ~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~---~~~~~~---~~-~~~~~~~~~   94 (250)
T 1njg_A           22 FADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA---TPCGVC---DN-CREIEQGRF   94 (250)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCS---SCCSCS---HH-HHHHHTTCC
T ss_pred             HHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC---CCCccc---HH-HHHHhccCC
Confidence            3568999999999999987543 358899999999999999999987754321100   000000   00 000000000


Q ss_pred             -----CCCCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCc--ccccccccccCCCCCCcEEE--------------
Q 037935          239 -----LELSDEAEYRRASRLYERLK----NENKILVILDNIWKY--LDLDTIGIPFGNDHEGYNFL--------------  293 (1085)
Q Consensus       239 -----~~~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~--~~~~~~~~~~~~~~~gs~il--------------  293 (1085)
                           ..............+.+.+.    .+++.+||+||++..  ..++.+...+.....+.+++              
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~  174 (250)
T 1njg_A           95 VDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTIL  174 (250)
T ss_dssp             SSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             cceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHH
Confidence                 00000011111222222221    356899999999763  23333333222222233333              


Q ss_pred             -------ecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHH
Q 037935          294 -------IGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARAL  344 (1085)
Q Consensus       294 -------v~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l  344 (1085)
                             +.+++.++..+++...+.... ..--.+....|++.|+|.|..+..+...+
T Consensus       175 ~r~~~i~l~~l~~~e~~~~l~~~~~~~~-~~~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          175 SRCLQFHLKALDVEQIRHQLEHILNEEH-IAHEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHhhhccCCCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence                   389999999999998773211 12225677899999999999988776543

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=98.84  E-value=2.8e-08  Score=102.55  Aligned_cols=168  Identities=11%  Similarity=0.064  Sum_probs=102.4

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      ...++||+..++.+.+++.....+.+.|+|++|+|||++|+.+++.......-...+.++.+.......+...+......
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (226)
T 2chg_A           16 LDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFART   95 (226)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHHHTS
T ss_pred             HHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHHhcc
Confidence            35689999999999999986655569999999999999999999876433111224445554444433332222211111


Q ss_pred             CCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcE---------------------EEecC
Q 037935          240 ELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYN---------------------FLIGN  296 (1085)
Q Consensus       240 ~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~---------------------ilv~~  296 (1085)
                      ..               ...+++.+||+||++...  .++.+...+.....+.+                     +-+.+
T Consensus        96 ~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~  160 (226)
T 2chg_A           96 AP---------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKP  160 (226)
T ss_dssp             CC---------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             cC---------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCC
Confidence            00               002567888888887642  22222222211122222                     33389


Q ss_pred             CCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHH
Q 037935          297 LSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARA  343 (1085)
Q Consensus       297 l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~  343 (1085)
                      ++.++..+++...+.... ..--.+....+++.++|.|..+..+...
T Consensus       161 ~~~~~~~~~l~~~~~~~~-~~~~~~~~~~l~~~~~g~~r~l~~~l~~  206 (226)
T 2chg_A          161 VPKEAMKKRLLEICEKEG-VKITEDGLEALIYISGGDFRKAINALQG  206 (226)
T ss_dssp             CCHHHHHHHHHHHHHHHT-CCBCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            999999999988763111 1122567788999999999866554443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.71  E-value=1.5e-07  Score=105.56  Aligned_cols=81  Identities=14%  Similarity=0.158  Sum_probs=52.0

Q ss_pred             CCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCcccccccchhhhhccccC
Q 037935          513 CPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL  591 (1085)
Q Consensus       513 ~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L  591 (1085)
                      +..+..+.+...    ...++...|.++ +|+.+++.++ ++.++ .+|.+ .+|+.+.+..  .++.++...|.++.+|
T Consensus       112 ~~~l~~i~ip~~----i~~I~~~aF~~~-~L~~i~l~~~-i~~I~~~aF~~-~~L~~i~lp~--~l~~I~~~aF~~c~~L  182 (401)
T 4fdw_A          112 LKGYNEIILPNS----VKSIPKDAFRNS-QIAKVVLNEG-LKSIGDMAFFN-STVQEIVFPS--TLEQLKEDIFYYCYNL  182 (401)
T ss_dssp             CSSCSEEECCTT----CCEECTTTTTTC-CCSEEECCTT-CCEECTTTTTT-CCCCEEECCT--TCCEECSSTTTTCTTC
T ss_pred             cCCccEEEECCc----cCEehHhhcccC-CccEEEeCCC-ccEECHHhcCC-CCceEEEeCC--CccEehHHHhhCcccC
Confidence            355556555443    456666677764 5777777655 55554 34555 3577777775  5677777777777777


Q ss_pred             CEEeccCCCcc
Q 037935          592 EELYMGSCSIK  602 (1085)
Q Consensus       592 ~~L~L~~~~~~  602 (1085)
                      +.+++.+|.+.
T Consensus       183 ~~l~l~~n~l~  193 (401)
T 4fdw_A          183 KKADLSKTKIT  193 (401)
T ss_dssp             CEEECTTSCCS
T ss_pred             CeeecCCCcce
Confidence            77777776653

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.67  E-value=2.9e-07  Score=103.93  Aligned_cols=68  Identities=16%  Similarity=0.283  Sum_probs=51.3

Q ss_pred             ccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCcccccccchhhhhccccCCEEeccCC
Q 037935          529 ELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSC  599 (1085)
Q Consensus       529 ~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~  599 (1085)
                      ...|...+|.++.+|+.+.|.. .++.++ .+|.++.+|+.+++..  .++.++...|.++.+|+.+.+..+
T Consensus        59 VtsIg~~AF~~c~~L~~i~lp~-~i~~I~~~aF~~c~~L~~i~lp~--~l~~I~~~aF~~c~~L~~i~~p~~  127 (394)
T 4fs7_A           59 VVSIGYAAFQGCRKVTEIKIPS-TVREIGEFAFENCSKLEIINIPD--SVKMIGRCTFSGCYALKSILLPLM  127 (394)
T ss_dssp             EEEECTTTTTTCTTEEEEECCT-TCCEECTTTTTTCTTCCEECCCT--TCCEECTTTTTTCTTCCCCCCCTT
T ss_pred             EeEhHHHHhhCCCCceEEEeCC-CccCcchhHhhCCCCCcEEEeCC--CceEccchhhcccccchhhcccCc
Confidence            5667788888888899888864 366664 4678888888888876  477788777888888877655443

>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

Probab=98.64  E-value=3.9e-08  Score=109.14  Aligned_cols=100  Identities=14%  Similarity=0.175  Sum_probs=64.3

Q ss_pred             EEeecc-CcccccccCCCCCcceeeecc-CCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccC
Q 037935          497 ISLLNS-SIHEVSLEFECPQLEFLHIDP-KITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       497 Lsl~~~-~~~~l~~~~~~~~Lr~L~l~~-~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~  573 (1085)
                      ++.+++ .+..+|....+.+|+.|+|++ |.   +..+++..|.++++|++|+|++|.|+.+| ..|++|++|++|+|++
T Consensus        13 v~~~~~n~l~~ip~l~~~~~L~~L~l~~~n~---l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~   89 (347)
T 2ifg_A           13 LRCTRDGALDSLHHLPGAENLTELYIENQQH---LQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF   89 (347)
T ss_dssp             EECCSSCCCTTTTTSCSCSCCSEEECCSCSS---CCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS
T ss_pred             EEcCCCCCCCccCCCCCCCCeeEEEccCCCC---CCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCC
Confidence            455555 566666622556677777765 54   56666666677777777777777776654 3566777777777777


Q ss_pred             cccccccchhhhhccccCCEEeccCCCc
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      | .++.+|+.+|..+. |++|+|.+|.+
T Consensus        90 N-~l~~~~~~~~~~~~-L~~l~l~~N~~  115 (347)
T 2ifg_A           90 N-ALESLSWKTVQGLS-LQELVLSGNPL  115 (347)
T ss_dssp             S-CCSCCCSTTTCSCC-CCEEECCSSCC
T ss_pred             C-ccceeCHHHcccCC-ceEEEeeCCCc
Confidence            7 67777766555444 77777776665

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.61  E-value=4.7e-07  Score=96.21  Aligned_cols=113  Identities=11%  Similarity=0.102  Sum_probs=80.7

Q ss_pred             cccchHHHHHHHHHHhc----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccC---C-C-EEEEEEeCCCcCHHHHHHH
Q 037935          162 AFESRVSTLKSIQNALT----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKL---F-D-RVVFSEVSQTPDIKKIQGE  232 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~---f-~-~~~wv~~~~~~~~~~~~~~  232 (1085)
                      .+.|||+++++|...|.    .+..+.+.|+|++|+|||++++.|.++......   . + .++.|++..-.+...++..
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~  100 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEK  100 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHH
Confidence            37899999999988776    466788999999999999999999998864211   1 1 3567777777889999999


Q ss_pred             HHHHhCCCCC-CchHHHHHHHHHHHH--HcCCcEEEEEeCCCCcc
Q 037935          233 IAEKLGLELS-DEAEYRRASRLYERL--KNENKILVILDNIWKYL  274 (1085)
Q Consensus       233 i~~~l~~~~~-~~~~~~~~~~~~~~l--~~~~~~LlvlDdv~~~~  274 (1085)
                      |++++.+... .......+...++.+  ..++++++++|+++...
T Consensus       101 I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          101 IWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             HHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             HHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh
Confidence            9999965321 111223344455543  24678999999998753

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.55  E-value=2.8e-07  Score=101.07  Aligned_cols=168  Identities=17%  Similarity=0.128  Sum_probs=101.1

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      .+.++||+..++.+.+++..+..+.+.|+|++|+||||+|+.+++.......-..+++++.+.......+ +++++.+..
T Consensus        20 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i-~~~~~~~~~   98 (323)
T 1sxj_B           20 LSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVV-RNQIKHFAQ   98 (323)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHH-HTHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHH-HHHHHHHHh
Confidence            3568999999999999988766666999999999999999999998643211112444544443333222 222221110


Q ss_pred             CCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc--ccccccccccCCCCCCcEE---------------------EecC
Q 037935          240 ELSDEAEYRRASRLYERLKNENKILVILDNIWKY--LDLDTIGIPFGNDHEGYNF---------------------LIGN  296 (1085)
Q Consensus       240 ~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~--~~~~~~~~~~~~~~~gs~i---------------------lv~~  296 (1085)
                      ...             .+..+++.++|+||++..  ..++.+...+.....+.++                     -+.+
T Consensus        99 ~~~-------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~  165 (323)
T 1sxj_B           99 KKL-------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSK  165 (323)
T ss_dssp             BCC-------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             ccc-------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecC
Confidence            000             000256889999998764  2233332222221222232                     2389


Q ss_pred             CCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHH-HHHHHH
Q 037935          297 LSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIA-LTTVAR  342 (1085)
Q Consensus       297 l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPla-i~~~~~  342 (1085)
                      ++.++..+++...+.... ..--.+....+++.++|.|.. +..+..
T Consensus       166 ~~~~~~~~~l~~~~~~~~-~~~~~~~~~~l~~~~~G~~r~a~~~l~~  211 (323)
T 1sxj_B          166 LSDEDVLKRLLQIIKLED-VKYTNDGLEAIIFTAEGDMRQAINNLQS  211 (323)
T ss_dssp             CCHHHHHHHHHHHHHHHT-CCBCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            999999999988763110 112256778999999999954 444433

>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

Probab=98.52  E-value=8.8e-08  Score=106.27  Aligned_cols=104  Identities=17%  Similarity=0.194  Sum_probs=78.9

Q ss_pred             eeeeccCCCccccccChhhhcCCCcceEEEecC-CcccCCc-hhhhccccccEEeccCcccccccchhhhhccccCCEEe
Q 037935          518 FLHIDPKITFAELNIPDNFFKGMKKLRVVDLTR-VRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELY  595 (1085)
Q Consensus       518 ~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~-~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~  595 (1085)
                      .+++.+++.  ...+|.  +..+++|++|+|++ |.++.+| ..|++|++|++|+|++| .++.+|+..|++|++|++|+
T Consensus        12 ~v~~~~~n~--l~~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~   86 (347)
T 2ifg_A           12 GLRCTRDGA--LDSLHH--LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLN   86 (347)
T ss_dssp             CEECCSSCC--CTTTTT--SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEE
T ss_pred             EEEcCCCCC--CCccCC--CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCC-ccceeCHHHhcCCcCCCEEe
Confidence            456666522  667887  78888899999986 8888876 57888999999999998 88888888788899999999


Q ss_pred             ccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCC
Q 037935          596 MGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI  638 (1085)
Q Consensus       596 L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  638 (1085)
                      |++|.+...++           ..+..++ |+.|++.+|.+..
T Consensus        87 l~~N~l~~~~~-----------~~~~~~~-L~~l~l~~N~~~c  117 (347)
T 2ifg_A           87 LSFNALESLSW-----------KTVQGLS-LQELVLSGNPLHC  117 (347)
T ss_dssp             CCSSCCSCCCS-----------TTTCSCC-CCEEECCSSCCCC
T ss_pred             CCCCccceeCH-----------HHcccCC-ceEEEeeCCCccC
Confidence            99998743322           2234444 8888888887653

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.50  E-value=1.8e-06  Score=96.79  Aligned_cols=234  Identities=14%  Similarity=0.158  Sum_probs=129.7

Q ss_pred             ceEEEeeccCccccccc-CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEec
Q 037935          494 CYAISLLNSSIHEVSLE-FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDL  571 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~L  571 (1085)
                      +..+.+.+ .+..++.. +.-.+|+.+.+..+    ...++...|.++ +|+.+.+.. .++.++ .+|.+|.+|+.+++
T Consensus       115 l~~i~ip~-~i~~I~~~aF~~~~L~~i~l~~~----i~~I~~~aF~~~-~L~~i~lp~-~l~~I~~~aF~~c~~L~~l~l  187 (401)
T 4fdw_A          115 YNEIILPN-SVKSIPKDAFRNSQIAKVVLNEG----LKSIGDMAFFNS-TVQEIVFPS-TLEQLKEDIFYYCYNLKKADL  187 (401)
T ss_dssp             CSEEECCT-TCCEECTTTTTTCCCSEEECCTT----CCEECTTTTTTC-CCCEEECCT-TCCEECSSTTTTCTTCCEEEC
T ss_pred             ccEEEECC-ccCEehHhhcccCCccEEEeCCC----ccEECHHhcCCC-CceEEEeCC-CccEehHHHhhCcccCCeeec
Confidence            44444433 34444432 22236777777554    556777777774 578887775 566654 56777888888888


Q ss_pred             cCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc-cccccce
Q 037935          572 TDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL-FTKKLER  650 (1085)
Q Consensus       572 s~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-~l~~L~~  650 (1085)
                      ++| .++.+|.+.|. ..+|+.+.+..+ +.           ......|.++++|+.+.+..+ +..++... .-.+|+.
T Consensus       188 ~~n-~l~~I~~~aF~-~~~L~~l~lp~~-l~-----------~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~~~L~~  252 (401)
T 4fdw_A          188 SKT-KITKLPASTFV-YAGIEEVLLPVT-LK-----------EIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRESGITT  252 (401)
T ss_dssp             TTS-CCSEECTTTTT-TCCCSEEECCTT-CC-----------EECTTTTTTCTTCCCEECCTT-CCEECTTTTTTCCCSE
T ss_pred             CCC-cceEechhhEe-ecccCEEEeCCc-hh-----------eehhhHhhCCCCCCEEecCCC-ccCccccccccCCccE
Confidence            877 77888877765 577888877644 32           222345677777777777653 45555444 2256666


Q ss_pred             eeEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCC----c
Q 037935          651 FDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKL----K  726 (1085)
Q Consensus       651 L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l----~  726 (1085)
                      +.+...                   +..                        .-+..|..+++|+.+.+.++...    .
T Consensus       253 i~lp~~-------------------i~~------------------------I~~~aF~~c~~L~~l~l~~~~~~~~~~~  289 (401)
T 4fdw_A          253 VKLPNG-------------------VTN------------------------IASRAFYYCPELAEVTTYGSTFNDDPEA  289 (401)
T ss_dssp             EEEETT-------------------CCE------------------------ECTTTTTTCTTCCEEEEESSCCCCCTTC
T ss_pred             EEeCCC-------------------ccE------------------------EChhHhhCCCCCCEEEeCCccccCCccc
Confidence            665210                   000                        01223455667777776654221    1


Q ss_pred             cccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccC
Q 037935          727 YIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNC  806 (1085)
Q Consensus       727 ~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c  806 (1085)
                      .+ +...+..+++|+.+.+.+.  +..+....+       ..+++|+.+.|.+  ++..+.... +..+ +|+.+.+.+.
T Consensus       290 ~I-~~~aF~~c~~L~~l~l~~~--i~~I~~~aF-------~~c~~L~~l~lp~--~l~~I~~~a-F~~~-~L~~l~l~~n  355 (401)
T 4fdw_A          290 MI-HPYCLEGCPKLARFEIPES--IRILGQGLL-------GGNRKVTQLTIPA--NVTQINFSA-FNNT-GIKEVKVEGT  355 (401)
T ss_dssp             EE-CTTTTTTCTTCCEECCCTT--CCEECTTTT-------TTCCSCCEEEECT--TCCEECTTS-SSSS-CCCEEEECCS
T ss_pred             EE-CHHHhhCCccCCeEEeCCc--eEEEhhhhh-------cCCCCccEEEECc--cccEEcHHh-CCCC-CCCEEEEcCC
Confidence            22 2345666777777776532  333322211       1345666666643  344433322 2334 6777776655

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.45  E-value=1.9e-06  Score=97.18  Aligned_cols=129  Identities=14%  Similarity=0.160  Sum_probs=86.1

Q ss_pred             ccccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCccccccc
Q 037935          504 IHEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFI  580 (1085)
Q Consensus       504 ~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~l  580 (1085)
                      +..+...  ..|.+|+++.+..+    ...+.+..|.++.+|+.+++..+ ++.++ .++.++..|+.+.+..  .+..+
T Consensus        59 VtsIg~~AF~~c~~L~~i~lp~~----i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~c~~L~~i~~p~--~l~~i  131 (394)
T 4fs7_A           59 VVSIGYAAFQGCRKVTEIKIPST----VREIGEFAFENCSKLEIINIPDS-VKMIGRCTFSGCYALKSILLPL--MLKSI  131 (394)
T ss_dssp             EEEECTTTTTTCTTEEEEECCTT----CCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCCCCCCT--TCCEE
T ss_pred             EeEhHHHHhhCCCCceEEEeCCC----ccCcchhHhhCCCCCcEEEeCCC-ceEccchhhcccccchhhcccC--ceeee
Confidence            3445443  37899999999643    67888889999999999999765 66664 5778899999888876  47777


Q ss_pred             chhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--cccccceeeE
Q 037935          581 VPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLERFDI  653 (1085)
Q Consensus       581 p~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~L~l  653 (1085)
                      ....|.++..+..........             .....|.++++|+.+.+..+ +..++...  ...+|+.+.+
T Consensus       132 ~~~aF~~~~~~~~~~~~~~~~-------------i~~~aF~~c~~L~~i~l~~~-~~~I~~~~F~~c~~L~~i~l  192 (394)
T 4fs7_A          132 GVEAFKGCDFKEITIPEGVTV-------------IGDEAFATCESLEYVSLPDS-METLHNGLFSGCGKLKSIKL  192 (394)
T ss_dssp             CTTTTTTCCCSEEECCTTCCE-------------ECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCBCCC
T ss_pred             cceeeecccccccccCccccc-------------cchhhhcccCCCcEEecCCc-cceeccccccCCCCceEEEc
Confidence            777777766544443332221             12245778888888887643 33444443  4455665554

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.39  E-value=8e-07  Score=97.60  Aligned_cols=167  Identities=12%  Similarity=0.103  Sum_probs=99.4

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      -+.++|++..++.+..++..+..+.+.|+|++|+||||+|+.+++.......-...+.+..+.......+ ++.+..   
T Consensus        24 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~---   99 (327)
T 1iqp_A           24 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVI-REKVKE---   99 (327)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTT-HHHHHH---
T ss_pred             HHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHH-HHHHHH---
Confidence            3568999999999999988766667999999999999999999998643210011333443321111111 111110   


Q ss_pred             CCCCchHHHHHHHHHHH--HHcCCcEEEEEeCCCCc--ccccccccccCCCCCCcEEEe---------------------
Q 037935          240 ELSDEAEYRRASRLYER--LKNENKILVILDNIWKY--LDLDTIGIPFGNDHEGYNFLI---------------------  294 (1085)
Q Consensus       240 ~~~~~~~~~~~~~~~~~--l~~~~~~LlvlDdv~~~--~~~~~~~~~~~~~~~gs~ilv---------------------  294 (1085)
                                   ....  +..+++.++|+||++..  ..++.+...+.....+.++++                     
T Consensus       100 -------------~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~  166 (327)
T 1iqp_A          100 -------------FARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRF  166 (327)
T ss_dssp             -------------HHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEEC
T ss_pred             -------------HHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEe
Confidence                         0000  11256788889998764  223333222222122333332                     


Q ss_pred             cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHH
Q 037935          295 GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARAL  344 (1085)
Q Consensus       295 ~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l  344 (1085)
                      .+++.++..+++...+.... ..--.+....|++.++|.|..+..+...+
T Consensus       167 ~~l~~~~~~~~l~~~~~~~~-~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  215 (327)
T 1iqp_A          167 RPLRDEDIAKRLRYIAENEG-LELTEEGLQAILYIAEGDMRRAINILQAA  215 (327)
T ss_dssp             CCCCHHHHHHHHHHHHHTTT-CEECHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            88999999999988763211 11225677889999999998765544433

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.39  E-value=6.5e-07  Score=98.10  Aligned_cols=156  Identities=14%  Similarity=0.117  Sum_probs=94.4

Q ss_pred             CccccchHHHHHHHHHHhc-----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALT-----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      -+.++|++..++.+..++.     ......+.|+|++|+|||++|+.+++....     ..++++.+......++...+.
T Consensus        11 ~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~-----~~~~~~~~~~~~~~~l~~~l~   85 (324)
T 1hqc_A           11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV-----NLRVTSGPAIEKPGDLAAILA   85 (324)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTC-----CEEEECTTTCCSHHHHHHHHT
T ss_pred             HHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEeccccCChHHHHHHHH
Confidence            3568999999888887775     134467889999999999999999987642     234555544333333322221


Q ss_pred             HHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--ccc-----------------------------------
Q 037935          235 EKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLD-----------------------------------  277 (1085)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~-----------------------------------  277 (1085)
                      ..+                      .+..+|++||++...  ..+                                   
T Consensus        86 ~~~----------------------~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~  143 (324)
T 1hqc_A           86 NSL----------------------EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIG  143 (324)
T ss_dssp             TTC----------------------CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEE
T ss_pred             Hhc----------------------cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEE
Confidence            101                      233344555544321  000                                   


Q ss_pred             ------ccccccCCCCCCcEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHH
Q 037935          278 ------TIGIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARAL  344 (1085)
Q Consensus       278 ------~~~~~~~~~~~gs~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l  344 (1085)
                            .+...+.. .-+..+-+.+++.++..+++...+.... ..--.+....+++.++|.|..+..+...+
T Consensus       144 ~t~~~~~~~~~l~~-R~~~~i~l~~~~~~e~~~~l~~~~~~~~-~~~~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          144 ATTRPGLITAPLLS-RFGIVEHLEYYTPEELAQGVMRDARLLG-VRITEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             EESCCSSCSCSTTT-TCSCEEECCCCCHHHHHHHHHHHHHTTT-CCCCHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             eCCCcccCCHHHHh-cccEEEecCCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence                  01011110 1123455699999999999988773211 12235678899999999998877665554

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.38  E-value=6.5e-08  Score=107.39  Aligned_cols=88  Identities=16%  Similarity=0.083  Sum_probs=41.6

Q ss_pred             CcceEEEecCCcccC--CchhhhccccccEEeccCcccccccchhhhh-----ccccCCEEeccCCCcchhhcccCCccc
Q 037935          541 KKLRVVDLTRVRLFS--LPSSIGQLTKLRMLDLTDCLQLKFIVPNILS-----SFTRLEELYMGSCSIKWEVRKGNSERS  613 (1085)
Q Consensus       541 ~~Lr~L~Ls~~~i~~--lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~-----~L~~L~~L~L~~~~~~~~~~~~~~~~~  613 (1085)
                      ++|++|+|++|.++.  +..-...+.+|++|+|++| .++......++     ..++|++|+|++|.+....       .
T Consensus       101 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n-~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~-------~  172 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLN-SLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAG-------V  172 (372)
T ss_dssp             SCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSS-CCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHH-------H
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCC-CCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHH-------H
Confidence            456666666665543  1112233455666666666 55443322221     2355666666666552110       0


Q ss_pred             cccHHHhhcCCCCcEEEEEeccC
Q 037935          614 NASLDELMHLQRLTTLEIDVEDD  636 (1085)
Q Consensus       614 ~~~~~~l~~L~~L~~L~l~~~~~  636 (1085)
                      ......+..+++|++|++++|.+
T Consensus       173 ~~l~~~L~~~~~L~~L~Ls~N~l  195 (372)
T 3un9_A          173 AVLMEGLAGNTSVTHLSLLHTGL  195 (372)
T ss_dssp             HHHHHHHHTCSSCCEEECTTSSC
T ss_pred             HHHHHHHhcCCCcCEEeCCCCCC
Confidence            11222334555566666655543

>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

Probab=98.28  E-value=1.6e-07  Score=89.76  Aligned_cols=41  Identities=17%  Similarity=0.177  Sum_probs=20.7

Q ss_pred             hhhceeeeeccccccccCCCCcccccCccEEEeccccCccc
Q 037935          945 QHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMN  985 (1085)
Q Consensus       945 ~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~  985 (1085)
                      ++|++|++++|+++++.--..+..+++|++|+|++|+++++
T Consensus       114 ~~L~~L~Ls~C~~ITD~Gl~~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          114 KSMLEMEIISCGNVTDKGIIALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HHCCEEEEESCTTCCHHHHHHGGGCTTCCEEEEESCTTCCC
T ss_pred             CCCCEEEcCCCCcCCHHHHHHHhcCCCCCEEECCCCCCCCc
Confidence            45555555555544332111234455566666666665554

>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

Probab=98.21  E-value=5.2e-07  Score=86.23  Aligned_cols=90  Identities=14%  Similarity=0.235  Sum_probs=49.1

Q ss_pred             hhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchhhhh---hcccccEEEEcCCcccccccccccccccc
Q 037935          946 HLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAK---SLERLVSLRIFGCPAMTEVIISDEDETAN 1022 (1085)
Q Consensus       946 ~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~---~l~~L~~L~i~~c~~l~~l~~~~~~~~~~ 1022 (1085)
                      .|++|++++|. ++..--..+..+++|++|++++|.++++........   ..++|++|+|++|+++++-      ++..
T Consensus        62 ~L~~LDLs~~~-Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~------Gl~~  134 (176)
T 3e4g_A           62 KIQAIDATDSC-IMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDK------GIIA  134 (176)
T ss_dssp             CEEEEEEESCC-CCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHH------HHHH
T ss_pred             eEeEEeCcCCC-ccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHH------HHHH
Confidence            46666666664 433222224456677777777777776542222221   1246777777777766553      2211


Q ss_pred             cccceeeccccccccccccccce
Q 037935         1023 LKEEIVFSKLSALSLFDLDSLTS 1045 (1085)
Q Consensus      1023 ~~~~~~~~~L~~L~l~~c~~L~~ 1045 (1085)
                      +   ..+++|++|++++|+.++.
T Consensus       135 L---~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          135 L---HHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             G---GGCTTCCEEEEESCTTCCC
T ss_pred             H---hcCCCCCEEECCCCCCCCc
Confidence            1   1256666666666666654

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.17  E-value=8.8e-06  Score=88.82  Aligned_cols=163  Identities=10%  Similarity=0.094  Sum_probs=98.0

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCC-EEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFD-RVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      ..++|++..++.+.+++..+..+.+.++|++|+|||++|+.+++...... +. ..+.++.+.......+.         
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~---------   86 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN-WRDNFIEMNASDERGIDVVR---------   86 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTC-HHHHCEEEETTSTTCTTTSS---------
T ss_pred             HHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCc-ccCCeEEEeCccccChHHHH---------
Confidence            45899999999999998866666699999999999999999998763211 11 12334443321111000         


Q ss_pred             CCCCchHHHHHHHHHHH--HHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe---------------------
Q 037935          240 ELSDEAEYRRASRLYER--LKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI---------------------  294 (1085)
Q Consensus       240 ~~~~~~~~~~~~~~~~~--l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv---------------------  294 (1085)
                              +........  +..+++.++|+||++...  ..+.+...+.....+.++++                     
T Consensus        87 --------~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~  158 (319)
T 2chq_A           87 --------HKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRF  158 (319)
T ss_dssp             --------HHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEEC
T ss_pred             --------HHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEe
Confidence                    001111100  112568899999987642  23334333332223333333                     


Q ss_pred             cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHH
Q 037935          295 GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVAR  342 (1085)
Q Consensus       295 ~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~  342 (1085)
                      .+++.++..+++...+.... ..--.+....+++.++|.+..+.....
T Consensus       159 ~~~~~~~~~~~l~~~~~~~~-~~i~~~~l~~l~~~~~G~~r~~~~~l~  205 (319)
T 2chq_A          159 KPVPKEAMKKRLLEICEKEG-VKITEDGLEALIYISGGDFRKAINALQ  205 (319)
T ss_dssp             CCCCHHHHHHHHHHHHHTTC-CCBCHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            88999999999887763211 112256678889999998876554433

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.11  E-value=1.5e-05  Score=79.50  Aligned_cols=49  Identities=18%  Similarity=0.256  Sum_probs=42.7

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      -+.++||+.+++++.+++.....+.+.|+|++|+|||++|+.+++....
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~   69 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            3568999999999999988666677899999999999999999997643

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.11  E-value=8.7e-07  Score=98.29  Aligned_cols=34  Identities=18%  Similarity=0.197  Sum_probs=14.9

Q ss_pred             CcceEEEecCCcccC-----CchhhhccccccEEeccCc
Q 037935          541 KKLRVVDLTRVRLFS-----LPSSIGQLTKLRMLDLTDC  574 (1085)
Q Consensus       541 ~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~Ls~~  574 (1085)
                      +.|++|+|++|.++.     ++..+..+++|++|+|++|
T Consensus       155 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N  193 (372)
T 3un9_A          155 CQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHT  193 (372)
T ss_dssp             CCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTS
T ss_pred             CccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCC
Confidence            444444444444432     2233344444444444444

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.08  E-value=2e-05  Score=88.17  Aligned_cols=174  Identities=11%  Similarity=0.125  Sum_probs=94.8

Q ss_pred             ccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          161 EAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      +.++||+..++.+..++..+.. ..+.|+|++|+||||+|+.+.+.......+..       ..+........+...-..
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~-------~~~~~~~~~~~~~~~~~~   88 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA-------TPCGVCDNCREIEQGRFV   88 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCS-------SCCSSSHHHHHHHTSCCS
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCC-------CCCcccHHHHHHhccCCC
Confidence            4589999999999998875443 56889999999999999999987753221100       000000000111000000


Q ss_pred             C-----CCCchHHHHHHHHHHHHH----cCCcEEEEEeCCCCcc--cccccccccCCCCCC-------------------
Q 037935          240 E-----LSDEAEYRRASRLYERLK----NENKILVILDNIWKYL--DLDTIGIPFGNDHEG-------------------  289 (1085)
Q Consensus       240 ~-----~~~~~~~~~~~~~~~~l~----~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~g-------------------  289 (1085)
                      .     .......+.+..+.+.+.    .+++.++|+||++...  .++.+...+.....+                   
T Consensus        89 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~s  168 (373)
T 1jr3_A           89 DLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILS  168 (373)
T ss_dssp             SCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHT
T ss_pred             ceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHh
Confidence            0     000000001122222222    2567788888886542  222222222111112                   


Q ss_pred             --cEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHH
Q 037935          290 --YNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVAR  342 (1085)
Q Consensus       290 --s~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~  342 (1085)
                        ..+-+.+++.++..+++...+.... ..--.+....|++.++|.|..+..+..
T Consensus       169 r~~~i~~~~l~~~~~~~~l~~~~~~~~-~~~~~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          169 RCLQFHLKALDVEQIRHQLEHILNEEH-IAHEPRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHHHHHT-CCBCHHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             heeEeeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHCCCCHHHHHHHHH
Confidence              2233389999999999987662110 111256678899999999987765543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.00  E-value=0.00014  Score=77.52  Aligned_cols=49  Identities=27%  Similarity=0.324  Sum_probs=40.2

Q ss_pred             CCccccchHHHHHHHHHHhcc-------------CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          159 GYEAFESRVSTLKSIQNALTD-------------VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-+.++|.+..++++.+.+..             ...+.+.|+|++|+|||++|+.+++...
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~   76 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETN   76 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTT
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            345689999999999887641             3456789999999999999999998764

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.93  E-value=2.6e-05  Score=77.30  Aligned_cols=49  Identities=18%  Similarity=0.239  Sum_probs=42.6

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .+.++||+.+++.+.+.+.....+.+.|+|++|+|||++|+.+++....
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             cchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            3568999999999999988766677899999999999999999987643

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.91  E-value=9.6e-05  Score=83.08  Aligned_cols=79  Identities=14%  Similarity=0.153  Sum_probs=50.0

Q ss_pred             CcceeeeccCCCccccccChhhhcCCCcceEEEecCCc---ccCCc-hhhhccccccEEeccCcccccccchhhhhcccc
Q 037935          515 QLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVR---LFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTR  590 (1085)
Q Consensus       515 ~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~---i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~  590 (1085)
                      .|+++.+-..    ...+.+..|.++.+|+.+.+..+.   ++.++ .+|.++.+|+.+.+..  .++.++...|.++.+
T Consensus        65 ~L~sI~iP~s----vt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~--~~~~I~~~aF~~c~~  138 (394)
T 4gt6_A           65 VLTSVQIPDT----VTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILD--SVTEIDSEAFHHCEE  138 (394)
T ss_dssp             CCCEEEECTT----CCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGT--TCSEECTTTTTTCTT
T ss_pred             cCEEEEECCC----eeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCC--ccceehhhhhhhhcc
Confidence            4677766433    456666777777777777776542   44443 3566667777666655  366666666677777


Q ss_pred             CCEEeccCC
Q 037935          591 LEELYMGSC  599 (1085)
Q Consensus       591 L~~L~L~~~  599 (1085)
                      |+.+.+..+
T Consensus       139 L~~i~lp~~  147 (394)
T 4gt6_A          139 LDTVTIPEG  147 (394)
T ss_dssp             CCEEECCTT
T ss_pred             cccccccce
Confidence            777766543

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=97.91  E-value=0.00013  Score=82.40  Aligned_cols=159  Identities=18%  Similarity=0.246  Sum_probs=96.0

Q ss_pred             CccccchHHHH---HHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHH
Q 037935          160 YEAFESRVSTL---KSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAE  235 (1085)
Q Consensus       160 ~~~~~gr~~~~---~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~  235 (1085)
                      -+.++|.+..+   ..+...+..+....+.|+|++|+||||+|+.+.+.....  |     +.++.. .....+ ++++.
T Consensus        25 l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~~--f-----~~l~a~~~~~~~i-r~~~~   96 (447)
T 3pvs_A           25 LAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANAD--V-----ERISAVTSGVKEI-REAIE   96 (447)
T ss_dssp             TTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTCE--E-----EEEETTTCCHHHH-HHHHH
T ss_pred             HHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCCC--e-----EEEEeccCCHHHH-HHHHH
Confidence            45689998888   677777777777889999999999999999999976532  2     233221 122221 11111


Q ss_pred             HhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCC---------------------CCCcEE
Q 037935          236 KLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGND---------------------HEGYNF  292 (1085)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~---------------------~~gs~i  292 (1085)
                                      ........+++.+|++|+++...  ..+.+...+..+                     .....+
T Consensus        97 ----------------~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~~v~lI~att~n~~~~l~~aL~sR~~v~  160 (447)
T 3pvs_A           97 ----------------RARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDGTITFIGATTENPSFELNSALLSRARVY  160 (447)
T ss_dssp             ----------------HHHHHHHTTCCEEEEEETTTCC------CCHHHHHTTSCEEEEEESSCGGGSSCHHHHTTEEEE
T ss_pred             ----------------HHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcCceEEEecCCCCcccccCHHHhCceeEE
Confidence                            11111124788999999997642  222222111110                     112233


Q ss_pred             EecCCCHHHHHHHHHHhcCCC------CCCCCchHHHHHHHHHhCCchHHHHHHHH
Q 037935          293 LIGNLSEEEAWRLFKIMNGDD------VENCKFKPTAINVAQACGGLPIALTTVAR  342 (1085)
Q Consensus       293 lv~~l~~~~~~~lf~~~~~~~------~~~~~~~~~~~~i~~~~~glPlai~~~~~  342 (1085)
                      .+.+++.++..+++.......      ....--.+....+++.++|.+-.+..+..
T Consensus       161 ~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le  216 (447)
T 3pvs_A          161 LLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLE  216 (447)
T ss_dssp             ECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHH
T ss_pred             eeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            349999999999998876321      11123356778899999998865554433

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.89  E-value=9.5e-06  Score=89.01  Aligned_cols=64  Identities=16%  Similarity=0.292  Sum_probs=32.6

Q ss_pred             CCccceeeeccCCceeeecccCC-cCccCCceEEEecCCcccccch----hHHhhccccceEEeecccc
Q 037935          835 LPNLEGLALSGKDITMILQDDFP-QHLFGSLKQLRVGDDDLACFPL----DLLERFHNLEFLYLSDCSY  898 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~-~~~~~~L~~L~l~~n~l~~~~~----~~~~~l~~L~~L~l~~~~l  898 (1085)
                      +|+|+.|++++|.+.+.....+. ...+++|++|++++|.++....    ..+.++++|+.|++++|.+
T Consensus       251 ~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i  319 (362)
T 2ra8_A          251 FPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYL  319 (362)
T ss_dssp             CTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBBC
T ss_pred             CCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCCcC
Confidence            56666666666665432111110 1125666666666666654321    1123456666666666653

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=97.87  E-value=0.0002  Score=75.22  Aligned_cols=93  Identities=15%  Similarity=0.135  Sum_probs=54.5

Q ss_pred             ccccchHHHHHHHHHHhc---c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH
Q 037935          161 EAFESRVSTLKSIQNALT---D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  228 (1085)
                      +.++|.+..++.+.+.+.   .         ...+.+.|+|++|+|||++|+.+++.....     .+.++.+.-.+   
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~-----~~~~~~~~~~~---   77 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVP-----FLAMAGAEFVE---   77 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCC-----EEEEETTTTSS---
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----EEEechHHHHh---
Confidence            457898888777765542   1         233568899999999999999999976532     33444433111   


Q ss_pred             HHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          229 IQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       229 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                                 .... ........+.+......+.+|++||++..
T Consensus        78 -----------~~~~-~~~~~~~~~~~~a~~~~~~vl~iDeid~l  110 (262)
T 2qz4_A           78 -----------VIGG-LGAARVRSLFKEARARAPCIVYIDEIDAV  110 (262)
T ss_dssp             -----------SSTT-HHHHHHHHHHHHHHHTCSEEEEEECC---
T ss_pred             -----------hccC-hhHHHHHHHHHHHHhcCCeEEEEeCcchh
Confidence                       0011 11122333444444456788888888653

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.86  E-value=0.0002  Score=80.38  Aligned_cols=91  Identities=18%  Similarity=0.197  Sum_probs=54.2

Q ss_pred             ccccChhhhcCCC-cceEEEecCCcccCCc-hhhhccccccEEeccCc--ccccccchhhhhccccCCEEeccCCCcchh
Q 037935          529 ELNIPDNFFKGMK-KLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDC--LQLKFIVPNILSSFTRLEELYMGSCSIKWE  604 (1085)
Q Consensus       529 ~~~l~~~~~~~l~-~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~--~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~  604 (1085)
                      ...|.+..|.+++ .|+.+.+-.+ ++.+. .+|.++.+|+.+.+..+  ..++.++...|.++.+|+.+.+..+--   
T Consensus        51 Vt~Ig~~aF~~~~~~L~sI~iP~s-vt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~~~---  126 (394)
T 4gt6_A           51 VSKIGDRVFCNYKYVLTSVQIPDT-VTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDSVT---  126 (394)
T ss_dssp             EEEECTTTTTTCCSCCCEEEECTT-CCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTTCS---
T ss_pred             eeEcCHhhccCCCCcCEEEEECCC-eeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCccc---
Confidence            3456666676664 4777777543 55553 46677777777777654  136666666677777777666544321   


Q ss_pred             hcccCCccccccHHHhhcCCCCcEEEEE
Q 037935          605 VRKGNSERSNASLDELMHLQRLTTLEID  632 (1085)
Q Consensus       605 ~~~~~~~~~~~~~~~l~~L~~L~~L~l~  632 (1085)
                               ......+..+.+|+.+.+.
T Consensus       127 ---------~I~~~aF~~c~~L~~i~lp  145 (394)
T 4gt6_A          127 ---------EIDSEAFHHCEELDTVTIP  145 (394)
T ss_dssp             ---------EECTTTTTTCTTCCEEECC
T ss_pred             ---------eehhhhhhhhccccccccc
Confidence                     1122345566677766664

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.86  E-value=8.2e-06  Score=89.52  Aligned_cols=168  Identities=19%  Similarity=0.160  Sum_probs=100.1

Q ss_pred             CCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchHHHhccCCcccccccccCCcccEEecCCCCc-
Q 037935          704 LPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGLPE-  782 (1085)
Q Consensus       704 ~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~-  782 (1085)
                      ++.++..+|+|+.|.|++|..+. +++   + .+++|+.|.+..|..-.......      ....+|+|+.|+|+...+ 
T Consensus       164 L~~ll~~~P~L~~L~L~g~~~l~-l~~---~-~~~~L~~L~L~~~~l~~~~l~~l------~~~~lp~L~~L~L~~~~~~  232 (362)
T 2ra8_A          164 LSPVLDAMPLLNNLKIKGTNNLS-IGK---K-PRPNLKSLEIISGGLPDSVVEDI------LGSDLPNLEKLVLYVGVED  232 (362)
T ss_dssp             CHHHHHTCTTCCEEEEECCBTCB-CCS---C-BCTTCSEEEEECSBCCHHHHHHH------HHSBCTTCCEEEEECBCGG
T ss_pred             HHHHHhcCCCCcEEEEeCCCCce-ecc---c-cCCCCcEEEEecCCCChHHHHHH------HHccCCCCcEEEEeccccc
Confidence            33455678899999999874332 222   3 38999999998776322111000      011489999999853211 


Q ss_pred             ------cccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeecccC
Q 037935          783 ------LRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDDF  856 (1085)
Q Consensus       783 ------l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~~  856 (1085)
                            +..+........+|+|+.|.+.+|........            .+ .-...+++|++|+|+.|.+.+.....+
T Consensus       233 ~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~------------~l-a~a~~~~~L~~LdLs~n~L~d~G~~~L  299 (362)
T 2ra8_A          233 YGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVE------------MF-LESDILPQLETMDISAGVLTDEGARLL  299 (362)
T ss_dssp             GTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHH------------HH-HHCSSGGGCSEEECCSSCCBHHHHHHH
T ss_pred             cccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHH------------HH-HhCccCCCCCEEECCCCCCChHHHHHH
Confidence                  11111111124589999999998865432110            00 001247999999999999877433222


Q ss_pred             Cc--CccCCceEEEecCCcccccchhHHhh-ccccceEEeeccc
Q 037935          857 PQ--HLFGSLKQLRVGDDDLACFPLDLLER-FHNLEFLYLSDCS  897 (1085)
Q Consensus       857 ~~--~~~~~L~~L~l~~n~l~~~~~~~~~~-l~~L~~L~l~~~~  897 (1085)
                      ..  ..+++|+.|++++|.++......+.. +  ...+++++++
T Consensus       300 ~~~L~~l~~L~~L~L~~n~i~d~~~~~l~~al--g~~~~~~~~~  341 (362)
T 2ra8_A          300 LDHVDKIKHLKFINMKYNYLSDEMKKELQKSL--PMKIDVSDSQ  341 (362)
T ss_dssp             HTTHHHHTTCSEEECCSBBCCHHHHHHHHHHC--CSEEECCSBC
T ss_pred             HhhcccCCcceEEECCCCcCCHHHHHHHHHHc--CCEEEecCCc
Confidence            21  23789999999999887654333332 2  3567777766

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.84  E-value=3.5e-05  Score=85.34  Aligned_cols=173  Identities=13%  Similarity=0.120  Sum_probs=95.5

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhc--cCCCEEEEEEeCCCcCHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREK--KLFDRVVFSEVSQTPDIKKIQGEIAEKL  237 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~--~~f~~~~wv~~~~~~~~~~~~~~i~~~l  237 (1085)
                      -..++|++..++.+..++..+..+.+.|+|++|+||||+|+.+.+.....  ..+ .++.++.+.......+.. ....+
T Consensus        36 ~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~  113 (353)
T 1sxj_D           36 LDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKS-RILELNASDERGISIVRE-KVKNF  113 (353)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTT-SEEEECSSSCCCHHHHTT-HHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCccccc-ceEEEccccccchHHHHH-HHHHH
Confidence            35689999999999999886655558999999999999999999875421  112 133344444333333222 11111


Q ss_pred             C-CCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCc---------------------EEE
Q 037935          238 G-LELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGY---------------------NFL  293 (1085)
Q Consensus       238 ~-~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs---------------------~il  293 (1085)
                      . .........     .......+++-+|++|+++...  ..+.+...+.......                     .+-
T Consensus       114 ~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~  188 (353)
T 1sxj_D          114 ARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFR  188 (353)
T ss_dssp             HHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEE
T ss_pred             hhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEE
Confidence            1 000000000     0000001344577777765431  1122211111111122                     223


Q ss_pred             ecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHH
Q 037935          294 IGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTV  340 (1085)
Q Consensus       294 v~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~  340 (1085)
                      +.+++.++..+.+...+.... ..--++....|++.++|.|..+..+
T Consensus       189 ~~~~~~~~~~~~l~~~~~~~~-~~i~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          189 FKALDASNAIDRLRFISEQEN-VKCDDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTT-CCCCHHHHHHHHHHTSSCHHHHHHH
T ss_pred             eCCCCHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            389999999999988763211 1223577889999999998765443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.72  E-value=0.00063  Score=72.97  Aligned_cols=94  Identities=11%  Similarity=0.176  Sum_probs=59.6

Q ss_pred             CccccchHHHHHHHHHHhcc------------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          160 YEAFESRVSTLKSIQNALTD------------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~------------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      -+.++|.+..++.+.+++..            ...+.+.|+|++|+||||+|+.+++.....     .+.++.+.-..  
T Consensus        20 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~-----~~~i~~~~l~~--   92 (297)
T 3b9p_A           20 WTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSAT-----FLNISAASLTS--   92 (297)
T ss_dssp             GGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCE-----EEEEESTTTSS--
T ss_pred             HHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC-----eEEeeHHHHhh--
Confidence            35689999999998887631            234688999999999999999999876421     23344432110  


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                                  .... ........+.......++.+|++|+++..
T Consensus        93 ------------~~~~-~~~~~~~~~~~~~~~~~~~vl~iDEid~l  125 (297)
T 3b9p_A           93 ------------KYVG-DGEKLVRALFAVARHMQPSIIFIDEVDSL  125 (297)
T ss_dssp             ------------SSCS-CHHHHHHHHHHHHHHTCSEEEEEETGGGT
T ss_pred             ------------cccc-hHHHHHHHHHHHHHHcCCcEEEeccHHHh
Confidence                        1111 11222333334444467889999998654

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=97.69  E-value=0.00061  Score=74.91  Aligned_cols=47  Identities=23%  Similarity=0.187  Sum_probs=38.8

Q ss_pred             ccccchHHHHHHHHHHhc------------cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALT------------DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.++|.+..++.+.+.+.            ....+.|.|+|++|+|||++|+.+++...
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~  142 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSG  142 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTT
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcC
Confidence            468999999998888764            13456889999999999999999998754

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=97.66  E-value=0.00051  Score=72.51  Aligned_cols=46  Identities=13%  Similarity=0.135  Sum_probs=33.7

Q ss_pred             cccchHHHHHHHHH-------Hhc---cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          162 AFESRVSTLKSIQN-------ALT---DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~-------~l~---~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++|++...+++..       .+.   ....+.+.|+|++|+|||++|+.+++...
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~   89 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESN   89 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            45666665555544       232   34567889999999999999999999754

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.64  E-value=4e-05  Score=79.32  Aligned_cols=87  Identities=24%  Similarity=0.323  Sum_probs=59.5

Q ss_pred             hcCCCcceEEEecCCcccCCc---hhhhccccccEEeccCcccccccchhhhhccc--cCCEEeccCCCcchhhcccCCc
Q 037935          537 FKGMKKLRVVDLTRVRLFSLP---SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFT--RLEELYMGSCSIKWEVRKGNSE  611 (1085)
Q Consensus       537 ~~~l~~Lr~L~Ls~~~i~~lp---~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~--~L~~L~L~~~~~~~~~~~~~~~  611 (1085)
                      ..++++|++|+|++|.|+.++   ..++.+++|++|+|++| .++.+..  +..+.  +|++|+|++|.+....+..   
T Consensus       166 ~~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N-~i~~~~~--l~~l~~l~L~~L~L~~Npl~~~~~~~---  239 (267)
T 3rw6_A          166 EENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERE--LDKIKGLKLEELWLDGNSLCDTFRDQ---  239 (267)
T ss_dssp             HHHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTS-CCCSGGG--GGGGTTSCCSEEECTTSTTGGGCSSH---
T ss_pred             HhhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCC-ccCCchh--hhhcccCCcceEEccCCcCccccCcc---
Confidence            356788999999999887754   56678899999999998 8887733  35555  8899999998874211100   


Q ss_pred             cccccHHHhhcCCCCcEEE
Q 037935          612 RSNASLDELMHLQRLTTLE  630 (1085)
Q Consensus       612 ~~~~~~~~l~~L~~L~~L~  630 (1085)
                       ......-+..+++|+.|+
T Consensus       240 -~~y~~~il~~~P~L~~LD  257 (267)
T 3rw6_A          240 -STYISAIRERFPKLLRLD  257 (267)
T ss_dssp             -HHHHHHHHHHCTTCCEES
T ss_pred             -hhHHHHHHHHCcccCeEC
Confidence             011123466777887765

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.64  E-value=8.4e-05  Score=86.29  Aligned_cols=173  Identities=12%  Similarity=0.051  Sum_probs=96.3

Q ss_pred             CCccccchHHHHHHHHHHhcc-----------------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC
Q 037935          159 GYEAFESRVSTLKSIQNALTD-----------------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS  221 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~~-----------------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  221 (1085)
                      .-..++|++..++++.+++..                 +..+.+.|+|++|+||||+|+.+++...    + .++.++++
T Consensus        37 ~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~-~~i~in~s  111 (516)
T 1sxj_A           37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----Y-DILEQNAS  111 (516)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----C-EEEEECTT
T ss_pred             CHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----C-CEEEEeCC
Confidence            345689999999999999863                 1347899999999999999999999873    2 24445555


Q ss_pred             CCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHH-HHcCCcEEEEEeCCCCccc-----cccccccc------------
Q 037935          222 QTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYER-LKNENKILVILDNIWKYLD-----LDTIGIPF------------  283 (1085)
Q Consensus       222 ~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~-l~~~~~~LlvlDdv~~~~~-----~~~~~~~~------------  283 (1085)
                      ....... ....+........-...   .....+. ...+++.+||+|+++....     +..+...+            
T Consensus       112 ~~~~~~~-~~~~i~~~~~~~~~~~~---~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~~~~iIli~~  187 (516)
T 1sxj_A          112 DVRSKTL-LNAGVKNALDNMSVVGY---FKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICN  187 (516)
T ss_dssp             SCCCHHH-HHHTGGGGTTBCCSTTT---TTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCEEEEES
T ss_pred             CcchHHH-HHHHHHHHhccccHHHH---HhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhcCCCEEEEEc
Confidence            5444332 22222221110000000   0000000 0136778888998865421     11110000            


Q ss_pred             -------CC-CCCCcEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCC-chHHHHHHH
Q 037935          284 -------GN-DHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGG-LPIALTTVA  341 (1085)
Q Consensus       284 -------~~-~~~gs~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~g-lPlai~~~~  341 (1085)
                             +. ...+..|-+.+++.++..+.+...+.... ..--.+....|++.++| ++-++..+.
T Consensus       188 ~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~-~~i~~~~l~~la~~s~GdiR~~i~~L~  253 (516)
T 1sxj_A          188 ERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREK-FKLDPNVIDRLIQTTRGDIRQVINLLS  253 (516)
T ss_dssp             CTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHT-CCCCTTHHHHHHHHTTTCHHHHHHHHT
T ss_pred             CCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCcHHHHHHHHH
Confidence                   00 11223344588999999988877663111 01113457889999999 455555543

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=97.64  E-value=0.0022  Score=71.52  Aligned_cols=79  Identities=10%  Similarity=0.174  Sum_probs=48.4

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCcccccccchhhhhcccc
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTR  590 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~  590 (1085)
                      ...+|+++.+...    ...|++..|.++.+|+.++|..+ ++.++ .+|.++ .|..+.+..  .++.++...|... +
T Consensus        44 ~~~~i~~v~ip~~----vt~Ig~~aF~~C~~L~~I~lp~~-v~~Ig~~aF~~c-~l~~i~~~~--~l~~I~~~aF~~~-~  114 (379)
T 4h09_A           44 DRDRISEVRVNSG----ITSIGEANFNSCYNMTKVTVAST-VTSIGDGAFADT-KLQSYTGME--RVKKFGDYVFQGT-D  114 (379)
T ss_dssp             GGGGCSEEEECTT----EEEECTTTTTTCTTCCEEEECTT-CCEECTTTTTTC-CCCEEEECT--TCCEECTTTTTTC-C
T ss_pred             cccCCEEEEeCCC----ccChHHHHhhCCCCCCEEEeCCc-ceEechhhhcCC-CCceEECCc--eeeEeccceeccC-C
Confidence            4456777766533    56677777888888888877543 55554 345554 466666554  4666666665443 6


Q ss_pred             CCEEeccCC
Q 037935          591 LEELYMGSC  599 (1085)
Q Consensus       591 L~~L~L~~~  599 (1085)
                      |+.+.+..+
T Consensus       115 L~~i~lp~~  123 (379)
T 4h09_A          115 LDDFEFPGA  123 (379)
T ss_dssp             CSEEECCTT
T ss_pred             cccccCCCc
Confidence            666666543

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=97.63  E-value=4.1e-05  Score=79.49  Aligned_cols=173  Identities=13%  Similarity=0.095  Sum_probs=86.5

Q ss_pred             ccccch---HHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHh
Q 037935          161 EAFESR---VSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKL  237 (1085)
Q Consensus       161 ~~~~gr---~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  237 (1085)
                      +.|+|+   +..++.+..+...+..+.+.|+|++|+||||+|+.+++.....  ...+.|++++.-...   ..+++..+
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~--~~~~~~~~~~~~~~~---~~~~~~~~  102 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL--ERRSFYIPLGIHASI---STALLEGL  102 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEGGGGGGS---CGGGGTTG
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHHHHHHH---HHHHHHhc
Confidence            456653   3556666666555466889999999999999999999987654  334677776542210   00111111


Q ss_pred             CCCC----CC-----chH--HHHHHHHHHHHHc-CCcEEEEEeCCCCcccccccccccCC-CCCCcEEEecCCCHHHHHH
Q 037935          238 GLEL----SD-----EAE--YRRASRLYERLKN-ENKILVILDNIWKYLDLDTIGIPFGN-DHEGYNFLIGNLSEEEAWR  304 (1085)
Q Consensus       238 ~~~~----~~-----~~~--~~~~~~~~~~l~~-~~~~LlvlDdv~~~~~~~~~~~~~~~-~~~gs~ilv~~l~~~~~~~  304 (1085)
                      ....    ++     ...  ...+..+.+.... ++..+++.-+-. ...|......+.. ...|..+-+.+++.++..+
T Consensus       103 ~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~-~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~  181 (242)
T 3bos_A          103 EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASAS-PMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLA  181 (242)
T ss_dssp             GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSC-TTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHH
T ss_pred             cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCC-HHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHH
Confidence            1000    00     000  1112222222221 222122222211 1111111000000 0123455568888888888


Q ss_pred             HHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHH
Q 037935          305 LFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTV  340 (1085)
Q Consensus       305 lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~  340 (1085)
                      ++...+... ...--.+....+++.++|.+-.+..+
T Consensus       182 ~l~~~~~~~-~~~~~~~~~~~l~~~~~g~~r~l~~~  216 (242)
T 3bos_A          182 ALQRRAAMR-GLQLPEDVGRFLLNRMARDLRTLFDV  216 (242)
T ss_dssp             HHHHHHHHT-TCCCCHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHc-CCCCCHHHHHHHHHHccCCHHHHHHH
Confidence            888776311 11223567788888888887665543

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=97.60  E-value=0.00085  Score=72.69  Aligned_cols=162  Identities=17%  Similarity=0.189  Sum_probs=92.1

Q ss_pred             CCccccchHHHHHHHHHHhc------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH
Q 037935          159 GYEAFESRVSTLKSIQNALT------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  226 (1085)
                      .-+.++|.+..++.+.+++.            ....+-+.++|++|+|||++|+++++.....     .+.++.+     
T Consensus        16 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~-----~~~v~~~-----   85 (322)
T 3eie_A           16 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST-----FFSVSSS-----   85 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCE-----EEEEEHH-----
T ss_pred             CHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCC-----EEEEchH-----
Confidence            34568999999999988773            1123578999999999999999999986532     2233321     


Q ss_pred             HHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCccc-------------ccccccccC---CCCCCc
Q 037935          227 KKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLD-------------LDTIGIPFG---NDHEGY  290 (1085)
Q Consensus       227 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~-------------~~~~~~~~~---~~~~gs  290 (1085)
                       .+    ..    ... ......+..+.+.....++.+|++|+++....             ...+...+.   ....+.
T Consensus        86 -~l----~~----~~~-g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v  155 (322)
T 3eie_A           86 -DL----VS----KWM-GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGV  155 (322)
T ss_dssp             -HH----HT----TTG-GGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCE
T ss_pred             -HH----hh----ccc-chHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCce
Confidence             11    11    000 11223344455555557788999999975411             111111111   111222


Q ss_pred             EEEe----------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCc-hHHHHHHH
Q 037935          291 NFLI----------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGL-PIALTTVA  341 (1085)
Q Consensus       291 ~ilv----------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-Plai~~~~  341 (1085)
                      .||.                      .+.+.++-.++++.++.... ...-......|++.+.|. +-.|..+.
T Consensus       156 ~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~-~~~~~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          156 LVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTP-CVLTKEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             EEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCC-CCCCHHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             EEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCC-CCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            2221                      66677777888887774321 111245567888888774 44444333

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.60  E-value=0.0016  Score=70.31  Aligned_cols=95  Identities=16%  Similarity=0.212  Sum_probs=58.9

Q ss_pred             CccccchHHHHHHHHHHhc------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          160 YEAFESRVSTLKSIQNALT------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      -+.++|.+..++.+.+.+.            ....+.|.++|++|+|||++|+++++.....    ..+.++.+.-.   
T Consensus        11 ~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~----~~~~i~~~~l~---   83 (322)
T 1xwi_A           11 WSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNS----TFFSISSSDLV---   83 (322)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSC----EEEEEECCSSC---
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCC----cEEEEEhHHHH---
Confidence            3567898888888877653            1123678999999999999999999976211    12333433211   


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                                 ....... ......+.+.....++.+|++|+++..
T Consensus        84 -----------~~~~g~~-~~~~~~lf~~a~~~~~~vl~iDEid~l  117 (322)
T 1xwi_A           84 -----------SKWLGES-EKLVKNLFQLARENKPSIIFIDEIDSL  117 (322)
T ss_dssp             -----------CSSCCSC-HHHHHHHHHHHHHTSSEEEEEETTTGG
T ss_pred             -----------hhhhhHH-HHHHHHHHHHHHhcCCcEEEeecHHHh
Confidence                       1111111 222344444444577889999998754

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.54  E-value=6.1e-05  Score=74.18  Aligned_cols=116  Identities=16%  Similarity=0.104  Sum_probs=74.6

Q ss_pred             CCCCcceeeeccC-CCcc--ccccChhhhcCCCcceEEEecCCcccC-----CchhhhccccccEEeccCcccccc----
Q 037935          512 ECPQLEFLHIDPK-ITFA--ELNIPDNFFKGMKKLRVVDLTRVRLFS-----LPSSIGQLTKLRMLDLTDCLQLKF----  579 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~-~~~~--~~~l~~~~~~~l~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~----  579 (1085)
                      ..+.|++|++.+| ....  ...+ ...+...+.|++|+|++|.|..     +...+...++|++|+|++| .+..    
T Consensus        34 ~~~~L~~L~L~~n~~i~~~g~~~l-~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N-~i~~~g~~  111 (185)
T 1io0_A           34 NDPDLEEVNLNNIMNIPVPTLKAC-AEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN-FISGSGIL  111 (185)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHH-HHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCHHHHH
T ss_pred             cCCCCCEEEecCCCCCCHHHHHHH-HHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCC-cCCHHHHH
Confidence            4678888888877 4100  0111 2345667888888888888764     4456667788888888888 7765    


Q ss_pred             -cchhhhhccccCCEEec--cCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          580 -IVPNILSSFTRLEELYM--GSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       580 -lp~~~~~~L~~L~~L~L--~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                       +... +...++|++|+|  ++|.+....       .......+...++|++|++++|.+.
T Consensus       112 ~l~~~-L~~n~~L~~L~L~~~~N~i~~~g-------~~~l~~~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A          112 ALVEA-LQSNTSLIELRIDNQSQPLGNNV-------EMEIANMLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             HHHHG-GGGCSSCCEEECCCCSSCCCHHH-------HHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHHH-HHhCCCceEEEecCCCCCCCHHH-------HHHHHHHHHhCCCcCEEeccCCCCC
Confidence             2222 466778888888  778773110       0113344566678888888877653

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.54  E-value=0.00045  Score=75.71  Aligned_cols=153  Identities=13%  Similarity=0.167  Sum_probs=89.3

Q ss_pred             CccccchHHHHHHHHHHhcc-----CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALTD-----VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      -+.++|++..++++..++..     .....|.|+|++|+|||++|+.+++.....     .+.++.+.......+. ..+
T Consensus        28 ~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~-----~~~~~~~~~~~~~~~~-~~~  101 (338)
T 3pfi_A           28 FDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSAN-----IKTTAAPMIEKSGDLA-AIL  101 (338)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCC-----EEEEEGGGCCSHHHHH-HHH
T ss_pred             HHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC-----eEEecchhccchhHHH-HHH
Confidence            35689999999998888762     344678999999999999999998875422     2334433222222211 111


Q ss_pred             HHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--ccccc---------------------------------
Q 037935          235 EKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTI---------------------------------  279 (1085)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~---------------------------------  279 (1085)
                      ..                      ..+..+|++|+++...  ....+                                 
T Consensus       102 ~~----------------------~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  159 (338)
T 3pfi_A          102 TN----------------------LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIG  159 (338)
T ss_dssp             HT----------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEE
T ss_pred             Hh----------------------ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEE
Confidence            11                      1344556666655431  00000                                 


Q ss_pred             --------ccccCCCCCCcEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHH
Q 037935          280 --------GIPFGNDHEGYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVAR  342 (1085)
Q Consensus       280 --------~~~~~~~~~gs~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~  342 (1085)
                              ..++.. .-+..|-+.+++.++..+++...+.... ..--.+....+++.+.|.|-.+..+..
T Consensus       160 atn~~~~l~~~L~~-R~~~~i~l~~~~~~e~~~il~~~~~~~~-~~~~~~~~~~l~~~~~G~~r~l~~~l~  228 (338)
T 3pfi_A          160 ATTRAGMLSNPLRD-RFGMQFRLEFYKDSELALILQKAALKLN-KTCEEKAALEIAKRSRSTPRIALRLLK  228 (338)
T ss_dssp             EESCGGGSCHHHHT-TCSEEEECCCCCHHHHHHHHHHHHHHTT-CEECHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             eCCCccccCHHHHh-hcCEEeeCCCcCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHCcCHHHHHHHHH
Confidence                    000100 1123444589999999999987763211 112256778899999999865554433

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.53  E-value=0.0012  Score=71.97  Aligned_cols=94  Identities=17%  Similarity=0.231  Sum_probs=60.7

Q ss_pred             CccccchHHHHHHHHHHhc-------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH
Q 037935          160 YEAFESRVSTLKSIQNALT-------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  226 (1085)
                      -+++.|-+..+++|.+.+.             -...+-|-++|++|+|||.+|+++++.....     .+.|+.+.-   
T Consensus       147 ~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~-----f~~v~~s~l---  218 (405)
T 4b4t_J          147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK-----FIRVSGAEL---  218 (405)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCE-----EEEEEGGGG---
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCC-----ceEEEhHHh---
Confidence            3557888888888877654             1234678899999999999999999988743     233444321   


Q ss_pred             HHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          227 KKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       227 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                                 ...... .....+..++...+...+++|++|+++..
T Consensus       219 -----------~sk~vG-ese~~vr~lF~~Ar~~aP~IIFiDEiDai  253 (405)
T 4b4t_J          219 -----------VQKYIG-EGSRMVRELFVMAREHAPSIIFMDEIDSI  253 (405)
T ss_dssp             -----------SCSSTT-HHHHHHHHHHHHHHHTCSEEEEEESSSCC
T ss_pred             -----------hccccc-hHHHHHHHHHHHHHHhCCceEeeecchhh
Confidence                       111111 12223445555555577888888888753

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.53  E-value=0.0003  Score=77.80  Aligned_cols=46  Identities=15%  Similarity=0.210  Sum_probs=39.2

Q ss_pred             ccccchHHHHHHHHHHh-ccCCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNAL-TDVNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l-~~~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      +.++|++...+.+..++ ..+....+.|+|+.|+||||+|+.+....
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            55889999999999988 65555559999999999999999998854

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.53  E-value=0.00032  Score=75.86  Aligned_cols=48  Identities=17%  Similarity=0.163  Sum_probs=37.2

Q ss_pred             cccchHHHHHHHHHHhc---------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          162 AFESRVSTLKSIQNALT---------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~---------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      .++|.+..++.+.+.+.               ......+.|+|++|+|||++|+.+++.....
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~   94 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRL   94 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            47888888887776543               2334578999999999999999999887643

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.50  E-value=0.00049  Score=75.38  Aligned_cols=48  Identities=17%  Similarity=0.324  Sum_probs=40.6

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -..++|.+..++.+..++..++.+.+.++|+.|+||||+|+.+.....
T Consensus        24 ~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~   71 (340)
T 1sxj_C           24 LDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY   71 (340)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             HHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHc
Confidence            345789988888888888776666699999999999999999998764

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.47  E-value=0.00072  Score=75.11  Aligned_cols=49  Identities=12%  Similarity=0.243  Sum_probs=38.1

Q ss_pred             CccccchHHHHHHH---HHHhccCCc--eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          160 YEAFESRVSTLKSI---QNALTDVNV--SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l---~~~l~~~~~--~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .+.|+|++..++.+   .+.+..+..  +.+.|+|++|+|||++|+.+.+....
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~   96 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGP   96 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCS
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            35689999887664   444444333  58999999999999999999998763

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=97.47  E-value=0.0014  Score=71.29  Aligned_cols=149  Identities=11%  Similarity=0.052  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhcc--------------------CCCEEEEEEeC---C
Q 037935          167 VSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKK--------------------LFDRVVFSEVS---Q  222 (1085)
Q Consensus       167 ~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~--------------------~f~~~~wv~~~---~  222 (1085)
                      +...+.+...+..++. ..+.++|+.|+|||++|+.+.+......                    |+|. .++...   .
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~-~~~~~~~~~~   86 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDY-YTLAPEKGKN   86 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTE-EEECCCTTCS
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCE-EEEeccccCC
Confidence            4556677777766554 4689999999999999999998765321                    2332 333332   2


Q ss_pred             CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCc----------
Q 037935          223 TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGY----------  290 (1085)
Q Consensus       223 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs----------  290 (1085)
                      ...+.++ +++.+.+.....                .+++-++|+|+++...  ..+.+...+.....+.          
T Consensus        87 ~~~i~~i-r~l~~~~~~~~~----------------~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~  149 (334)
T 1a5t_A           87 TLGVDAV-REVTEKLNEHAR----------------LGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPE  149 (334)
T ss_dssp             SBCHHHH-HHHHHHTTSCCT----------------TSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGG
T ss_pred             CCCHHHH-HHHHHHHhhccc----------------cCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChH
Confidence            2233322 333333322110                1456677777776542  1222222221111122          


Q ss_pred             -----------EEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHH
Q 037935          291 -----------NFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTT  339 (1085)
Q Consensus       291 -----------~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~  339 (1085)
                                 ++-+.++++++..+.+.....      -..+.+..+++.++|.|..+..
T Consensus       150 ~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~~------~~~~~~~~l~~~s~G~~r~a~~  203 (334)
T 1a5t_A          150 RLLATLRSRCRLHYLAPPPEQYAVTWLSREVT------MSQDALLAALRLSAGSPGAALA  203 (334)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHCC------CCHHHHHHHHHHTTTCHHHHHH
T ss_pred             hCcHHHhhcceeeeCCCCCHHHHHHHHHHhcC------CCHHHHHHHHHHcCCCHHHHHH
Confidence                       222389999999999988761      1245668899999999976644

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.46  E-value=0.0017  Score=72.41  Aligned_cols=48  Identities=19%  Similarity=0.302  Sum_probs=39.3

Q ss_pred             CccccchHHHHHHHHHHhc------------cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALT------------DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -+.++|++..++.+.+++.            ....+-|.|+|.+|+|||++|+.+++...
T Consensus       114 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~  173 (389)
T 3vfd_A          114 FDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESN  173 (389)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTT
T ss_pred             hHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhc
Confidence            4568999999999988773            12346889999999999999999988754

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.40  E-value=0.002  Score=71.18  Aligned_cols=93  Identities=17%  Similarity=0.195  Sum_probs=60.9

Q ss_pred             ccccchHHHHHHHHHHhc-------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALT-------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      +++.|-+..+++|.+.+.             -...+-|-++|++|+|||++|+++++.....     .+.|..+.     
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~-----fi~vs~s~-----  278 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDAT-----FIRVIGSE-----  278 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCE-----EEEEEGGG-----
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCC-----eEEEEhHH-----
Confidence            457888888888877543             1345788899999999999999999988743     33344332     


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                               +....... ....+..++...+...+++|++|+++..
T Consensus       279 ---------L~sk~vGe-sek~ir~lF~~Ar~~aP~IIfiDEiDai  314 (467)
T 4b4t_H          279 ---------LVQKYVGE-GARMVRELFEMARTKKACIIFFDEIDAV  314 (467)
T ss_dssp             ---------GCCCSSSH-HHHHHHHHHHHHHHTCSEEEEEECCTTT
T ss_pred             ---------hhcccCCH-HHHHHHHHHHHHHhcCCceEeecccccc
Confidence                     11111111 1223444555555678899999988753

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=97.39  E-value=0.006  Score=67.91  Aligned_cols=97  Identities=11%  Similarity=0.122  Sum_probs=65.8

Q ss_pred             cccceEEEeeccCccccccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCch-hhhcccccc
Q 037935          491 LKKCYAISLLNSSIHEVSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLR  567 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~  567 (1085)
                      ..+++.+.+.. .++.++..  ..|.+|+.+.+..+    ...+...+|.++ .|..+.+..+ ++.++. ++.. .+|+
T Consensus        45 ~~~i~~v~ip~-~vt~Ig~~aF~~C~~L~~I~lp~~----v~~Ig~~aF~~c-~l~~i~~~~~-l~~I~~~aF~~-~~L~  116 (379)
T 4h09_A           45 RDRISEVRVNS-GITSIGEANFNSCYNMTKVTVAST----VTSIGDGAFADT-KLQSYTGMER-VKKFGDYVFQG-TDLD  116 (379)
T ss_dssp             GGGCSEEEECT-TEEEECTTTTTTCTTCCEEEECTT----CCEECTTTTTTC-CCCEEEECTT-CCEECTTTTTT-CCCS
T ss_pred             ccCCEEEEeCC-CccChHHHHhhCCCCCCEEEeCCc----ceEechhhhcCC-CCceEECCce-eeEeccceecc-CCcc
Confidence            34677777753 56777654  38999999999644    678888899987 5777776543 555553 4444 4899


Q ss_pred             EEeccCcccccccchhhhhccccCCEEeccC
Q 037935          568 MLDLTDCLQLKFIVPNILSSFTRLEELYMGS  598 (1085)
Q Consensus       568 ~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~  598 (1085)
                      .+.+..+  ++.+....|.+. +|....+..
T Consensus       117 ~i~lp~~--~~~i~~~~F~~~-~l~~~~~~~  144 (379)
T 4h09_A          117 DFEFPGA--TTEIGNYIFYNS-SVKRIVIPK  144 (379)
T ss_dssp             EEECCTT--CCEECTTTTTTC-CCCEEEECT
T ss_pred             cccCCCc--cccccccccccc-eeeeeeccc
Confidence            9999874  666776666554 455555443

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=97.35  E-value=0.00098  Score=72.45  Aligned_cols=48  Identities=17%  Similarity=0.158  Sum_probs=39.9

Q ss_pred             CccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -+.++|++..++.+.+++..+.. .++.+.|++|+|||++|+.+.+...
T Consensus        25 ~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~   73 (324)
T 3u61_B           25 IDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVN   73 (324)
T ss_dssp             TTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTT
T ss_pred             HHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            45689999999999999886554 5667778899999999999988764

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=97.34  E-value=0.0024  Score=69.93  Aligned_cols=161  Identities=19%  Similarity=0.230  Sum_probs=88.3

Q ss_pred             CccccchHHHHHHHHHHhc------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          160 YEAFESRVSTLKSIQNALT------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      -+.++|.+..++.+.+.+.            ....+-|.|+|++|+|||++|+.+++.....     .+.++.+      
T Consensus        50 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~-----~~~v~~~------  118 (355)
T 2qp9_X           50 WEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST-----FFSVSSS------  118 (355)
T ss_dssp             GGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCE-----EEEEEHH------
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC-----EEEeeHH------
Confidence            3568899988888887763            0123458899999999999999999987532     2223322      


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCccc-------------ccccccccC---CCCCCcE
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLD-------------LDTIGIPFG---NDHEGYN  291 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~-------------~~~~~~~~~---~~~~gs~  291 (1085)
                      .+    ....    .... ......+.......++.+|++|+++....             ...+...+.   ....+..
T Consensus       119 ~l----~~~~----~g~~-~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~  189 (355)
T 2qp9_X          119 DL----VSKW----MGES-EKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVL  189 (355)
T ss_dssp             HH----HSCC-------C-HHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEE
T ss_pred             HH----hhhh----cchH-HHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeE
Confidence            11    1110    0111 12233444444456789999999875420             111111110   0011212


Q ss_pred             EE----------------------ecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCc-hHHHHHHH
Q 037935          292 FL----------------------IGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGL-PIALTTVA  341 (1085)
Q Consensus       292 il----------------------v~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-Plai~~~~  341 (1085)
                      ||                      +.+.+.++-.+++..+...... ..-......|++.+.|. +-.|..+.
T Consensus       190 vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~-~~~~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          190 VLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPS-VLTKEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             EEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCB-CCCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             EEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCC-CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            22                      2666777778888777642211 11245567888888884 44444443

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=97.33  E-value=0.00096  Score=75.40  Aligned_cols=153  Identities=14%  Similarity=0.143  Sum_probs=78.5

Q ss_pred             HHHHHHHhccCC-ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHH
Q 037935          170 LKSIQNALTDVN-VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYR  248 (1085)
Q Consensus       170 ~~~l~~~l~~~~-~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~  248 (1085)
                      ...+.......+ ...+.|+|++|+||||||+.+++.......-..+++++..      .+..++...+....       
T Consensus       117 ~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~------~~~~~~~~~~~~~~-------  183 (440)
T 2z4s_A          117 YHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE------KFLNDLVDSMKEGK-------  183 (440)
T ss_dssp             HHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHH------HHHHHHHHHHHTTC-------
T ss_pred             HHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH------HHHHHHHHHHHccc-------
Confidence            344444443333 6789999999999999999999977543101124555543      23334443332210       


Q ss_pred             HHHHHHHHHHcCCcEEEEEeCCCCccc----ccccccccCC-CCCCcEEEe----------------------------c
Q 037935          249 RASRLYERLKNENKILVILDNIWKYLD----LDTIGIPFGN-DHEGYNFLI----------------------------G  295 (1085)
Q Consensus       249 ~~~~~~~~l~~~~~~LlvlDdv~~~~~----~~~~~~~~~~-~~~gs~ilv----------------------------~  295 (1085)
                       ...+.... ..+.-+|++||++....    .+.+...+.. ...|..|++                            +
T Consensus       184 -~~~~~~~~-~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~  261 (440)
T 2z4s_A          184 -LNEFREKY-RKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLE  261 (440)
T ss_dssp             -HHHHHHHH-TTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCC
T ss_pred             -HHHHHHHh-cCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeC
Confidence             11222222 12566888888765421    1111111100 012333333                            6


Q ss_pred             CCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHH
Q 037935          296 NLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALT  338 (1085)
Q Consensus       296 ~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~  338 (1085)
                      +++.++-.+++...+.... ..--.++...|++.++|.+-.+.
T Consensus       262 ~p~~e~r~~iL~~~~~~~~-~~i~~e~l~~la~~~~gn~R~l~  303 (440)
T 2z4s_A          262 PPDEETRKSIARKMLEIEH-GELPEEVLNFVAENVDDNLRRLR  303 (440)
T ss_dssp             CCCHHHHHHHHHHHHHHHT-CCCCTTHHHHHHHHCCSCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhcCCCHHHHH
Confidence            6777777777766652100 01113446677778887775443

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=97.29  E-value=0.0049  Score=69.75  Aligned_cols=95  Identities=18%  Similarity=0.289  Sum_probs=57.7

Q ss_pred             CccccchHHHHHHHHHHhc------------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          160 YEAFESRVSTLKSIQNALT------------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      -+.++|.+..++.+.+.+.            ....+.|.++|++|+|||++|+.+++....      .-++.++...   
T Consensus       133 ~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~------~~~~~v~~~~---  203 (444)
T 2zan_A          133 WSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN------STFFSISSSD---  203 (444)
T ss_dssp             GGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS------SEEEEECCC----
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC------CCEEEEeHHH---
Confidence            3568899998888887663            123468899999999999999999997621      1223333221   


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                       +...   ..+.. ..     .+..+.+.....++.+|++|+++..
T Consensus       204 -l~~~---~~g~~-~~-----~~~~~f~~a~~~~~~vl~iDEid~l  239 (444)
T 2zan_A          204 -LVSK---WLGES-EK-----LVKNLFQLARENKPSIIFIDEIDSL  239 (444)
T ss_dssp             ------------C-CC-----THHHHHHHHHHSCSEEEEESCTTTT
T ss_pred             -HHhh---hcchH-HH-----HHHHHHHHHHHcCCeEEEEechHhh
Confidence             1110   01111 11     1233444444578899999999854

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.27  E-value=0.00031  Score=72.71  Aligned_cols=81  Identities=20%  Similarity=0.247  Sum_probs=59.1

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccc--cccEEeccCccccc-ccc------h
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLT--KLRMLDLTDCLQLK-FIV------P  582 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~--~L~~L~Ls~~~~l~-~lp------~  582 (1085)
                      .+++|++|++++|.......++ ..+..+++|++|+|++|.|+.+. .+..+.  +|++|+|++| .+. .+|      .
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~-~~~~~l~~L~~L~Ls~N~i~~~~-~l~~l~~l~L~~L~L~~N-pl~~~~~~~~~y~~  244 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMS-SIVQKAPNLKILNLSGNELKSER-ELDKIKGLKLEELWLDGN-SLCDTFRDQSTYIS  244 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGT-THHHHSTTCCEEECTTSCCCSGG-GGGGGTTSCCSEEECTTS-TTGGGCSSHHHHHH
T ss_pred             hCCCCCEEECCCCCCCCCccch-hHHhhCCCCCEEECCCCccCCch-hhhhcccCCcceEEccCC-cCccccCcchhHHH
Confidence            3577888888888731122333 35678999999999999998873 466666  9999999999 554 344      2


Q ss_pred             hhhhccccCCEEe
Q 037935          583 NILSSFTRLEELY  595 (1085)
Q Consensus       583 ~~~~~L~~L~~L~  595 (1085)
                      .++..+++|+.||
T Consensus       245 ~il~~~P~L~~LD  257 (267)
T 3rw6_A          245 AIRERFPKLLRLD  257 (267)
T ss_dssp             HHHHHCTTCCEES
T ss_pred             HHHHHCcccCeEC
Confidence            3468899999986

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.26  E-value=0.003  Score=68.98  Aligned_cols=92  Identities=21%  Similarity=0.235  Sum_probs=58.4

Q ss_pred             ccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      +++.|-+..+++|.+.+.    .         ...+-|-++|++|+|||.+|+++++.....  |   +.++.+.     
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~--f---i~v~~s~-----  251 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSAT--F---LRIVGSE-----  251 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCE--E---EEEESGG-----
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCC--E---EEEEHHH-----
Confidence            457788888888776553    1         234789999999999999999999988743  2   3333322     


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                               +...... .....+..++.......+++|++|+++.
T Consensus       252 ---------l~sk~vG-esek~ir~lF~~Ar~~aP~IIfiDEiDa  286 (437)
T 4b4t_I          252 ---------LIQKYLG-DGPRLCRQIFKVAGENAPSIVFIDEIDA  286 (437)
T ss_dssp             ---------GCCSSSS-HHHHHHHHHHHHHHHTCSEEEEEEEESS
T ss_pred             ---------hhhccCc-hHHHHHHHHHHHHHhcCCcEEEEehhhh
Confidence                     1111111 1122344444444456788888888764

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.23  E-value=0.00046  Score=67.60  Aligned_cols=90  Identities=18%  Similarity=0.198  Sum_probs=53.2

Q ss_pred             hHHHHHHHHHHhcc---CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC
Q 037935          166 RVSTLKSIQNALTD---VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS  242 (1085)
Q Consensus       166 r~~~~~~l~~~l~~---~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  242 (1085)
                      +...++.+.+++.+   .....+.|+|+.|+||||||+.++........+. +++++      ..++...+.........
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~-~~~~~------~~~~~~~~~~~~~~~~~   91 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIR-GYFFD------TKDLIFRLKHLMDEGKD   91 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCC-CCEEE------HHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCe-EEEEE------HHHHHHHHHHHhcCchH
Confidence            44455555555542   2347899999999999999999999875332232 23333      34445444443322111


Q ss_pred             CchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          243 DEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       243 ~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                      .        ...+.+  .+.-+||+||++.
T Consensus        92 ~--------~~~~~~--~~~~llilDE~~~  111 (180)
T 3ec2_A           92 T--------KFLKTV--LNSPVLVLDDLGS  111 (180)
T ss_dssp             S--------HHHHHH--HTCSEEEEETCSS
T ss_pred             H--------HHHHHh--cCCCEEEEeCCCC
Confidence            1        223333  3556899999974

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.21  E-value=0.00017  Score=70.91  Aligned_cols=114  Identities=16%  Similarity=0.100  Sum_probs=81.2

Q ss_pred             hhhcCCCcceEEEecCC-cccC-----CchhhhccccccEEeccCcccccccch----hhhhccccCCEEeccCCCcchh
Q 037935          535 NFFKGMKKLRVVDLTRV-RLFS-----LPSSIGQLTKLRMLDLTDCLQLKFIVP----NILSSFTRLEELYMGSCSIKWE  604 (1085)
Q Consensus       535 ~~~~~l~~Lr~L~Ls~~-~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~lp~----~~~~~L~~L~~L~L~~~~~~~~  604 (1085)
                      ..+...+.|++|+|++| .+..     +...+...++|++|+|++| .+..-..    ..+...++|++|+|++|.+...
T Consensus        30 ~~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n-~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~  108 (185)
T 1io0_A           30 RIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNFISGS  108 (185)
T ss_dssp             HHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHH
T ss_pred             HHHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCC-CCChHHHHHHHHHHHhCCCcCEEECcCCcCCHH
Confidence            45778899999999999 8864     4566778899999999999 7764221    2246668999999999998321


Q ss_pred             hcccCCccccccHHHhhcCCCCcEEEE--EeccCCCCC-----Ccc-cccccceeeEEec
Q 037935          605 VRKGNSERSNASLDELMHLQRLTTLEI--DVEDDSILP-----DGL-FTKKLERFDISIG  656 (1085)
Q Consensus       605 ~~~~~~~~~~~~~~~l~~L~~L~~L~l--~~~~~~~~~-----~~~-~l~~L~~L~l~~~  656 (1085)
                      .       .......+...++|++|++  ++|.+..-.     ..+ ..++|+.|+++.+
T Consensus       109 g-------~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n  161 (185)
T 1io0_A          109 G-------ILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFT  161 (185)
T ss_dssp             H-------HHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             H-------HHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCC
Confidence            1       1123455777889999999  778775422     111 3467888887543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.19  E-value=0.00091  Score=66.91  Aligned_cols=89  Identities=15%  Similarity=0.212  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHhccC----CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC
Q 037935          167 VSTLKSIQNALTDV----NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS  242 (1085)
Q Consensus       167 ~~~~~~l~~~l~~~----~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  242 (1085)
                      ...++.+.+++...    ..+.+.|+|.+|+|||+||+.+++....+  ...++|++++      .+...+...+...  
T Consensus        35 ~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~--~~~~~~~~~~------~~~~~~~~~~~~~--  104 (202)
T 2w58_A           35 IKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKR--NVSSLIVYVP------ELFRELKHSLQDQ--  104 (202)
T ss_dssp             HHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTT--TCCEEEEEHH------HHHHHHHHC---C--
T ss_pred             HHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEhH------HHHHHHHHHhccc--
Confidence            33455555555432    12688999999999999999999987643  3346666653      3444443322211  


Q ss_pred             CchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          243 DEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       243 ~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      .      .....+.+.+ . -+||+||++..
T Consensus       105 ~------~~~~~~~~~~-~-~~lilDei~~~  127 (202)
T 2w58_A          105 T------MNEKLDYIKK-V-PVLMLDDLGAE  127 (202)
T ss_dssp             C------CHHHHHHHHH-S-SEEEEEEECCC
T ss_pred             h------HHHHHHHhcC-C-CEEEEcCCCCC
Confidence            1      1122333332 2 39999999653

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.14  E-value=0.0013  Score=75.07  Aligned_cols=48  Identities=19%  Similarity=0.282  Sum_probs=41.6

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -+.++||+.+++.+...+......-+.++|.+|+|||++|+.+++...
T Consensus       179 ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~  226 (468)
T 3pxg_A          179 LDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQII  226 (468)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHH
T ss_pred             CCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            356899999999999998765556678999999999999999999864

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.10  E-value=0.0032  Score=69.77  Aligned_cols=94  Identities=16%  Similarity=0.269  Sum_probs=62.2

Q ss_pred             CccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH
Q 037935          160 YEAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  226 (1085)
                      -+++.|-+..+++|.+.+.    .         ...+-|-++|++|+|||++|+++++.....     .+.|+.+.-   
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~-----~~~v~~s~l---  251 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGAN-----FIFSPASGI---  251 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGT---
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC-----EEEEehhhh---
Confidence            3457788888888776654    1         234788999999999999999999988743     233444321   


Q ss_pred             HHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          227 KKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       227 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                                 ...... .....+..++.......+++|++|+++..
T Consensus       252 -----------~sk~~G-ese~~ir~~F~~A~~~~P~IifiDEiDai  286 (437)
T 4b4t_L          252 -----------VDKYIG-ESARIIREMFAYAKEHEPCIIFMDEVDAI  286 (437)
T ss_dssp             -----------CCSSSS-HHHHHHHHHHHHHHHSCSEEEEEECCCSS
T ss_pred             -----------ccccch-HHHHHHHHHHHHHHhcCCceeeeeccccc
Confidence                       111111 12233445555555688999999998753

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.01  E-value=0.0034  Score=69.49  Aligned_cols=93  Identities=17%  Similarity=0.210  Sum_probs=62.0

Q ss_pred             CccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH
Q 037935          160 YEAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  226 (1085)
                      -+++.|-+..+++|.+.+.    .         ...+-|.++|++|+|||++|+++++.....     .+.|+.+.-.  
T Consensus       171 ~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~-----~~~v~~~~l~--  243 (428)
T 4b4t_K          171 YADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAA-----FIRVNGSEFV--  243 (428)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCE-----EEEEEGGGTC--
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eEEEecchhh--
Confidence            3567889988888877654    1         234678999999999999999999988643     3344443211  


Q ss_pred             HHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          227 KKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       227 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                                  ..... .....+..++...+...++++++|+++.
T Consensus       244 ------------~~~~G-e~e~~ir~lF~~A~~~aP~IifiDEiD~  276 (428)
T 4b4t_K          244 ------------HKYLG-EGPRMVRDVFRLARENAPSIIFIDEVDS  276 (428)
T ss_dssp             ------------CSSCS-HHHHHHHHHHHHHHHTCSEEEEEECTHH
T ss_pred             ------------ccccc-hhHHHHHHHHHHHHHcCCCeeechhhhh
Confidence                        11111 1223345555555568899999999853

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.01  E-value=0.0014  Score=81.15  Aligned_cols=101  Identities=14%  Similarity=0.233  Sum_probs=61.3

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccC-----CCEEEEEEeCCCcCHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKL-----FDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-----f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      -+.++||+.+++++++.+.......+.++|.+|+|||++|+.+++.......     -..+++++++.-..         
T Consensus       169 ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~---------  239 (854)
T 1qvr_A          169 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA---------  239 (854)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------------
T ss_pred             CcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc---------
Confidence            4568999999999999987655567889999999999999999998643110     11244444322110         


Q ss_pred             HHhCCCCCCchHHHHHHHHHHHHHc-CCcEEEEEeCCCCc
Q 037935          235 EKLGLELSDEAEYRRASRLYERLKN-ENKILVILDNIWKY  273 (1085)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~l~~-~~~~LlvlDdv~~~  273 (1085)
                         +.... ......+..+.+.+.. +++.+|++|++...
T Consensus       240 ---g~~~~-g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l  275 (854)
T 1qvr_A          240 ---GAKYR-GEFEERLKAVIQEVVQSQGEVILFIDELHTV  275 (854)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCSSEEEEECCC---
T ss_pred             ---cCccc-hHHHHHHHHHHHHHHhcCCCeEEEEecHHHH
Confidence               00000 1112234445555543 46889999998754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.96  E-value=0.0028  Score=70.14  Aligned_cols=93  Identities=17%  Similarity=0.192  Sum_probs=61.2

Q ss_pred             CccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH
Q 037935          160 YEAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  226 (1085)
                      -+.+.|-+..+++|.+.+.    .         ...+-|-++|++|+|||.+|+++++.....     .+.++.+.    
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~-----f~~v~~s~----  250 (434)
T 4b4t_M          180 YSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT-----FLKLAAPQ----  250 (434)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE-----EEEEEGGG----
T ss_pred             hHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC-----EEEEehhh----
Confidence            3567889998888877643    1         235788999999999999999999988643     33344332    


Q ss_pred             HHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          227 KKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       227 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                                +....... ....+..++.......+++|++|+++.
T Consensus       251 ----------l~~~~vGe-se~~ir~lF~~A~~~aP~IifiDEiDa  285 (434)
T 4b4t_M          251 ----------LVQMYIGE-GAKLVRDAFALAKEKAPTIIFIDELDA  285 (434)
T ss_dssp             ----------GCSSCSSH-HHHHHHHHHHHHHHHCSEEEEEECTHH
T ss_pred             ----------hhhcccch-HHHHHHHHHHHHHhcCCeEEeecchhh
Confidence                      11111111 223344455555557899999999863

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=96.95  E-value=0.0026  Score=67.97  Aligned_cols=93  Identities=14%  Similarity=0.245  Sum_probs=58.8

Q ss_pred             CccccchHHHHHHHHHHhcc-------------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH
Q 037935          160 YEAFESRVSTLKSIQNALTD-------------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  226 (1085)
                      -+.++|.+..++++.+++..             ...+.+.|+|++|+|||++|+.+++.....     .  +.++    .
T Consensus        14 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~-----~--i~v~----~   82 (301)
T 3cf0_A           14 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN-----F--ISIK----G   82 (301)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCE-----E--EEEC----H
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCC-----E--EEEE----h
Confidence            34588998888887776541             344678999999999999999999876421     2  2332    1


Q ss_pred             HHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          227 KKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       227 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                      ..+....   ++.. .     ..+..+.+......+.+|++|+++.
T Consensus        83 ~~l~~~~---~g~~-~-----~~~~~~f~~a~~~~p~il~iDEid~  119 (301)
T 3cf0_A           83 PELLTMW---FGES-E-----ANVREIFDKARQAAPCVLFFDELDS  119 (301)
T ss_dssp             HHHHHHH---HTTC-T-----THHHHHHHHHHHTCSEEEEECSTTH
T ss_pred             HHHHhhh---cCch-H-----HHHHHHHHHHHhcCCeEEEEEChHH
Confidence            2222221   2211 1     1133444444456789999999974

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.94  E-value=0.00041  Score=65.07  Aligned_cols=46  Identities=17%  Similarity=0.242  Sum_probs=35.0

Q ss_pred             cccchHHHHHHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          162 AFESRVSTLKSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++|++..++++.+.+.  ...-.-|.|+|.+|+|||++|+.+++...
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~   49 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGR   49 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSST
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCC
Confidence            47888888888888765  22334567999999999999999988643

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=96.84  E-value=0.0052  Score=66.63  Aligned_cols=49  Identities=29%  Similarity=0.516  Sum_probs=32.9

Q ss_pred             HHHHHHHhccC--CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          170 LKSIQNALTDV--NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       170 ~~~l~~~l~~~--~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      ...+..++...  ....+.|+|++|+||||+|+.+++..... .+ .++++++
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~-~~-~~~~i~~   73 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR-GY-RVIYSSA   73 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT-TC-CEEEEEH
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC-CC-EEEEEEH
Confidence            34444444432  34678999999999999999999977543 12 2455554

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.79  E-value=0.0043  Score=76.01  Aligned_cols=101  Identities=16%  Similarity=0.263  Sum_probs=64.3

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhcc----CCCEEEE-EEeCCCcCHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKK----LFDRVVF-SEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~f~~~~w-v~~~~~~~~~~~~~~i~  234 (1085)
                      -+.++||+.+++++.+.+......-+.|+|.+|+|||++|+.+++......    .....+| ++++.-          .
T Consensus       185 ~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l----------~  254 (758)
T 1r6b_X          185 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL----------L  254 (758)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------------
T ss_pred             CCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH----------h
Confidence            356899999999999999866666788999999999999999998764321    1122222 221110          0


Q ss_pred             HHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          235 EKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                        .+... .......+..+.+.+...++.+|++||++..
T Consensus       255 --~~~~~-~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l  290 (758)
T 1r6b_X          255 --AGTKY-RGDFEKRFKALLKQLEQDTNSILFIDEIHTI  290 (758)
T ss_dssp             --CCCCC-SSCHHHHHHHHHHHHSSSSCEEEEETTTTTT
T ss_pred             --ccccc-cchHHHHHHHHHHHHHhcCCeEEEEechHHH
Confidence              01111 1122233455555665556799999999754

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.58  E-value=0.0049  Score=75.35  Aligned_cols=48  Identities=19%  Similarity=0.282  Sum_probs=41.8

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+.++||+.+++++...+......-+.++|.+|+|||++|+.+++...
T Consensus       179 ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~  226 (758)
T 3pxi_A          179 LDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQII  226 (758)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHH
T ss_pred             CCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHh
Confidence            356899999999999999765556688999999999999999999863

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.54  E-value=0.007  Score=63.02  Aligned_cols=93  Identities=17%  Similarity=0.211  Sum_probs=55.0

Q ss_pred             CccccchHHHHHHHHHHhc---c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          160 YEAFESRVSTLKSIQNALT---D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      -+.++|.+..++++.+.+.   .         ...+-+.|+|++|+||||+|+.+++.....  |   +.++.+.-.+  
T Consensus        11 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~--~---~~i~~~~~~~--   83 (257)
T 1lv7_A           11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP--F---FTISGSDFVE--   83 (257)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC--E---EEECSCSSTT--
T ss_pred             HHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCC--E---EEEeHHHHHH--
Confidence            3568898887776655432   1         123458899999999999999999876422  2   3333222100  


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                                  ...... ......+.+......+.++++|+++.
T Consensus        84 ------------~~~~~~-~~~~~~~~~~a~~~~~~il~iDeid~  115 (257)
T 1lv7_A           84 ------------MFVGVG-ASRVRDMFEQAKKAAPCIIFIDEIDA  115 (257)
T ss_dssp             ------------SCCCCC-HHHHHHHHHHHHTTCSEEEEETTHHH
T ss_pred             ------------Hhhhhh-HHHHHHHHHHHHHcCCeeehhhhhhh
Confidence                        000111 12233444554456778999999843

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=96.44  E-value=0.0094  Score=63.30  Aligned_cols=70  Identities=14%  Similarity=0.055  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh-hc-cCCCEEEEEEeCC-CcCHHHHHHHHHHHhC
Q 037935          167 VSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR-EK-KLFDRVVFSEVSQ-TPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       167 ~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~-~~-~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~  238 (1085)
                      +..++.+...+..++...+.++|+.|+||||+|+.+.+... .. .+.+. .+++.+. ...+.++ +++.+.+.
T Consensus         3 ~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~i-r~li~~~~   75 (305)
T 2gno_A            3 KDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFLN   75 (305)
T ss_dssp             -CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHHT
T ss_pred             HHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHHH-HHHHHHHh
Confidence            44556677777666678899999999999999999988632 11 23343 4555443 3444443 34555443

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.42  E-value=0.018  Score=60.31  Aligned_cols=92  Identities=16%  Similarity=0.190  Sum_probs=53.4

Q ss_pred             ccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      +++.|-+..++.+.+.+.    .         .-.+-+.++|++|+||||||+.++.....     ..+++..+.-.+  
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~-----~~i~i~g~~l~~--   82 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGL-----NFISVKGPELLN--   82 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEEETTTTCS--
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCC-----CEEEEEcHHHHh--
Confidence            456787777777766442    0         11123999999999999999999987543     234444322110  


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                                  .. .......+..+.+......++++++|+++.
T Consensus        83 ------------~~-~~~~~~~i~~vf~~a~~~~p~i~~~Deid~  114 (274)
T 2x8a_A           83 ------------MY-VGESERAVRQVFQRAKNSAPCVIFFDEVDA  114 (274)
T ss_dssp             ------------ST-THHHHHHHHHHHHHHHHTCSEEEEEETCTT
T ss_pred             ------------hh-hhHHHHHHHHHHHHHHhcCCCeEeeehhhh
Confidence                        00 001112233444444346789999999864

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.42  E-value=0.0008  Score=62.81  Aligned_cols=45  Identities=11%  Similarity=0.149  Sum_probs=32.8

Q ss_pred             cccchHHHHHHHHHHhcc--CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          162 AFESRVSTLKSIQNALTD--VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .++|++..++++.+.+..  ....-|.|+|.+|+|||++|+.+++..
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            468888888888777651  233457799999999999999997753

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=96.30  E-value=0.016  Score=65.25  Aligned_cols=92  Identities=20%  Similarity=0.247  Sum_probs=56.1

Q ss_pred             ccccchHHHHHHHHHHhc---c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH
Q 037935          161 EAFESRVSTLKSIQNALT---D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  228 (1085)
                      +.++|.+..++++.+...   .         .-.+-|.|+|++|+|||++|+.++......  |   +.++.+.-...  
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~--f---~~is~~~~~~~--   88 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVP--F---FHISGSDFVEL--   88 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCC--E---EEEEGGGTTTC--
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCC--e---eeCCHHHHHHH--
Confidence            457888887766655432   1         112457899999999999999999976532  2   33443321110  


Q ss_pred             HHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          229 IQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       229 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                                  ... ........++.......+.+|++|+++.
T Consensus        89 ------------~~g-~~~~~~r~lf~~A~~~~p~ILfIDEid~  119 (476)
T 2ce7_A           89 ------------FVG-VGAARVRDLFAQAKAHAPCIVFIDEIDA  119 (476)
T ss_dssp             ------------CTT-HHHHHHHHHHHHHHHTCSEEEEEETGGG
T ss_pred             ------------Hhc-ccHHHHHHHHHHHHhcCCCEEEEechhh
Confidence                        001 1122233444545457899999999965

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.26  E-value=0.0048  Score=66.51  Aligned_cols=105  Identities=14%  Similarity=0.215  Sum_probs=60.2

Q ss_pred             cccchHHHHHHHHHHhccC---------CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHH
Q 037935          162 AFESRVSTLKSIQNALTDV---------NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGE  232 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~~~---------~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  232 (1085)
                      .++|.+..++.+...+...         ....+.++|++|+|||++|+.+++.....  -...+.++++.-..... .. 
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~--~~~~~~~~~~~~~~~~~-~~-   93 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHA-VS-   93 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC--GGGEEEEEGGGCCSTTH-HH-
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC--CcceEEeeccccccccc-HH-
Confidence            4678888888887776521         23689999999999999999999976432  11245556554322111 11 


Q ss_pred             HHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          233 IAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       233 i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                        ..++........ .....+...+.....-++++|+++..
T Consensus        94 --~l~g~~~~~~~~-~~~~~~~~~~~~~~~~vl~lDEi~~l  131 (311)
T 4fcw_A           94 --RLIGAPPGYVGY-EEGGQLTEAVRRRPYSVILFDAIEKA  131 (311)
T ss_dssp             --HHHCCCTTSTTT-TTCCHHHHHHHHCSSEEEEEETGGGS
T ss_pred             --HhcCCCCccccc-cccchHHHHHHhCCCeEEEEeChhhc
Confidence              112221110000 00012223333355679999999764

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.25  E-value=0.0038  Score=56.81  Aligned_cols=55  Identities=27%  Similarity=0.358  Sum_probs=46.5

Q ss_pred             eEEEecCCccc--CCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCc
Q 037935          544 RVVDLTRVRLF--SLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       544 r~L~Ls~~~i~--~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      .+++.++++++  .+|..+.  .+|++|+|++| .|+.+|.+.|..+.+|++|+|++|.+
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP--VDTTELVLTGN-NLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC--TTCSEEECTTS-CCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             CEEEeCCCCCccccCCCCCC--cCCCEEECCCC-cCCccChhhhhhccccCEEEecCCCe
Confidence            36788888888  8886432  46899999999 99999999889999999999999987

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=96.12  E-value=0.011  Score=61.83  Aligned_cols=69  Identities=14%  Similarity=0.227  Sum_probs=42.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe--CCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV--SQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNE  260 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~--~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~  260 (1085)
                      +++.|+|++|+|||+||.++......     .++|+++  ....+.             - . ......+..+.+.+. .
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~~G~-----~VlyIs~~~eE~v~~-------------~-~-~~le~~l~~i~~~l~-~  182 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEALGG-----KDKYATVRFGEPLSG-------------Y-N-TDFNVFVDDIARAML-Q  182 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHHHHT-----TSCCEEEEBSCSSTT-------------C-B-CCHHHHHHHHHHHHH-H
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhCCC-----CEEEEEecchhhhhh-------------h-h-cCHHHHHHHHHHHHh-h
Confidence            57789999999999999999886221     2456666  222110             0 0 112223444555554 3


Q ss_pred             CcEEEEEeCCCCc
Q 037935          261 NKILVILDNIWKY  273 (1085)
Q Consensus       261 ~~~LlvlDdv~~~  273 (1085)
                      .+ +||+|++...
T Consensus       183 ~~-LLVIDsI~aL  194 (331)
T 2vhj_A          183 HR-VIVIDSLKNV  194 (331)
T ss_dssp             CS-EEEEECCTTT
T ss_pred             CC-EEEEeccccc
Confidence            34 9999998643

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=96.08  E-value=0.012  Score=67.07  Aligned_cols=91  Identities=18%  Similarity=0.243  Sum_probs=58.1

Q ss_pred             ccccchHHHHHHHHHHhcc-------------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALTD-------------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      +.++|.+..++++.+++..             ...+-|.|+|.+|+|||++|+.+++....     ..+.++++      
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~-----~fv~vn~~------  272 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----FFFLINGP------  272 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSS-----EEEEEEHH------
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCC-----CEEEEEch------
Confidence            4589999999988877641             33457889999999999999999887532     12334321      


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCC
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIW  271 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~  271 (1085)
                          ++...    ... ........+++....+++.+|+||+++
T Consensus       273 ----~l~~~----~~g-~~~~~~~~~f~~A~~~~p~iLfLDEId  307 (489)
T 3hu3_A          273 ----EIMSK----LAG-ESESNLRKAFEEAEKNAPAIIFIDELD  307 (489)
T ss_dssp             ----HHHTS----CTT-HHHHHHHHHHHHHHHTCSEEEEEESHH
T ss_pred             ----Hhhhh----hcc-hhHHHHHHHHHHHHhcCCcEEEecchh
Confidence                11111    111 112223344444445788999999984

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.07  E-value=0.028  Score=57.84  Aligned_cols=90  Identities=18%  Similarity=0.153  Sum_probs=55.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhcc----CCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC----------CchHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKK----LFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS----------DEAEY  247 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----------~~~~~  247 (1085)
                      -.++.|+|.+|+|||||++.+........    .-..++|++....+....+. ++++.++....          ..+..
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~~  102 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNTD  102 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCHH
Confidence            36999999999999999999987532211    12568899887765555443 34455554320          11111


Q ss_pred             ---HHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          248 ---RRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       248 ---~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                         .....+.+.+...+.-+||+|++..
T Consensus       103 ~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          103 HQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence               1122334444446788999998754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.01  E-value=0.0057  Score=64.96  Aligned_cols=28  Identities=25%  Similarity=0.319  Sum_probs=24.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..+.+.++|++|+|||++|+.+++....
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~~   62 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMGI   62 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3467889999999999999999998853

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=95.97  E-value=0.03  Score=56.47  Aligned_cols=45  Identities=20%  Similarity=0.186  Sum_probs=34.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      -.++.|+|.+|+||||++..+.. ..    -..++|++....++...+.+
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~-~~----~~~v~~i~~~~~~~~~~~~~   64 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGL-LS----GKKVAYVDTEGGFSPERLVQ   64 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHH-HH----CSEEEEEESSCCCCHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH-Hc----CCcEEEEECCCCCCHHHHHH
Confidence            46999999999999999999988 21    24688888877566655543

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=95.94  E-value=0.012  Score=66.90  Aligned_cols=48  Identities=15%  Similarity=0.138  Sum_probs=37.2

Q ss_pred             ccccchHHHHHHHHHHhc---cC--CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALT---DV--NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~---~~--~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +.++|.+..++.+..++.   .+  ..+-+.++|++|+|||++|+.+.+....
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~~   89 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGS   89 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHCT
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhCC
Confidence            568999988776554433   22  2357889999999999999999998763

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=95.91  E-value=0.033  Score=58.10  Aligned_cols=86  Identities=9%  Similarity=0.096  Sum_probs=57.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC-----chHHHHH-HHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD-----EAEYRRA-SRLYER  256 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~-~~~~~~  256 (1085)
                      +++-|+|.+|+||||||.++......+..=..++||+....++..     .++.++.+.+.     ....+.+ ..+.+.
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            378999999999999999887766533112468999998888764     37778765432     1112222 233333


Q ss_pred             H---HcCCcEEEEEeCCCCc
Q 037935          257 L---KNENKILVILDNIWKY  273 (1085)
Q Consensus       257 l---~~~~~~LlvlDdv~~~  273 (1085)
                      +   .+++.-++|+|-|...
T Consensus       104 l~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTC
T ss_pred             HHHhhccCceEEEEeccccc
Confidence            3   4577899999998655

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=95.84  E-value=0.011  Score=70.81  Aligned_cols=93  Identities=15%  Similarity=0.227  Sum_probs=58.4

Q ss_pred             ccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      +.+.|-+..+++|.+.+.    .         ...+-|.++|++|+|||+||+++++.....     .+.|+.+.     
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~-----~~~v~~~~-----  273 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGPE-----  273 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE-----EEEEEHHH-----
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe-----EEEEEhHH-----
Confidence            346677766666665542    1         234678999999999999999999876532     34444321     


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                           +.    ..... .....+..+++......+++|++|+++..
T Consensus       274 -----l~----sk~~g-ese~~lr~lF~~A~~~~PsIIfIDEiDal  309 (806)
T 3cf2_A          274 -----IM----SKLAG-ESESNLRKAFEEAEKNAPAIIFIDELDAI  309 (806)
T ss_dssp             -----HH----SSCTT-HHHHHHHHHHHHHTTSCSEEEEEESGGGT
T ss_pred             -----hh----cccch-HHHHHHHHHHHHHHHcCCeEEEEehhccc
Confidence                 11    11111 12233455566665688999999998643

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.73  E-value=0.012  Score=55.11  Aligned_cols=40  Identities=25%  Similarity=0.383  Sum_probs=30.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      .-..++|+|..|+|||||++.++...... .+. +++++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~-g~~-~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEA-GKN-AAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTT-TCC-EEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhc-CCc-EEEEcHHH
Confidence            45789999999999999999999977643 222 55665543

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=95.72  E-value=0.041  Score=59.30  Aligned_cols=85  Identities=20%  Similarity=0.279  Sum_probs=54.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC------CchHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS------DEAEYRRASRLYE  255 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~~  255 (1085)
                      -+++.|+|.+|+||||||.++.......+  ..++|++....++..     .++.++....      ..+..+....+..
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~~~g--g~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~~  133 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQKMG--GVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVDE  133 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHHH
Confidence            37999999999999999999998765432  347888887777654     4566665432      1122222222222


Q ss_pred             HHHcCCcEEEEEeCCCCc
Q 037935          256 RLKNENKILVILDNIWKY  273 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv~~~  273 (1085)
                      .+...+.-++|+|.+...
T Consensus       134 l~~~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          134 LVRSGVVDLIVVDSVAAL  151 (356)
T ss_dssp             HHHTSCCSEEEEECTTTC
T ss_pred             HhhhcCCCeEEehHhhhh
Confidence            233355668999998654

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=95.70  E-value=0.052  Score=58.88  Aligned_cols=58  Identities=19%  Similarity=0.330  Sum_probs=42.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhcc----CCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKK----LFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      .-.++.|+|.+|+||||+|..++.......    .-..++|++....++...+. +++..++.
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~-~~~~~~g~  182 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLR-DIADRFNV  182 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHH-HHHHHTTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHcCC
Confidence            347999999999999999999988643211    12468999998887776654 34555554

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=95.58  E-value=0.067  Score=62.03  Aligned_cols=47  Identities=26%  Similarity=0.336  Sum_probs=36.0

Q ss_pred             ccccchHHHHHHHHHHhc------cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALT------DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|-+...+.+.+.+.      .....++.++|++|+||||+|+.++....
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~  133 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLG  133 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHT
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            346787777776655433      22456899999999999999999999875

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=95.54  E-value=0.051  Score=58.53  Aligned_cols=58  Identities=21%  Similarity=0.304  Sum_probs=42.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc------------cCC--CEEEEEEeCCCcCHHHHHHHHHHHhCCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK------------KLF--DRVVFSEVSQTPDIKKIQGEIAEKLGLE  240 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~------------~~f--~~~~wv~~~~~~~~~~~~~~i~~~l~~~  240 (1085)
                      -.++.|+|.+|+||||+|.+++......            +..  ..++|++....++..++.+ +++.++.+
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~  169 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGID  169 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCC
Confidence            4799999999999999999988763211            111  4689999988887776664 45566543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.52  E-value=0.019  Score=61.29  Aligned_cols=53  Identities=21%  Similarity=0.305  Sum_probs=36.3

Q ss_pred             hHHHHHHHHHHhccC---CceEEEEEcCCCCcHHHHHHHHHHHHh-hccCCCEEEEEEe
Q 037935          166 RVSTLKSIQNALTDV---NVSIIGVYGMGGIGKTTLVKEFARQAR-EKKLFDRVVFSEV  220 (1085)
Q Consensus       166 r~~~~~~l~~~l~~~---~~~vi~I~G~~G~GKTtLa~~v~~~~~-~~~~f~~~~wv~~  220 (1085)
                      +...++.+.+++...   ....+.|+|.+|+|||+||+.+++... .+ .+ .+.++++
T Consensus       133 ~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~-g~-~v~~~~~  189 (308)
T 2qgz_A          133 RMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKK-GV-STTLLHF  189 (308)
T ss_dssp             HHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHS-CC-CEEEEEH
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhc-CC-cEEEEEH
Confidence            444555555665531   246888999999999999999999876 43 23 3455554

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.41  E-value=0.028  Score=59.12  Aligned_cols=48  Identities=19%  Similarity=0.295  Sum_probs=33.7

Q ss_pred             CccccchHHHHHHHHHHhc---c---------CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALT---D---------VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -++++|.+..++++.+...   .         .-.+-+.|+|+.|+||||||+.++....
T Consensus        39 ~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~   98 (278)
T 1iy2_A           39 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   98 (278)
T ss_dssp             GGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC
Confidence            4567888776665544322   1         0112389999999999999999998764

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=95.41  E-value=0.056  Score=58.14  Aligned_cols=58  Identities=22%  Similarity=0.360  Sum_probs=42.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhcc---C-CCEEEEEEeCCCcCHHHHHHHHHHHhCCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKK---L-FDRVVFSEVSQTPDIKKIQGEIAEKLGLE  240 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~---~-f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  240 (1085)
                      -.++.|+|.+|+||||+|.++........   . -..++|++....++..++. ++++.++..
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~-~~~~~~g~~  168 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIE-NMAKALGLD  168 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHH-HHHHHTTCC
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHhCCC
Confidence            36999999999999999999987643211   0 2468999998887777665 345666543

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=95.32  E-value=0.054  Score=59.64  Aligned_cols=89  Identities=17%  Similarity=0.222  Sum_probs=55.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc----cCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC----------Cc---
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK----KLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS----------DE---  244 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----------~~---  244 (1085)
                      -.++.|+|.+|+|||||+..++-.....    ..-..++|++....+....+ +.+++.++....          ..   
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~~  256 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNAD  256 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCChH
Confidence            3699999999999999999876443221    12346889988776666554 336666664321          00   


Q ss_pred             hHHHHHHHHHHHHHcCCcEEEEEeCCC
Q 037935          245 AEYRRASRLYERLKNENKILVILDNIW  271 (1085)
Q Consensus       245 ~~~~~~~~~~~~l~~~~~~LlvlDdv~  271 (1085)
                      .....+..+...+...+.-+||+|.+.
T Consensus       257 ~~~~~l~~~~~~l~~~~~~llVIDs~t  283 (400)
T 3lda_A          257 HQLRLLDAAAQMMSESRFSLIVVDSVM  283 (400)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETGG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEecchh
Confidence            111223333444444677899999864

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=95.16  E-value=0.069  Score=58.05  Aligned_cols=84  Identities=24%  Similarity=0.279  Sum_probs=53.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC-----CchHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS-----DEAEYRRASRLYER  256 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~~~~  256 (1085)
                      -+++.|+|.+|+||||||.++.......+  ..++|++....++..     .++.++.+..     .....+.+....+.
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~~~g--~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~~  146 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  146 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHHHCC--CeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHHH
Confidence            36889999999999999999887765332  368999998777654     2455554321     11112222233333


Q ss_pred             HH-cCCcEEEEEeCCCC
Q 037935          257 LK-NENKILVILDNIWK  272 (1085)
Q Consensus       257 l~-~~~~~LlvlDdv~~  272 (1085)
                      +. ..+.-+||+|.+..
T Consensus       147 l~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          147 LVRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             HHTTTCCSEEEEECTTT
T ss_pred             HHhcCCCCEEEEeChHH
Confidence            33 34556899999854

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=95.09  E-value=0.51  Score=58.18  Aligned_cols=46  Identities=20%  Similarity=0.298  Sum_probs=37.2

Q ss_pred             cccchHHHHHHHHHHhcc---------CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          162 AFESRVSTLKSIQNALTD---------VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++|.+..++.+...+..         .....+.|+|+.|+|||++|+.+.+...
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~  613 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF  613 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            478999988888777652         1235889999999999999999999764

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=95.07  E-value=0.067  Score=59.35  Aligned_cols=88  Identities=22%  Similarity=0.368  Sum_probs=53.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhC--------CCCCCchHHHH----
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLG--------LELSDEAEYRR----  249 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~--------~~~~~~~~~~~----  249 (1085)
                      ..++|+|.+|+|||||++.+......+. -+.++++-+.+.. ...++.+++...-.        ....+......    
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~~-~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~  230 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQEH-GGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVAL  230 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHHT-CCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhcc-CcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHH
Confidence            4689999999999999999988766442 2445667776654 45566665543210        01111111111    


Q ss_pred             -HHHHHHHHH--cCCcEEEEEeCCC
Q 037935          250 -ASRLYERLK--NENKILVILDNIW  271 (1085)
Q Consensus       250 -~~~~~~~l~--~~~~~LlvlDdv~  271 (1085)
                       ...+.+++.  ++++.|+++||+.
T Consensus       231 ~~ltiAEyFrd~~G~~VLl~~D~it  255 (473)
T 1sky_E          231 TGLTMAEYFRDEQGQDGLLFIDNIF  255 (473)
T ss_dssp             HHHHHHHHHHHHSCCEEEEEEECTH
T ss_pred             HHHHHHHHHHHhcCCcEEEEeccHH
Confidence             123334443  4899999999984

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=95.03  E-value=0.074  Score=57.54  Aligned_cols=84  Identities=20%  Similarity=0.290  Sum_probs=53.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC-----chHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD-----EAEYRRASRLYER  256 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~~~  256 (1085)
                      -+++.|+|.+|+||||||.++.......+  ..++|++....++..     .++.++.....     ....+....+.+.
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~~~~~~g--~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~~  133 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVANAQAAG--GIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIADM  133 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhCC--CeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHH
Confidence            47899999999999999999987665332  358899988777653     25556643221     1112222233333


Q ss_pred             HH-cCCcEEEEEeCCCC
Q 037935          257 LK-NENKILVILDNIWK  272 (1085)
Q Consensus       257 l~-~~~~~LlvlDdv~~  272 (1085)
                      +. ..+.-+||+|.+..
T Consensus       134 l~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          134 LVRSGALDIIVIDSVAA  150 (349)
T ss_dssp             HHTTTCCSEEEEECGGG
T ss_pred             HHhcCCCCEEEEcChHh
Confidence            32 34567899998754

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=95.03  E-value=0.072  Score=57.70  Aligned_cols=84  Identities=21%  Similarity=0.353  Sum_probs=53.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC-----chHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD-----EAEYRRASRLYER  256 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~~~  256 (1085)
                      -+++.|+|.+|+||||||.++.......+  ..++|++....++..     .+..++.....     ....+.+..+.+.
T Consensus        63 G~ii~I~G~pGsGKTtLal~la~~~~~~g--~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~~e~~~~~~~~  135 (356)
T 1u94_A           63 GRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  135 (356)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCCHHHHHHHHHH
Confidence            46899999999999999999888765432  358899998777644     24556543211     1112222233333


Q ss_pred             H-HcCCcEEEEEeCCCC
Q 037935          257 L-KNENKILVILDNIWK  272 (1085)
Q Consensus       257 l-~~~~~~LlvlDdv~~  272 (1085)
                      + ...+.-+||+|.+..
T Consensus       136 l~~~~~~~lVVIDsl~~  152 (356)
T 1u94_A          136 LARSGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHHTCCSEEEEECGGG
T ss_pred             HHhccCCCEEEEcCHHH
Confidence            3 235556899998743

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=94.97  E-value=0.026  Score=56.04  Aligned_cols=44  Identities=20%  Similarity=0.373  Sum_probs=34.7

Q ss_pred             chHHHHHHHHHHhcc---CCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          165 SRVSTLKSIQNALTD---VNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       165 gr~~~~~~l~~~l~~---~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .|+..++++.+.+..   ....+|+|+|..|+||||+++.+......
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~   48 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            356677777777653   34579999999999999999999886643

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=94.93  E-value=0.02  Score=61.43  Aligned_cols=47  Identities=23%  Similarity=0.367  Sum_probs=37.9

Q ss_pred             ccccchHHHHHHHHHHhcc--------------CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTD--------------VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~--------------~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|++..++.+...+..              .....+.++|.+|+|||++|+.+.+...
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3578999988888876642              2345688999999999999999998774

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=94.89  E-value=0.039  Score=59.04  Aligned_cols=100  Identities=13%  Similarity=0.142  Sum_probs=53.8

Q ss_pred             HHHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhc-cCCCEEEEEEeCCCc-CHHHHHHHHHHHhC-CCCCCchHH
Q 037935          172 SIQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREK-KLFDRVVFSEVSQTP-DIKKIQGEIAEKLG-LELSDEAEY  247 (1085)
Q Consensus       172 ~l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~-~~~~~~~~~  247 (1085)
                      ++++.+. -..-..++|+|.+|+|||||++.+.+....+ ..+++ +++-+.+.. .+.++.+.+-..+- ...++....
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~-I~~lIGER~~Ev~~~~~~~~~~vV~atadep~~~  241 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVL-MVLLIDERPEEVTEMQRLVKGEVVASTFDEPASR  241 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEE-EEEEESSCHHHHHHHHTTCSSEEEEECTTSCHHH
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeE-EEEEecCChHHHHHHHHHhCeEEEEeCCCCCHHH
Confidence            3455544 2344689999999999999999988765432 23434 346666543 23333332200000 011111111


Q ss_pred             H-----HHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          248 R-----RASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       248 ~-----~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                      .     ......+++. +++.+||++||+..
T Consensus       242 r~~~a~~alt~AEyfrd~G~dVLil~DslTR  272 (422)
T 3ice_A          242 HVQVAEMVIEKAKRLVEHKKDVIILLDSITR  272 (422)
T ss_dssp             HHHHHHHHHHHHHHHHHTSCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCEEEEEeCchH
Confidence            1     1112223332 58999999999854

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=94.82  E-value=0.02  Score=62.05  Aligned_cols=48  Identities=25%  Similarity=0.303  Sum_probs=37.7

Q ss_pred             CccccchHHHHHHHHHHhcc-----CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALTD-----VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -+.++|.+..++.+...+..     .....+.++|++|+||||||+.++....
T Consensus        24 l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~   76 (334)
T 1in4_A           24 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ   76 (334)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             HHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            35578888777776655542     2447899999999999999999999874

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=94.77  E-value=0.069  Score=56.34  Aligned_cols=86  Identities=20%  Similarity=0.144  Sum_probs=46.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN  259 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~  259 (1085)
                      ..++++|+|.+|+||||++..+......+... .+..+.... .....+.++...+..+.+.........+......+  
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~-~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~~~--  180 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKHK-KIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKELF--  180 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTCC-CEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHHHG--
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCC-EEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHHHh--
Confidence            45799999999999999999998877642222 345555432 22333334444444444321111112222223333  


Q ss_pred             CCcEEEEEeC
Q 037935          260 ENKILVILDN  269 (1085)
Q Consensus       260 ~~~~LlvlDd  269 (1085)
                      .+.=++|+|-
T Consensus       181 ~~~dlvIiDT  190 (296)
T 2px0_A          181 SEYDHVFVDT  190 (296)
T ss_dssp             GGSSEEEEEC
T ss_pred             cCCCEEEEeC
Confidence            3344677883

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=94.75  E-value=0.06  Score=61.05  Aligned_cols=48  Identities=19%  Similarity=0.296  Sum_probs=34.8

Q ss_pred             CccccchHHHHHHHHHHhc---cC---------CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALT---DV---------NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~---~~---------~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -++++|.+..++++.+...   ..         -.+-+.|+|++|+||||||+.++....
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~   89 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   89 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3568898877666655432   11         123489999999999999999998764

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.73  E-value=0.1  Score=53.04  Aligned_cols=47  Identities=19%  Similarity=0.277  Sum_probs=32.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGE  232 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  232 (1085)
                      -.+++|+|.+|+|||||++.+.......+  ..++|+....  ...++...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~--~~v~~~~~~~--~~~~~~~~   69 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLRDG--DPCIYVTTEE--SRDSIIRQ   69 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHHT--CCEEEEESSS--CHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCC--CeEEEEEccc--CHHHHHHH
Confidence            36899999999999999999986654332  2466666543  34444433

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=94.64  E-value=0.038  Score=55.18  Aligned_cols=52  Identities=15%  Similarity=0.202  Sum_probs=36.2

Q ss_pred             HHHHHHHHHhcc--CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC
Q 037935          168 STLKSIQNALTD--VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS  221 (1085)
Q Consensus       168 ~~~~~l~~~l~~--~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  221 (1085)
                      ..+++|.+.+..  +...+|+|+|..|.|||||++.+.......+  ....+|...
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~~~g--~~~g~v~~d   59 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALSAQG--LPAEVVPMD   59 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHHHTT--CCEEEEESG
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHhhcC--CceEEEecC
Confidence            455666666552  4567999999999999999999988765321  124555553

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=94.59  E-value=0.15  Score=51.68  Aligned_cols=56  Identities=29%  Similarity=0.339  Sum_probs=36.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc---c-CCCEEEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK---K-LFDRVVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~---~-~f~~~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      -.+++|+|..|+|||||++.+.......   . .-..++|+.-...+.... ...+.+..+
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~-i~~~~~~~~   84 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRG   84 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHH-HHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHH-HHHHHHHcC
Confidence            3799999999999999999998754321   1 134578887655444333 233444443

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=94.59  E-value=0.02  Score=59.78  Aligned_cols=60  Identities=7%  Similarity=0.107  Sum_probs=38.8

Q ss_pred             ccccchHHHHHHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          161 EAFESRVSTLKSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      +.++|++..+.++.+.+.  ......|.|+|.+|+|||++|+.+++......  ...+.++++.
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~~~--~~~~~v~~~~   67 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQ--GPFISLNCAA   67 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTTTT--SCEEEEEGGG
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCccC--CCeEEEecCC
Confidence            347898888888776654  12335677999999999999999998654221  1234455554

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=94.17  E-value=0.038  Score=67.49  Aligned_cols=60  Identities=15%  Similarity=0.223  Sum_probs=43.2

Q ss_pred             ccccchHHHHHHHHHHhcc---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          161 EAFESRVSTLKSIQNALTD---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      ..++|.+..++.+...+..         .....+.++|++|+|||++|+.+++.....  -...+-++++.
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~--~~~~i~i~~s~  559 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD--EESMIRIDMSE  559 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC--TTCEEEEEGGG
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC--CcceEEEechh
Confidence            3578999988888877751         123479999999999999999999986422  12344555543

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.13  E-value=0.061  Score=57.34  Aligned_cols=45  Identities=20%  Similarity=0.234  Sum_probs=33.4

Q ss_pred             cchHHHHHHHHHHhc----cCCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          164 ESRVSTLKSIQNALT----DVNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       164 ~gr~~~~~~l~~~l~----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ++-+...+++++.+.    .+....|.|+|+.|+||||+++.++.....
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~   50 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINE   50 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            344555566666553    455677999999999999999999887653

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=94.13  E-value=0.14  Score=55.57  Aligned_cols=57  Identities=28%  Similarity=0.351  Sum_probs=37.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhc---cCC-CEEEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREK---KLF-DRVVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~---~~f-~~~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      .-.++.|+|..|+|||||+..+.......   +.. ..++|++....+....+ ..+++..+
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~  190 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRG  190 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcC
Confidence            34799999999999999999998865211   111 24688888666544433 33444443

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.09  E-value=0.34  Score=51.16  Aligned_cols=38  Identities=29%  Similarity=0.376  Sum_probs=29.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      ...+|+|+|.+|+||||++..++.....++  ..+.++..
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g--~kV~lv~~  140 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEG--KSVVLAAA  140 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEE
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhcC--CEEEEEcc
Confidence            457999999999999999999988776432  23555554

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.08  E-value=0.05  Score=55.13  Aligned_cols=40  Identities=20%  Similarity=0.268  Sum_probs=30.8

Q ss_pred             HHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          168 STLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       168 ~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+.+...+......+|+|+|.+|+|||||+..+.....
T Consensus        24 ~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           24 RLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            3344455554455678999999999999999999988754

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=94.07  E-value=0.065  Score=58.02  Aligned_cols=45  Identities=16%  Similarity=0.183  Sum_probs=37.4

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|++..++.+...+..+  .-+.++|.+|+|||++|+.+.+...
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~~   71 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTMD   71 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHTT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHhC
Confidence            34789999998888877653  4688999999999999999988764

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=94.06  E-value=0.029  Score=54.34  Aligned_cols=25  Identities=20%  Similarity=0.260  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+|.|.|++|+||||+|+.+.+...
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999988764

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=94.01  E-value=0.032  Score=53.73  Aligned_cols=25  Identities=16%  Similarity=0.239  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+|.|.|+.|+||||+|+.+.....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999988764

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=94.00  E-value=0.034  Score=55.10  Aligned_cols=27  Identities=44%  Similarity=0.479  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|.|+|+.|+||||+|+.+.....
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            346899999999999999999998764

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=93.98  E-value=0.41  Score=53.23  Aligned_cols=88  Identities=20%  Similarity=0.298  Sum_probs=49.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCC----CchHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELS----DEAEYRRASRLYE  255 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~~  255 (1085)
                      ..++|.|+|.+|+||||++..+......+... .+..|++.. .......+.......+.+.-    ..+....+.....
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~-kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l~  177 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHKK-KVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALK  177 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCC-eEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHHH
Confidence            46899999999999999999999887654123 344555532 22333333334444443211    1122333344455


Q ss_pred             HHH-cCCcEEEEEeCC
Q 037935          256 RLK-NENKILVILDNI  270 (1085)
Q Consensus       256 ~l~-~~~~~LlvlDdv  270 (1085)
                      .+. .+.. ++|+|-.
T Consensus       178 ~~~~~~~D-~VIIDTp  192 (433)
T 2xxa_A          178 EAKLKFYD-VLLVDTA  192 (433)
T ss_dssp             HHHHTTCS-EEEEECC
T ss_pred             HHHhCCCC-EEEEECC
Confidence            554 2333 5666764

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=93.97  E-value=0.036  Score=59.03  Aligned_cols=47  Identities=11%  Similarity=0.186  Sum_probs=36.6

Q ss_pred             ccccchHHHHHHHHHHhcc--CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTD--VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.++|++..+.++.+.+..  .....|.|+|.+|+|||++|+.+++...
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~   50 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSA   50 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCc
Confidence            3578988888888877652  3345677999999999999999998653

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=93.92  E-value=0.082  Score=64.59  Aligned_cols=102  Identities=14%  Similarity=0.196  Sum_probs=59.4

Q ss_pred             cccchHHHHHHHHHHhcc---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHH
Q 037935          162 AFESRVSTLKSIQNALTD---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGE  232 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  232 (1085)
                      .++|.+..++.+...+..         .....+.++|++|+|||++|+.+.+...     ...+-++++.-....    .
T Consensus       459 ~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~-----~~~~~i~~s~~~~~~----~  529 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERH----T  529 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSS----C
T ss_pred             hccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc-----CCEEEEechhhcchh----h
Confidence            478988888888776651         1235799999999999999999999773     224445554322110    0


Q ss_pred             HHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          233 IAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       233 i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      +.+.+|.+.. -...+....+.+.+......+|+||+++..
T Consensus       530 ~~~l~g~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEi~~~  569 (758)
T 1r6b_X          530 VSRLIGAPPG-YVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_dssp             CSSSCCCCSC-SHHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             HhhhcCCCCC-CcCccccchHHHHHHhCCCcEEEEeCcccc
Confidence            0011122111 111111122334444456789999999764

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=93.85  E-value=0.043  Score=58.41  Aligned_cols=41  Identities=27%  Similarity=0.383  Sum_probs=31.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      ++.+||+|.|-|||||||.+..+..-....+ + .+.-|.+-.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~~G-k-kVllID~Dp   86 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSILG-K-RVLQIGCDP   86 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHHTT-C-CEEEEEESS
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHHCC-C-eEEEEecCC
Confidence            4679999999999999999999888776543 2 355667653

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=93.77  E-value=0.079  Score=54.79  Aligned_cols=48  Identities=19%  Similarity=0.295  Sum_probs=32.8

Q ss_pred             CccccchHHHHHHHHHHhc---c---------CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALT---D---------VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -++++|.+..++++.+...   .         .-.+-+.|+|++|+||||||+.++....
T Consensus        15 ~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~   74 (254)
T 1ixz_A           15 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   74 (254)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3457787766555543321   1         0112389999999999999999998764

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=93.76  E-value=0.43  Score=52.79  Aligned_cols=29  Identities=34%  Similarity=0.512  Sum_probs=25.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ...+|.++|.+|+||||++..++.....+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            46899999999999999999998877654

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=93.75  E-value=0.023  Score=59.46  Aligned_cols=48  Identities=19%  Similarity=0.155  Sum_probs=34.4

Q ss_pred             ccccchHHHHHHHHHHhc---c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALT---D---------VNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +.++|.+..++.+.+.+.   .         ...+-+.|+|++|+|||++|+.+++....
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~   70 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV   70 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC
Confidence            457787766666655443   1         11234779999999999999999998653

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=93.72  E-value=0.087  Score=63.10  Aligned_cols=93  Identities=16%  Similarity=0.277  Sum_probs=60.8

Q ss_pred             CccccchHHHHHHHHHHhc----------c---CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH
Q 037935          160 YEAFESRVSTLKSIQNALT----------D---VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI  226 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~----------~---~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  226 (1085)
                      -+.+.|.+..++++.+.+.          .   ...+-|.++|++|+|||.+|+++++.....       ++.++.    
T Consensus       476 w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~-------f~~v~~----  544 (806)
T 3cf2_A          476 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN-------FISIKG----  544 (806)
T ss_dssp             STTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE-------EEECCH----
T ss_pred             HHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc-------eEEecc----
Confidence            3456788888887776553          0   123567899999999999999999987632       233332    


Q ss_pred             HHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          227 KKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       227 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                          .+++....    ..+ ...+..+++..++..+++|++|+++.
T Consensus       545 ----~~l~s~~v----Ges-e~~vr~lF~~Ar~~~P~IifiDEiDs  581 (806)
T 3cf2_A          545 ----PELLTMWF----GES-EANVREIFDKARQAAPCVLFFDELDS  581 (806)
T ss_dssp             ----HHHHTTTC----SSC-HHHHHHHHHHHHTTCSEEEECSCGGG
T ss_pred             ----chhhcccc----chH-HHHHHHHHHHHHHcCCceeechhhhH
Confidence                12222211    122 23466677777778899999999864

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=93.67  E-value=0.036  Score=53.78  Aligned_cols=24  Identities=13%  Similarity=0.380  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ++++|+|+.|+|||||++.+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            689999999999999999998864

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=93.64  E-value=0.041  Score=53.70  Aligned_cols=26  Identities=27%  Similarity=0.465  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+.|.|+|+.|+||||+|+.+.+...
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46789999999999999999998764

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=93.63  E-value=0.42  Score=50.93  Aligned_cols=52  Identities=13%  Similarity=0.140  Sum_probs=39.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKL  237 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  237 (1085)
                      -.++.|.|.+|+||||+|..++.....++  ..++|++..  .+..++...+....
T Consensus        68 G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~~  119 (315)
T 3bh0_A           68 RNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVTA  119 (315)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHHH
Confidence            46899999999999999999987765443  567887765  56677777766543

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=93.61  E-value=0.034  Score=53.79  Aligned_cols=20  Identities=35%  Similarity=0.564  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEF  202 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v  202 (1085)
                      .+|.|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47899999999999999999

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=93.60  E-value=0.037  Score=60.60  Aligned_cols=48  Identities=21%  Similarity=0.266  Sum_probs=35.5

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -+.++|.+..++.+.........+-+.|+|.+|+|||++|+.+++...
T Consensus        23 f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           23 FSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             GGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             chhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            345889988666554444333334588999999999999999998764

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=93.48  E-value=0.056  Score=51.21  Aligned_cols=28  Identities=29%  Similarity=0.399  Sum_probs=24.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..++++|+|..|+||||++..+......
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~   30 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVR   30 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHh
Confidence            4679999999999999999999987764

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=93.45  E-value=0.054  Score=53.63  Aligned_cols=28  Identities=29%  Similarity=0.354  Sum_probs=25.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ....+|+|+|+.|+||||+++.+.....
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4568999999999999999999998776

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=93.44  E-value=0.38  Score=53.20  Aligned_cols=98  Identities=21%  Similarity=0.327  Sum_probs=63.1

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCC------C---
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLE------L---  241 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~------~---  241 (1085)
                      .++.+. =.+-..++|+|.+|+|||+|++.+.+.... .+-+.++++-+.+.. .+.++.+++...-...      .   
T Consensus       143 ~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~~-~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtvv  221 (482)
T 2ck3_D          143 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVAL  221 (482)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEE
T ss_pred             EEecccccccCCeeeeecCCCCChHHHHHHHHHhhHh-hCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEEE
Confidence            455554 234468999999999999999999887532 234677888887654 5677777777653221      0   


Q ss_pred             ----CCchHH------HHHHHHHHHHH--cCCcEEEEEeCCC
Q 037935          242 ----SDEAEY------RRASRLYERLK--NENKILVILDNIW  271 (1085)
Q Consensus       242 ----~~~~~~------~~~~~~~~~l~--~~~~~LlvlDdv~  271 (1085)
                          .+.+..      .....+.++++  +++.+|+++||+.
T Consensus       222 V~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~Dsit  263 (482)
T 2ck3_D          222 VYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIF  263 (482)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence                111111      11223344444  4899999999984

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=93.44  E-value=0.094  Score=47.42  Aligned_cols=33  Identities=27%  Similarity=0.273  Sum_probs=19.8

Q ss_pred             cceEEEecCCcccCCch-hhhccccccEEeccCc
Q 037935          542 KLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLTDC  574 (1085)
Q Consensus       542 ~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~Ls~~  574 (1085)
                      +|++|+|++|+|+.+|. .|..+++|++|+|++|
T Consensus        32 ~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           32 DTTELVLTGNNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             TCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             CCCEEECCCCcCCccChhhhhhccccCEEEecCC
Confidence            45666666666666653 3455666666666666

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.41  E-value=0.74  Score=52.12  Aligned_cols=38  Identities=24%  Similarity=0.279  Sum_probs=27.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      ..++|+|+|.+|+||||++..+......+ ... +..|+.
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~-G~k-VllVd~  137 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRK-GWK-TCLICA  137 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHT-TCC-EEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhC-CCe-EEEEec
Confidence            46799999999999999999998877643 232 444554

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=93.39  E-value=0.059  Score=54.32  Aligned_cols=42  Identities=19%  Similarity=0.261  Sum_probs=32.1

Q ss_pred             hHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          166 RVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       166 r~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++..+.+.+.+.....++|+|+|.+|+|||||+..+.....
T Consensus        14 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           14 NKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             HHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            344455555555455778999999999999999999988764

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=93.37  E-value=0.046  Score=53.68  Aligned_cols=25  Identities=28%  Similarity=0.398  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-.+++|+|+.|+||||+++.+...
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3478999999999999999999764

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=93.36  E-value=0.047  Score=52.96  Aligned_cols=22  Identities=41%  Similarity=0.561  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      .+|.|.|++|+||||+|+.+.+
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999987

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=93.34  E-value=0.037  Score=53.30  Aligned_cols=25  Identities=32%  Similarity=0.380  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+|+|+|+.|+||||+++.+.....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            5799999999999999999988654

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=93.30  E-value=0.5  Score=49.65  Aligned_cols=87  Identities=21%  Similarity=0.267  Sum_probs=49.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHHHhCCCCC----CchHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAEKLGLELS----DEAEYRRASRLYER  256 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~~~  256 (1085)
                      ..+++++|.+|+||||++..+......++  ..+.++..... ......++...+..+.+.-    ..+....+....+.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g--~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~  175 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKG--FKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEK  175 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTT--CCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHH
Confidence            57999999999999999999988776432  24566665432 2233334445555554321    11223333345555


Q ss_pred             HHcCCcEEEEEeCC
Q 037935          257 LKNENKILVILDNI  270 (1085)
Q Consensus       257 l~~~~~~LlvlDdv  270 (1085)
                      +.....=++|+|-.
T Consensus       176 ~~~~~~D~ViIDTp  189 (297)
T 1j8m_F          176 FLSEKMEIIIVDTA  189 (297)
T ss_dssp             HHHTTCSEEEEECC
T ss_pred             HHhCCCCEEEEeCC
Confidence            53222236777753

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=93.24  E-value=0.22  Score=52.74  Aligned_cols=27  Identities=26%  Similarity=0.315  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+|+|.|..|+||||+++.+..-..
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            456999999999999999999987664

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=93.22  E-value=0.1  Score=54.69  Aligned_cols=29  Identities=21%  Similarity=0.071  Sum_probs=25.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +...+|+|+|..|+||||||+.+......
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            45679999999999999999998887654

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=93.21  E-value=0.054  Score=53.23  Aligned_cols=26  Identities=27%  Similarity=0.381  Sum_probs=23.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .+|.|.|+.|+||||+|+.+.+....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            57899999999999999999998763

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=93.16  E-value=0.057  Score=53.46  Aligned_cols=27  Identities=30%  Similarity=0.411  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ....+|+|+|+.|+||||+++.+....
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            345799999999999999999998866

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=93.09  E-value=0.046  Score=54.28  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+|+|.|+.|+||||+|+.+.....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg   43 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACG   43 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988763

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=93.04  E-value=0.47  Score=52.46  Aligned_cols=88  Identities=17%  Similarity=0.251  Sum_probs=48.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCCCCC----CchHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGLELS----DEAEYRRASRLYE  255 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~~  255 (1085)
                      ..++|.++|.+|+||||++..+......++ . .+..+.... .....+.+....+..+.+..    ..+..........
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G-~-kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~  173 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRG-Y-KVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVD  173 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTT-C-CEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC-C-eEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHH
Confidence            368999999999999999999988776542 2 344444432 12233334444455554321    1122222333333


Q ss_pred             HHHcCCcEEEEEeCC
Q 037935          256 RLKNENKILVILDNI  270 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv  270 (1085)
                      .+.....=++|+|-.
T Consensus       174 ~a~~~~~DvvIIDTa  188 (433)
T 3kl4_A          174 IFVKNKMDIIIVDTA  188 (433)
T ss_dssp             HTTTTTCSEEEEEEC
T ss_pred             HHHhcCCCEEEEECC
Confidence            433223345577754

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=92.99  E-value=1.3  Score=47.19  Aligned_cols=58  Identities=22%  Similarity=0.285  Sum_probs=38.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-CcCHHHHHHHHHHHhCC
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-TPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~  239 (1085)
                      ....+++|+|..|+||||+++.+....+..+  ..+.++...- .....+-++...+.++.
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~--g~V~l~g~D~~r~~a~eql~~~~~~~gv  185 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHG--FSVVIAASDTFRAGAIEQLEEHAKRIGV  185 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEECCSSTTHHHHHHHHHHHTTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcC--CEEEEEeecccccchHHHHHHHHHHcCc
Confidence            4568999999999999999999988766432  2345544432 22344445556666664

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=92.98  E-value=0.06  Score=52.81  Aligned_cols=26  Identities=27%  Similarity=0.388  Sum_probs=23.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .+|.|.|++|+||||+|+.+.+....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~   29 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRK   29 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            57999999999999999999987653

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=92.96  E-value=0.23  Score=55.24  Aligned_cols=98  Identities=26%  Similarity=0.347  Sum_probs=63.2

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCC-------C--
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLE-------L--  241 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~--  241 (1085)
                      .++.|. =.+-..++|+|.+|+|||+|++.+.+.... .+-+.++++-+.+.. ...++.+++...-...       .  
T Consensus       155 vID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~a~-~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtv  233 (498)
T 1fx0_B          155 VVNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIAK-AHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVA  233 (498)
T ss_dssp             THHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTTT-TCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEE
T ss_pred             EeeeecccccCCeEEeecCCCCCchHHHHHHHHHHHh-hCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceE
Confidence            345554 234467899999999999999999987532 234778888887655 5677777776542221       0  


Q ss_pred             -----CCchHH------HHHHHHHHHHH--cCCcEEEEEeCCC
Q 037935          242 -----SDEAEY------RRASRLYERLK--NENKILVILDNIW  271 (1085)
Q Consensus       242 -----~~~~~~------~~~~~~~~~l~--~~~~~LlvlDdv~  271 (1085)
                           .+.+..      .....+.++++  +++.+|+++||+.
T Consensus       234 vV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsit  276 (498)
T 1fx0_B          234 LVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIF  276 (498)
T ss_dssp             EEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence                 111111      12233445555  3899999999984

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=92.95  E-value=0.084  Score=57.96  Aligned_cols=46  Identities=26%  Similarity=0.216  Sum_probs=36.6

Q ss_pred             cccchHHHHHHHHHHhc-------------c--CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          162 AFESRVSTLKSIQNALT-------------D--VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~-------------~--~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++|.+..++.+...+.             .  ...+.+.++|++|+|||++|+.+++...
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            36888888888877762             0  1346789999999999999999998764

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=92.91  E-value=0.053  Score=52.32  Aligned_cols=25  Identities=32%  Similarity=0.454  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.|.|+|++|+||||+|+.+.....
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            3689999999999999999998764

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=92.90  E-value=0.069  Score=51.50  Aligned_cols=25  Identities=32%  Similarity=0.466  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..+|+|+|+.|+||||+++.+....
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998765

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=92.89  E-value=0.053  Score=52.62  Aligned_cols=26  Identities=42%  Similarity=0.528  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++|.|+|++|+||||+|+.+.+...
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~   36 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSG   36 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhC
Confidence            46788999999999999999998764

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=92.89  E-value=0.07  Score=52.41  Aligned_cols=26  Identities=38%  Similarity=0.420  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+|.|.|++|+||||+|+.+.+...
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l~   30 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGLR   30 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999988763

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=92.88  E-value=0.065  Score=51.25  Aligned_cols=27  Identities=22%  Similarity=0.427  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+|+|.|+.|+||||+|+.+.+...
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHhC
Confidence            457899999999999999999998765

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=92.87  E-value=0.065  Score=55.23  Aligned_cols=25  Identities=24%  Similarity=0.339  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++|.|+|+.|+||||+|+.+.....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            5789999999999999999988764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=92.79  E-value=0.08  Score=51.63  Aligned_cols=29  Identities=24%  Similarity=0.390  Sum_probs=25.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ...+|.|+|++|+||||+++.+.......
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~~   40 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQKE   40 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            45789999999999999999999887643

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=92.77  E-value=0.41  Score=48.93  Aligned_cols=47  Identities=13%  Similarity=0.262  Sum_probs=32.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGE  232 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  232 (1085)
                      -.++.|+|.+|+||||+|.+++......+  ..++|++....  ..++.+.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~~~~--~~v~~~~~e~~--~~~~~~~   69 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGLKMG--EPGIYVALEEH--PVQVRQN   69 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHHHTT--CCEEEEESSSC--HHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEEccCC--HHHHHHH
Confidence            36899999999999999988876654321  35777776543  4444433

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=92.77  E-value=0.097  Score=57.82  Aligned_cols=26  Identities=31%  Similarity=0.365  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+.++|++|+|||++|+.+++...
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            35688999999999999999998763

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=92.69  E-value=0.069  Score=60.68  Aligned_cols=44  Identities=14%  Similarity=0.135  Sum_probs=36.7

Q ss_pred             cccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          162 AFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++|++..++.+...+..+  +-|.++|++|+|||++|+.+++...
T Consensus        23 ~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHHh
Confidence            4789999888888777643  4688999999999999999988654

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=92.68  E-value=0.067  Score=53.12  Aligned_cols=24  Identities=29%  Similarity=0.584  Sum_probs=22.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|+|.|+.|+||||+++.+.+...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            689999999999999999998765

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=92.65  E-value=0.075  Score=51.75  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      ....|.|+|+.|+||||+++.+.+.
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999886

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=92.65  E-value=0.069  Score=52.25  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      .+++|+|+.|+||||+++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            5789999999999999999975

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=92.64  E-value=0.07  Score=53.16  Aligned_cols=27  Identities=22%  Similarity=0.334  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+|+|+|+.|+||||+++.+.....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            457899999999999999999987653

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=92.61  E-value=0.06  Score=53.50  Aligned_cols=26  Identities=31%  Similarity=0.497  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..++|.|+|++|+||||+++.+....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34689999999999999999998865

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=92.58  E-value=0.075  Score=56.78  Aligned_cols=51  Identities=18%  Similarity=0.097  Sum_probs=34.9

Q ss_pred             HHHHHhcc-CCceEEEEEcCCCCcHHHHHHHHHHHHhhc-cCCCEEEEEEeCCC
Q 037935          172 SIQNALTD-VNVSIIGVYGMGGIGKTTLVKEFARQAREK-KLFDRVVFSEVSQT  223 (1085)
Q Consensus       172 ~l~~~l~~-~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~  223 (1085)
                      ++++.+.. ..-..++|+|.+|+|||+|++.+.+....+ ..+.+ +++-+.+.
T Consensus       164 raID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~-V~~lIGER  216 (427)
T 3l0o_A          164 RLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIR-IILLIDER  216 (427)
T ss_dssp             HHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEE-EEEECSCC
T ss_pred             hhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEE-EEEEeccC
Confidence            45666652 344688999999999999999998876532 22333 45666544

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=92.55  E-value=0.12  Score=54.33  Aligned_cols=26  Identities=23%  Similarity=0.262  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998764

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=92.52  E-value=0.074  Score=51.85  Aligned_cols=27  Identities=15%  Similarity=0.359  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|+|+|+.|+|||||++.+.....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            457899999999999999999987643

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=92.45  E-value=0.068  Score=53.10  Aligned_cols=25  Identities=24%  Similarity=0.442  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      -.+++|+|+.|+|||||++.+....
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998763

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=92.45  E-value=0.086  Score=50.84  Aligned_cols=25  Identities=40%  Similarity=0.533  Sum_probs=22.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .++|+|..|+|||||++.+.....+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i   26 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5899999999999999999987753

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=92.39  E-value=0.063  Score=52.28  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+|.|.|++|+||||+|+.+.....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4689999999999999999988764

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=92.34  E-value=0.067  Score=51.74  Aligned_cols=25  Identities=32%  Similarity=0.420  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.|.|+|++|+|||||++.+.....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~   26 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCC
Confidence            4578999999999999999987643

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=92.34  E-value=0.083  Score=51.99  Aligned_cols=27  Identities=30%  Similarity=0.322  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+|+|.|+.|+||||+|+.+.+...
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346899999999999999999988764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=92.31  E-value=0.092  Score=52.05  Aligned_cols=27  Identities=33%  Similarity=0.390  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ....+|+|.|+.|+||||+|+.+.+..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            345789999999999999999998764

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=92.29  E-value=0.081  Score=53.57  Aligned_cols=25  Identities=36%  Similarity=0.534  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+|+|+|+.|+||||+|+.+.....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g   30 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQ   30 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999988654

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=92.24  E-value=0.072  Score=52.92  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      .+|+|+|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999987

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=92.24  E-value=0.086  Score=54.17  Aligned_cols=27  Identities=22%  Similarity=0.269  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+|+|+|+.|+||||+++.+.+...
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            357999999999999999999997764

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=92.22  E-value=0.086  Score=52.23  Aligned_cols=26  Identities=31%  Similarity=0.353  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .+..+|+|+|+.|+||||+|+.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            35679999999999999999999875

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=92.20  E-value=0.1  Score=51.88  Aligned_cols=28  Identities=25%  Similarity=0.336  Sum_probs=25.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+||.|.|++|+||||.|+.+.+...
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHHC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            3568999999999999999999998764

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=92.20  E-value=0.095  Score=51.07  Aligned_cols=25  Identities=24%  Similarity=0.296  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..|.|.|+.|+||||+|+.+.+...
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l~   29 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQELG   29 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5789999999999999999988654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=92.20  E-value=0.065  Score=52.87  Aligned_cols=26  Identities=27%  Similarity=0.404  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++++|+|+.|+|||||++.+.....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            36799999999999999999987653

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=92.17  E-value=0.075  Score=51.06  Aligned_cols=25  Identities=36%  Similarity=0.388  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++|.|.|+.|+||||+|+.+.+...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999998764

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=92.16  E-value=0.094  Score=51.55  Aligned_cols=25  Identities=24%  Similarity=0.255  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+|.|.|+.|+||||+|+.+.+...
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~~   28 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKYG   28 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999988653

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=92.15  E-value=0.099  Score=52.21  Aligned_cols=27  Identities=37%  Similarity=0.480  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+|+|+|..|+|||||++.+.....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            457899999999999999999988654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=92.12  E-value=0.31  Score=63.95  Aligned_cols=84  Identities=19%  Similarity=0.264  Sum_probs=56.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC------CchHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS------DEAEYRRASRLY  254 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~  254 (1085)
                      .-++|.|+|++|+|||+||.++......++  ..++|+++...++...     ++.++.+..      ..........+.
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~~G--~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~~ 1498 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1498 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTTT--CCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHHH
Confidence            457999999999999999999988765432  3578888888777666     455663321      112222233333


Q ss_pred             HHHHcCCcEEEEEeCCC
Q 037935          255 ERLKNENKILVILDNIW  271 (1085)
Q Consensus       255 ~~l~~~~~~LlvlDdv~  271 (1085)
                      +..++.+.-+||+|.+.
T Consensus      1499 ~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1499 ALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHTCCSEEEESCGG
T ss_pred             HHHhcCCCCEEEEcChh
Confidence            34445788899999985

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=92.12  E-value=0.47  Score=49.91  Aligned_cols=88  Identities=20%  Similarity=0.275  Sum_probs=47.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcC-HHHHHHHHHHHhCCCCC----CchHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPD-IKKIQGEIAEKLGLELS----DEAEYRRASRLYE  255 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~~  255 (1085)
                      ..++++|+|.+|+||||++..++.....++  ..+.++....... ....+....+..+.+.-    .....+.......
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~--~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~  174 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKG--RRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEE  174 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTT--CCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHH
Confidence            457999999999999999999988776432  2355555532221 11223344555554321    1122222233344


Q ss_pred             HHHcCCcEEEEEeCC
Q 037935          256 RLKNENKILVILDNI  270 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv  270 (1085)
                      .+...+.=++|+|--
T Consensus       175 ~~~~~~~D~viiDtp  189 (295)
T 1ls1_A          175 KARLEARDLILVDTA  189 (295)
T ss_dssp             HHHHHTCCEEEEECC
T ss_pred             HHHhCCCCEEEEeCC
Confidence            442133346777864

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=92.08  E-value=0.09  Score=52.29  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..+|+|+|+.|+||||+++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998754

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=92.01  E-value=0.1  Score=52.20  Aligned_cols=27  Identities=22%  Similarity=0.309  Sum_probs=24.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      .+|+|.|+.|+||||+|+.+.+.....
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            589999999999999999999987643

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=92.00  E-value=0.089  Score=51.92  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=22.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+|+|.|+.|+||||+|+.+.+...
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            6899999999999999999998764

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=91.91  E-value=0.079  Score=50.80  Aligned_cols=23  Identities=30%  Similarity=0.536  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFA  203 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~  203 (1085)
                      .-.+++|+|..|+|||||++.++
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            34789999999999999999854

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=91.89  E-value=0.21  Score=51.06  Aligned_cols=28  Identities=18%  Similarity=0.067  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ....+|.|.|++|+||||+|+.+.+...
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~g   54 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSHC   54 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3557899999999999999999988763

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=91.88  E-value=0.1  Score=54.05  Aligned_cols=26  Identities=31%  Similarity=0.566  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+|.|.|++|+||||+|+.+.....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999998754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=91.87  E-value=0.11  Score=49.72  Aligned_cols=24  Identities=25%  Similarity=0.228  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|.|.|+.|+||||+|+.+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999998764

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=91.86  E-value=0.096  Score=52.11  Aligned_cols=25  Identities=40%  Similarity=0.643  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      ...+|+|+|+.|+||||+|+.+...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3478999999999999999999764

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=91.80  E-value=0.11  Score=50.72  Aligned_cols=27  Identities=30%  Similarity=0.409  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..-.+|+|+|+.|+||||+|+.+.+..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhc
Confidence            345799999999999999999998864

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=91.74  E-value=0.11  Score=51.48  Aligned_cols=26  Identities=23%  Similarity=0.212  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+|.|.|+.|+||||+|+.+.....
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999988764

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=91.73  E-value=0.11  Score=51.02  Aligned_cols=26  Identities=27%  Similarity=0.300  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+|+|.|+.|+||||+|+.+.+...
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~   31 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988754

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=91.71  E-value=0.11  Score=48.93  Aligned_cols=27  Identities=26%  Similarity=0.310  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..-.+++|+|+.|.|||||++.+..-.
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            345799999999999999999998865

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=91.70  E-value=0.098  Score=52.01  Aligned_cols=22  Identities=41%  Similarity=0.578  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      .+|+|+|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999975

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=91.63  E-value=0.093  Score=52.20  Aligned_cols=26  Identities=19%  Similarity=0.341  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34799999999999999999998765

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=91.53  E-value=0.1  Score=53.76  Aligned_cols=27  Identities=37%  Similarity=0.460  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+|+|+|+.|+||||+++.+.+...
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            346999999999999999999998764

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=91.47  E-value=0.082  Score=51.36  Aligned_cols=26  Identities=27%  Similarity=0.336  Sum_probs=18.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+|.|.|+.|+||||+|+.+.+...
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            35899999999999999999987654

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=91.46  E-value=0.68  Score=46.15  Aligned_cols=25  Identities=20%  Similarity=0.165  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -.++|.|++|+||||+|+.+.+...
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~g   33 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKFG   33 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cceeeECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999998775

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=91.44  E-value=0.12  Score=51.95  Aligned_cols=26  Identities=19%  Similarity=0.201  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...|.|.|+.|+||||+|+.+.+...
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            45789999999999999999988764

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=91.39  E-value=1.1  Score=49.58  Aligned_cols=87  Identities=22%  Similarity=0.269  Sum_probs=48.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH--HHHHHHHHhCCCCC----CchHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK--IQGEIAEKLGLELS----DEAEYRRASRLY  254 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~--~~~~i~~~l~~~~~----~~~~~~~~~~~~  254 (1085)
                      ...+++|+|.+|+||||++..+......++  ..+..+.. ..+....  .++...+..+.+.-    ..+..+.+....
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g--~~Vllvd~-D~~r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~~~~l  173 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKG--RRPLLVAA-DTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVE  173 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTT--CCEEEEEC-CSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEeec-cccCchhHHHHHHhcccCCccEEecCCCCCHHHHHHHHH
Confidence            357999999999999999999998776442  23555555 3333322  23445555554321    112223334445


Q ss_pred             HHHHcCCcEEEEEeCC
Q 037935          255 ERLKNENKILVILDNI  270 (1085)
Q Consensus       255 ~~l~~~~~~LlvlDdv  270 (1085)
                      +.++...-=++|+|-.
T Consensus       174 ~~~~~~~~DvVIIDTa  189 (425)
T 2ffh_A          174 EKARLEARDLILVDTA  189 (425)
T ss_dssp             HHHHHTTCSEEEEECC
T ss_pred             HHHHHCCCCEEEEcCC
Confidence            5553122225666743

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=91.39  E-value=0.12  Score=55.02  Aligned_cols=42  Identities=24%  Similarity=0.202  Sum_probs=29.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS  221 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  221 (1085)
                      ....+|+|+|..|+|||||++.+..-......-..+.+|.-.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd  129 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTD  129 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGG
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccccCCCCeEEEEecC
Confidence            345799999999999999999998866532111235555543

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=91.39  E-value=0.098  Score=49.89  Aligned_cols=28  Identities=32%  Similarity=0.490  Sum_probs=23.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      .++++|+|..|+|||||++.+..-...+
T Consensus         2 ~~~v~IvG~SGsGKSTL~~~L~~~~~~~   29 (171)
T 2f1r_A            2 SLILSIVGTSDSGKTTLITRMMPILRER   29 (171)
T ss_dssp             -CEEEEEESCHHHHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            3689999999999999999998876643

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=91.36  E-value=0.12  Score=50.64  Aligned_cols=24  Identities=33%  Similarity=0.506  Sum_probs=22.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +|+|.|+.|+||||+|+.+.+...
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998774

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=91.34  E-value=0.092  Score=52.71  Aligned_cols=26  Identities=31%  Similarity=0.539  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998754

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=91.28  E-value=0.16  Score=52.32  Aligned_cols=27  Identities=26%  Similarity=0.263  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+|.|+|++|+||||+|+.+.....
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            357899999999999999999988653

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=91.28  E-value=0.15  Score=53.95  Aligned_cols=29  Identities=28%  Similarity=0.469  Sum_probs=25.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ...+++|+|.+|+||||+++.+..-....
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            45799999999999999999998876643

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=91.25  E-value=0.15  Score=48.67  Aligned_cols=28  Identities=25%  Similarity=0.393  Sum_probs=24.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..++++|+|..|+|||||++.+......
T Consensus         5 ~~~~i~i~G~sGsGKTTl~~~l~~~l~~   32 (174)
T 1np6_A            5 MIPLLAFAAWSGTGKTTLLKKLIPALCA   32 (174)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCHHHHHHHHHHhccc
Confidence            3579999999999999999999887653

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=91.25  E-value=0.14  Score=56.82  Aligned_cols=48  Identities=23%  Similarity=0.360  Sum_probs=36.8

Q ss_pred             ccccchHHHHHHHHHHhcc--------------CCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNALTD--------------VNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~--------------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..++|.+..++.+..++..              ...+-|.++|++|+||||+|+.++.....
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~   76 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            3478888888877665521              13466889999999999999999998753

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=91.19  E-value=0.12  Score=51.52  Aligned_cols=32  Identities=19%  Similarity=0.169  Sum_probs=26.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCE
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDR  214 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~  214 (1085)
                      ..+|+|.|+.|+||||+|+.+.+..... +++.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~-~~~~   41 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNN-NVEV   41 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHT-TCCE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHc-CCcE
Confidence            4689999999999999999999877643 4555

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=91.15  E-value=0.14  Score=51.27  Aligned_cols=32  Identities=16%  Similarity=0.159  Sum_probs=26.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCE
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDR  214 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~  214 (1085)
                      ..+|+|.|+.|+||||+|+.+.+..... +++.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~-~~~v   40 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCAA-GHRA   40 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHT-TCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHc-CCcE
Confidence            4689999999999999999999887643 3554

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=91.06  E-value=0.11  Score=52.99  Aligned_cols=26  Identities=38%  Similarity=0.342  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -.+|+|+|+.|+||||+++.+.....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            36899999999999999999998765

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=91.05  E-value=0.075  Score=53.25  Aligned_cols=26  Identities=35%  Similarity=0.598  Sum_probs=23.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .+|+|.|..|+||||+|+.+......
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            37899999999999999999987753

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=90.97  E-value=0.15  Score=52.36  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ...+|+|.|..|+|||||++.+....
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            44799999999999999999998865

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=90.96  E-value=0.14  Score=52.78  Aligned_cols=28  Identities=21%  Similarity=0.273  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ....+|+|.|+.|+||||+|+.+.....
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3557999999999999999999988654

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=90.94  E-value=0.14  Score=51.28  Aligned_cols=24  Identities=25%  Similarity=0.362  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|+|.|+.|+||||+|+.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYE   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988764

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=90.93  E-value=0.13  Score=51.51  Aligned_cols=27  Identities=19%  Similarity=0.324  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-.+++|+|+.|+|||||.+.+.....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            347999999999999999999988654

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=90.91  E-value=0.19  Score=48.71  Aligned_cols=38  Identities=16%  Similarity=0.209  Sum_probs=27.8

Q ss_pred             HHHHHHHhcc-CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          170 LKSIQNALTD-VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       170 ~~~l~~~l~~-~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +..+..++.. +....+.|+|++|+||||+|..+++...
T Consensus        45 ~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           45 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4444444432 2234799999999999999999998764

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=90.89  E-value=0.31  Score=53.10  Aligned_cols=39  Identities=23%  Similarity=0.389  Sum_probs=29.9

Q ss_pred             HHHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          170 LKSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       170 ~~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..++.+.+.  .++..+|+|+|.+|+||||++..+......
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~~  105 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLIE  105 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            444454444  456789999999999999999999877643

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=90.82  E-value=0.16  Score=50.63  Aligned_cols=28  Identities=29%  Similarity=0.277  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ....+|.|.|+.|+||||+++.+.....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3457899999999999999999988765

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=90.75  E-value=0.16  Score=51.11  Aligned_cols=26  Identities=27%  Similarity=0.477  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+|+|.|++|+||||+|+.+.....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999988764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=90.74  E-value=0.13  Score=51.91  Aligned_cols=26  Identities=15%  Similarity=0.092  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...|.|.|+.|+||||+|+.+.+...
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999998765

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=90.72  E-value=0.13  Score=51.95  Aligned_cols=26  Identities=19%  Similarity=0.238  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...|.|.|+.|+||||+|+.+.+...
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~   32 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFE   32 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            36799999999999999999988653

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=90.69  E-value=0.66  Score=47.46  Aligned_cols=49  Identities=22%  Similarity=0.318  Sum_probs=32.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEI  233 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  233 (1085)
                      -.++.|.|.+|+|||++|.+++.+...+. -..+++++..  .+..++.+.+
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~~~~~~-~~~v~~~s~E--~~~~~~~~~~   78 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYKGAEEY-GEPGVFVTLE--ERARDLRREM   78 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHHHHHH-CCCEEEEESS--SCHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhc-CCCceeeccc--CCHHHHHHHH
Confidence            36899999999999999988765432221 2345666554  3455555444

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=90.65  E-value=0.15  Score=49.17  Aligned_cols=27  Identities=22%  Similarity=0.242  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      -.+|+|.|+.|+||||+++.+......
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~   31 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVC   31 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            468899999999999999999887643

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=90.64  E-value=0.33  Score=48.91  Aligned_cols=32  Identities=28%  Similarity=0.348  Sum_probs=26.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCE
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDR  214 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~  214 (1085)
                      ...+|+|.|+.|+||||+++.+.+....  +++.
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~--~~~~   56 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK--DYDV   56 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT--TSCE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc--CCCc
Confidence            4478999999999999999999998865  3544

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=90.63  E-value=0.14  Score=49.87  Aligned_cols=25  Identities=28%  Similarity=0.409  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+++|+|..|+||||+++.+....+
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcc
Confidence            3689999999999999999988766

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=90.60  E-value=0.7  Score=49.28  Aligned_cols=52  Identities=15%  Similarity=0.149  Sum_probs=38.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKL  237 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  237 (1085)
                      -.++.|.|.+|+||||+|..++......+  ..++|++.  +.+..++...++...
T Consensus        46 G~LiiIaG~pG~GKTt~al~ia~~~a~~g--~~Vl~fSl--Ems~~ql~~Rlls~~   97 (338)
T 4a1f_A           46 GSLVIIGARPSMGKTSLMMNMVLSALNDD--RGVAVFSL--EMSAEQLALRALSDL   97 (338)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHHTT--CEEEEEES--SSCHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEeC--CCCHHHHHHHHHHHh
Confidence            36899999999999999999988765421  35677655  456777777765543

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=90.59  E-value=0.17  Score=49.10  Aligned_cols=115  Identities=11%  Similarity=-0.015  Sum_probs=58.9

Q ss_pred             CCCcceeeeccCCCccccc----cChhhhcCCCcceEEEecCCcccC-----CchhhhccccccEEeccCcccccccchh
Q 037935          513 CPQLEFLHIDPKITFAELN----IPDNFFKGMKKLRVVDLTRVRLFS-----LPSSIGQLTKLRMLDLTDCLQLKFIVPN  583 (1085)
Q Consensus       513 ~~~Lr~L~l~~~~~~~~~~----l~~~~~~~l~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~lp~~  583 (1085)
                      -+.|++|++.+++.  +..    .....+..-+.|+.|+|++|.|..     +...+..-+.|++|+|++| .|..--..
T Consensus        40 n~~L~~L~L~~nn~--igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N-~Ig~~Ga~  116 (197)
T 1pgv_A           40 DTDLKEVNINNMKR--VSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESN-FLTPELLA  116 (197)
T ss_dssp             CSSCCEEECTTCCS--SCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSS-BCCHHHHH
T ss_pred             CCCccEEECCCCCC--CCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCC-cCCHHHHH
Confidence            35667777765421  111    112234556677777777777753     3445566677777777777 66532111


Q ss_pred             h----hhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEec
Q 037935          584 I----LSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVE  634 (1085)
Q Consensus       584 ~----~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  634 (1085)
                      .    +..=+.|++|+|+++.......    .......+.+..-+.|+.|+++.+
T Consensus       117 ala~aL~~N~tL~~L~L~n~~~~~ig~----~g~~~ia~aL~~N~tL~~L~l~~~  167 (197)
T 1pgv_A          117 RLLRSTLVTQSIVEFKADNQRQSVLGN----QVEMDMMMAIEENESLLRVGISFA  167 (197)
T ss_dssp             HHHHHTTTTCCCSEEECCCCSSCCCCH----HHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHHhhCCceeEEECCCCcCcCcCH----HHHHHHHHHHHhCCCcCeEeccCC
Confidence            1    2333457777776542200000    000112334555566776666544

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=90.45  E-value=0.16  Score=50.90  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .|+|.|++|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998765

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=90.44  E-value=0.13  Score=51.43  Aligned_cols=86  Identities=12%  Similarity=0.050  Sum_probs=47.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHc-
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKN-  259 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~-  259 (1085)
                      .-.++.|+|..|.||||++..+.++...++ . .++.+......  + ....+++.++....... ......+++.+.. 
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g-~-kVli~~~~~d~--r-~~~~i~srlG~~~~~~~-~~~~~~i~~~i~~~   84 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYAD-V-KYLVFKPKIDT--R-SIRNIQSRTGTSLPSVE-VESAPEILNYIMSN   84 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTT-C-CEEEEEECCCG--G-GCSSCCCCCCCSSCCEE-ESSTHHHHHHHHST
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcC-C-EEEEEEeccCc--h-HHHHHHHhcCCCccccc-cCCHHHHHHHHHHH
Confidence            457899999999999999998888776542 2 23334333221  1 22344555554332211 0011223333332 


Q ss_pred             ---CCcEEEEEeCCCC
Q 037935          260 ---ENKILVILDNIWK  272 (1085)
Q Consensus       260 ---~~~~LlvlDdv~~  272 (1085)
                         ++.-+||+|.+..
T Consensus        85 ~~~~~~dvViIDEaQ~  100 (223)
T 2b8t_A           85 SFNDETKVIGIDEVQF  100 (223)
T ss_dssp             TSCTTCCEEEECSGGG
T ss_pred             hhCCCCCEEEEecCcc
Confidence               2344999999864

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=90.32  E-value=0.15  Score=50.41  Aligned_cols=25  Identities=24%  Similarity=0.243  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..+|+|.|+.|+||||+++.+.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999998865

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=90.25  E-value=0.18  Score=53.72  Aligned_cols=25  Identities=32%  Similarity=0.347  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+|+|.|+.|+||||||+.+.....
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            5899999999999999999988653

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=90.23  E-value=0.16  Score=51.62  Aligned_cols=26  Identities=19%  Similarity=0.222  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .. .+++|+|+.|+|||||.+.+.--.
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            45 899999999999999999997643

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=90.18  E-value=0.18  Score=59.54  Aligned_cols=45  Identities=18%  Similarity=0.218  Sum_probs=37.7

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..++|.+..++.+...+..+  ..+.|+|++|+||||+|+.+.....
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             ceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCC
Confidence            45789988888877777644  5889999999999999999998654

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=90.15  E-value=0.38  Score=53.80  Aligned_cols=28  Identities=36%  Similarity=0.535  Sum_probs=24.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ...+++|+|..|+||||+++.+......
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~  319 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQ  319 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhh
Confidence            4579999999999999999999887654

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=90.00  E-value=0.17  Score=52.95  Aligned_cols=24  Identities=21%  Similarity=0.632  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      ...+|+|.|+.|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999983

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=89.99  E-value=0.18  Score=50.54  Aligned_cols=23  Identities=35%  Similarity=0.473  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999975

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=89.99  E-value=0.23  Score=52.36  Aligned_cols=28  Identities=29%  Similarity=0.476  Sum_probs=24.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ...+++|+|..|+||||+++.++.....
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3479999999999999999999887664

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=89.92  E-value=0.2  Score=49.76  Aligned_cols=24  Identities=21%  Similarity=0.375  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +|+|.|+.|+||||+|+.+.....
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            899999999999999999988764

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=89.90  E-value=0.51  Score=49.90  Aligned_cols=53  Identities=19%  Similarity=0.229  Sum_probs=35.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEK  236 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  236 (1085)
                      .-.+++|+|.+|+|||||++.+......... ..++|+....  +..++.+.+...
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G-~~v~~~~~e~--~~~~~~~r~~~~   86 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWGTAMG-KKVGLAMLEE--SVEETAEDLIGL   86 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHHHTSC-CCEEEEESSS--CHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHHcC-CeEEEEeCcC--CHHHHHHHHHHH
Confidence            3469999999999999999999887664311 1466665532  344454444443

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=89.88  E-value=0.64  Score=52.14  Aligned_cols=96  Identities=14%  Similarity=0.202  Sum_probs=58.8

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcC-HHHHHHHHHH----HhCC-------
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPD-IKKIQGEIAE----KLGL-------  239 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~----~l~~-------  239 (1085)
                      .++.|. -.+-..++|.|..|+|||+|++.+.+..    +-+.++++-+.+... +.++.+++-+    ..+.       
T Consensus       217 vID~l~PigkGqr~~I~g~~g~GKT~L~~~ia~~~----~~~~~V~~~iGER~~Ev~e~~~~~~el~d~~~g~~~m~rtv  292 (588)
T 3mfy_A          217 VIDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWS----DAQVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTV  292 (588)
T ss_dssp             HHHHHSCEETTCEEEECSCCSHHHHHHHHHHHHHS----SCSEEEEEECCSSSSHHHHHHHHTTTCEETTTTEEGGGGEE
T ss_pred             hhhccCCcccCCeEEeecCCCCCHHHHHHHHHhcc----CCCEEEEEEecccHHHHHHHHHHHHHhcccccccccccceE
Confidence            456554 2344689999999999999999987653    346788888876654 5666666432    1110       


Q ss_pred             ---CCCCchHHH------HHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          240 ---ELSDEAEYR------RASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       240 ---~~~~~~~~~------~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                         ...+.....      ....+.++++ +++.+|+++|++..
T Consensus       293 vV~~tsd~p~~~r~~~~~~a~tiAEyfrd~G~dVLl~~DsltR  335 (588)
T 3mfy_A          293 LIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSR  335 (588)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTT
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeecchHH
Confidence               011111111      1122333343 58999999999853

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=89.78  E-value=0.2  Score=52.89  Aligned_cols=25  Identities=28%  Similarity=0.263  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++|.|+|+.|+||||||+.+.....
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5899999999999999999988643

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=89.62  E-value=0.53  Score=47.44  Aligned_cols=52  Identities=13%  Similarity=0.216  Sum_probs=34.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      ...|.|.|..|+||||+++.+.+..... ++..+....-+......+.+++++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~~-~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQN-GIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCeeeeecCCCCCHHHHHHHHHH
Confidence            3689999999999999999999988754 465344444333323333334433

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=89.60  E-value=1.6  Score=49.08  Aligned_cols=52  Identities=15%  Similarity=0.036  Sum_probs=37.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEK  236 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  236 (1085)
                      -.++.|.|.+|+||||+|..++.....+.. ..++|++..  .+..++...++..
T Consensus       200 G~l~ii~G~pg~GKT~lal~ia~~~a~~~g-~~vl~~slE--~~~~~l~~R~~~~  251 (444)
T 2q6t_A          200 GSLNIIAARPAMGKTAFALTIAQNAALKEG-VGVGIYSLE--MPAAQLTLRMMCS  251 (444)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHHTTC-CCEEEEESS--SCHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHhCC-CeEEEEECC--CCHHHHHHHHHHH
Confidence            368999999999999999999887654311 247776654  4566777766543

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=89.60  E-value=0.22  Score=49.11  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +|.|.|++|+||+|.|+.+.+...
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g   25 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG   25 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            578999999999999999998764

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=89.58  E-value=0.2  Score=50.14  Aligned_cols=25  Identities=20%  Similarity=0.191  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..|.|.|+.|+||||+|+.+.+...
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999998764

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=89.55  E-value=0.12  Score=52.34  Aligned_cols=25  Identities=28%  Similarity=0.368  Sum_probs=16.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH-HHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFA-RQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~-~~~  206 (1085)
                      -.+++|+|+.|+|||||++.+. ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3689999999999999999998 653

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=89.54  E-value=0.16  Score=50.36  Aligned_cols=24  Identities=38%  Similarity=0.283  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -.+++|+|..|+|||||++.+.--
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999999876

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=89.54  E-value=0.34  Score=53.62  Aligned_cols=99  Identities=23%  Similarity=0.279  Sum_probs=60.2

Q ss_pred             HHHHhcc-CCceEEEEEcCCCCcHHHHHHHHHHHHhhccC--CCEEEEEEeCCCc-CHHHHHHHHHHHhCCC-------C
Q 037935          173 IQNALTD-VNVSIIGVYGMGGIGKTTLVKEFARQAREKKL--FDRVVFSEVSQTP-DIKKIQGEIAEKLGLE-------L  241 (1085)
Q Consensus       173 l~~~l~~-~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~--f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~  241 (1085)
                      .++.+.. ..-..++|.|.+|+|||+|+..+.+.....+.  =+.++++-+.+.. .+.++.+++...=...       .
T Consensus       142 ~ID~l~pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~t  221 (469)
T 2c61_A          142 TIDGTNTLVRGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNL  221 (469)
T ss_dssp             HHHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEE
T ss_pred             eeeeeeccccCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEEC
Confidence            4555541 23356788999999999999999998764211  1356677776544 5667777776542111       1


Q ss_pred             CCchHH------HHHHHHHHHHH--cCCcEEEEEeCCC
Q 037935          242 SDEAEY------RRASRLYERLK--NENKILVILDNIW  271 (1085)
Q Consensus       242 ~~~~~~------~~~~~~~~~l~--~~~~~LlvlDdv~  271 (1085)
                      .+.+..      .....+.++++  +++.+|+++||+.
T Consensus       222 sd~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~Dslt  259 (469)
T 2c61_A          222 ADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDIT  259 (469)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeCHH
Confidence            111111      11223344554  5899999999974

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=89.48  E-value=0.22  Score=50.11  Aligned_cols=24  Identities=25%  Similarity=0.241  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|.|.|+.|+||||+|+.+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg   25 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYS   25 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999988763

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=89.46  E-value=0.54  Score=46.85  Aligned_cols=56  Identities=20%  Similarity=0.140  Sum_probs=35.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  235 (1085)
                      .....|.|.|..|+||||+++.+.+.......+..+....-+.....-+.+++++.
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCCCChHHHHHHHHHh
Confidence            34578999999999999999999998775123444332223333333444455544

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=89.46  E-value=0.18  Score=51.07  Aligned_cols=26  Identities=19%  Similarity=0.367  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|+.|+|||||.+.+.--.
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            44799999999999999999987543

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=89.46  E-value=0.24  Score=50.23  Aligned_cols=26  Identities=23%  Similarity=0.169  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...|.|.|+.|+||||+|+.+.+...
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35799999999999999999998764

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=89.42  E-value=0.21  Score=49.84  Aligned_cols=24  Identities=21%  Similarity=0.077  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|.|.|+.|+||||+|+.+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g   25 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYG   25 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988763

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=89.41  E-value=0.15  Score=51.20  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-.+++|+|..|+|||||.+.+.--
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468999999999999999998754

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=89.38  E-value=0.22  Score=52.00  Aligned_cols=25  Identities=20%  Similarity=0.363  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .++|.|+|+.|+||||||..++...
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            3689999999999999999998754

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=89.34  E-value=0.81  Score=51.56  Aligned_cols=95  Identities=17%  Similarity=0.205  Sum_probs=58.0

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC-cCHHHHHHHHHH----HhCCC------
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT-PDIKKIQGEIAE----KLGLE------  240 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~----~l~~~------  240 (1085)
                      .++.|. =.+-..++|.|..|+|||+|+.++.+..    +-+.++++-+.+. ..+.++++++-+    ..+..      
T Consensus       222 vID~l~PigrGqr~~Ifgg~g~GKT~L~~~ia~~~----~~~v~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~m~rtv  297 (600)
T 3vr4_A          222 VIDTFFPVTKGGAAAVPGPFGAGKTVVQHQIAKWS----DVDLVVYVGCGERGNEMTDVVNEFPELIDPNTGESLMERTV  297 (600)
T ss_dssp             HHHHHSCCBTTCEEEEECCTTSCHHHHHHHHHHHS----SCSEEEEEEEEECHHHHHHHHHHTTTCBCTTTCSBGGGGEE
T ss_pred             hhhccCCccCCCEEeeecCCCccHHHHHHHHHhcc----CCCEEEEEEecccHHHHHHHHHHHHhhcccccccccccceE
Confidence            456555 2345789999999999999999998763    2467888888765 345555555422    11210      


Q ss_pred             ----CCCchHHH------HHHHHHHHHH-cCCcEEEEEeCCC
Q 037935          241 ----LSDEAEYR------RASRLYERLK-NENKILVILDNIW  271 (1085)
Q Consensus       241 ----~~~~~~~~------~~~~~~~~l~-~~~~~LlvlDdv~  271 (1085)
                          ..+.....      ....+.++++ .++.+|+++|++.
T Consensus       298 vV~~tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~t  339 (600)
T 3vr4_A          298 LIANTSNMPVAAREASIYTGITIAEYFRDMGYDVAIMADSTS  339 (600)
T ss_dssp             EEEEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecchH
Confidence                01111111      1223334444 5899999999974

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=89.33  E-value=0.8  Score=59.37  Aligned_cols=85  Identities=19%  Similarity=0.273  Sum_probs=53.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCC------CchHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELS------DEAEYRRASRLYE  255 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~~  255 (1085)
                      -.+|.|.|.+|+||||||.++......++  ..++|++........     .++.++.+..      ..+..+....+..
T Consensus       732 G~lVlI~G~PG~GKTtLal~lA~~aa~~g--~~VlyiS~Ees~~ql-----~A~~lGvd~~~L~i~~~~~leei~~~l~~  804 (1706)
T 3cmw_A          732 GRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  804 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEECTTSCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCcHHHHHHHHHHHHHcC--CCeEEEeccchHHHH-----HHHHcCCChhheEEecCCcHHHHHHHHHH
Confidence            36899999999999999999988776432  357888887766543     1566664321      1122222222222


Q ss_pred             HHHcCCcEEEEEeCCCCc
Q 037935          256 RLKNENKILVILDNIWKY  273 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv~~~  273 (1085)
                      .....+.-+||+|.+...
T Consensus       805 lv~~~~~~lVVIDsLq~l  822 (1706)
T 3cmw_A          805 LARSGAVDVIVVDSVAAL  822 (1706)
T ss_dssp             HHHHTCCSEEEESCSTTC
T ss_pred             HHHccCCCEEEEechhhh
Confidence            222456679999998643

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=89.31  E-value=0.27  Score=50.94  Aligned_cols=27  Identities=41%  Similarity=0.524  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...++.++|.||+||||++..+.....
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            457888999999999999999988776

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=89.31  E-value=0.22  Score=52.97  Aligned_cols=28  Identities=21%  Similarity=0.215  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ....+|+|+|..|+|||||++.+.....
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3457999999999999999999988654

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=89.24  E-value=0.29  Score=52.09  Aligned_cols=38  Identities=26%  Similarity=0.375  Sum_probs=29.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      ..++|+|+|.+|+||||++..++.....++  ..+.++..
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g--~kVllid~  141 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAELG--YKVLIAAA  141 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHTT--CCEEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEeC
Confidence            458999999999999999999988766432  23555554

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=89.22  E-value=0.63  Score=51.16  Aligned_cols=97  Identities=22%  Similarity=0.279  Sum_probs=59.1

Q ss_pred             HHHHhcc-CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCC----EEEEEEeCCC-cCHHHHHHHHHHHhCC-------
Q 037935          173 IQNALTD-VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFD----RVVFSEVSQT-PDIKKIQGEIAEKLGL-------  239 (1085)
Q Consensus       173 l~~~l~~-~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~----~~~wv~~~~~-~~~~~~~~~i~~~l~~-------  239 (1085)
                      .++.+.. .+-..++|.|.+|+|||+|+.++.+.....  -+    .++++-+.+. ..+.++.+++...=..       
T Consensus       141 aID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~~--~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~  218 (465)
T 3vr4_D          141 AIDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQATVL--DSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFM  218 (465)
T ss_dssp             HHHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHCBCS--SCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEE
T ss_pred             EEecccccccCCEEEEeCCCCcChHHHHHHHHHHHHhc--cCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEE
Confidence            4555541 223457899999999999999998876532  23    5667777654 3566777776553111       


Q ss_pred             CCCCchHH------HHHHHHHHHHH--cCCcEEEEEeCCC
Q 037935          240 ELSDEAEY------RRASRLYERLK--NENKILVILDNIW  271 (1085)
Q Consensus       240 ~~~~~~~~------~~~~~~~~~l~--~~~~~LlvlDdv~  271 (1085)
                      ...+.+..      .....+.++++  .++.+|+++||+.
T Consensus       219 atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl~~DslT  258 (465)
T 3vr4_D          219 NLANDPAIERIATPRMALTAAEYLAYEKGMHVLVIMTDMT  258 (465)
T ss_dssp             EETTSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEECHH
T ss_pred             ECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence            11111111      12234455665  3899999999984

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=89.10  E-value=0.18  Score=51.24  Aligned_cols=26  Identities=23%  Similarity=0.451  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44699999999999999999997643

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=89.09  E-value=0.65  Score=46.00  Aligned_cols=52  Identities=17%  Similarity=0.194  Sum_probs=35.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  235 (1085)
                      ..|.|-|..|+||||+++.+.+..... ++..+.+..-+....+.+..++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQL-GIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc-CCCcceeeeCCCCCHHHHHHHHHHh
Confidence            578999999999999999999988754 3433444443333344555555554

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=89.04  E-value=1.3  Score=47.92  Aligned_cols=53  Identities=9%  Similarity=-0.063  Sum_probs=35.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEI  233 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  233 (1085)
                      .-.++..++|..|.||++.++.+.+..... .|+....+.+....++.++...+
T Consensus        16 ~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~   68 (343)
T 1jr3_D           16 GLRAAYLLLGNDPLLLQESQDAVRQVAAAQ-GFEEHHTFSIDPNTDWNAIFSLC   68 (343)
T ss_dssp             CCCSEEEEEESCHHHHHHHHHHHHHHHHHH-TCCEEEEEECCTTCCHHHHHHHH
T ss_pred             CCCcEEEEECCcHHHHHHHHHHHHHHHHhC-CCCeeEEEEecCCCCHHHHHHHh
Confidence            345789999999999999999998876533 35432223344455665555443

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=89.03  E-value=0.22  Score=48.72  Aligned_cols=25  Identities=28%  Similarity=0.569  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.|+|+|..|+|||||.+.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4678999999999999999998753

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=89.03  E-value=4.6  Score=43.68  Aligned_cols=26  Identities=23%  Similarity=0.494  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .....|+|+|.+|+|||||...+...
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~  190 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTA  190 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            35578999999999999999998764

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=88.84  E-value=1.6  Score=49.20  Aligned_cols=50  Identities=16%  Similarity=0.199  Sum_probs=36.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      -.++.|.|.+|+||||+|..+......+.. ..++|++..  .+..++...++
T Consensus       203 G~liiI~G~pG~GKTtl~l~ia~~~~~~~g-~~Vl~~s~E--~s~~~l~~r~~  252 (454)
T 2r6a_A          203 SDLIIVAARPSVGKTAFALNIAQNVATKTN-ENVAIFSLE--MSAQQLVMRML  252 (454)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHHHHHHSS-CCEEEEESS--SCHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhCC-CcEEEEECC--CCHHHHHHHHH
Confidence            368999999999999999999887764321 247777654  34566666554

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=88.84  E-value=0.16  Score=53.34  Aligned_cols=27  Identities=33%  Similarity=0.501  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +..+|+|.|..|+||||+|+.+.+...
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456899999999999999999988654

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=88.83  E-value=0.21  Score=52.86  Aligned_cols=26  Identities=23%  Similarity=0.400  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..++|.|+|+.|+||||||..+++..
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC
Confidence            34699999999999999999998754

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=88.82  E-value=0.36  Score=53.01  Aligned_cols=99  Identities=22%  Similarity=0.285  Sum_probs=58.4

Q ss_pred             HHHHhcc-CCceEEEEEcCCCCcHHHHHHHHHHHHhhc--------cCCC-EEEEEEeCCCc-CHHHHHHHHHHHhCC--
Q 037935          173 IQNALTD-VNVSIIGVYGMGGIGKTTLVKEFARQAREK--------KLFD-RVVFSEVSQTP-DIKKIQGEIAEKLGL--  239 (1085)
Q Consensus       173 l~~~l~~-~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~--------~~f~-~~~wv~~~~~~-~~~~~~~~i~~~l~~--  239 (1085)
                      .++.+.. .+-..++|.|.+|+|||+|+.++.+.....        ++=+ .++++-+.+.. .+.++.+++...=..  
T Consensus       137 aID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~r  216 (464)
T 3gqb_B          137 TIDVMNTLVRGQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSR  216 (464)
T ss_dssp             HHHTTSCCBTTCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGG
T ss_pred             eeecccccccCCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccc
Confidence            3555541 233567899999999999999998876531        1122 56667776543 566666665442101  


Q ss_pred             ------CCCCchHH-----HHHHHHHHHHH--cCCcEEEEEeCCC
Q 037935          240 ------ELSDEAEY-----RRASRLYERLK--NENKILVILDNIW  271 (1085)
Q Consensus       240 ------~~~~~~~~-----~~~~~~~~~l~--~~~~~LlvlDdv~  271 (1085)
                            ..++....     .....+.++++  +++.+|+++||+.
T Consensus       217 tvvv~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlT  261 (464)
T 3gqb_B          217 SVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMT  261 (464)
T ss_dssp             EEEEEEETTSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHH
T ss_pred             eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence                  01111111     12234455555  3899999999984

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=88.80  E-value=0.32  Score=52.50  Aligned_cols=28  Identities=29%  Similarity=0.476  Sum_probs=24.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ...+++|+|..|+||||+++.++.....
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            3479999999999999999999887664

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=88.78  E-value=0.27  Score=46.18  Aligned_cols=23  Identities=17%  Similarity=0.427  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      +.|+|+|.+|+|||||+..+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999998764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=88.78  E-value=0.19  Score=51.92  Aligned_cols=26  Identities=23%  Similarity=0.391  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|+.|+|||||.+.+.--.
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44799999999999999999987643

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=88.77  E-value=0.22  Score=50.99  Aligned_cols=25  Identities=32%  Similarity=0.407  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-.+++|+|..|+|||||.+.+.--
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3469999999999999999999864

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=88.77  E-value=0.27  Score=51.23  Aligned_cols=26  Identities=27%  Similarity=0.209  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..++|.|+|+.|+||||||..+++..
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            34789999999999999999998864

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=88.71  E-value=0.42  Score=46.34  Aligned_cols=93  Identities=13%  Similarity=0.155  Sum_probs=63.7

Q ss_pred             hhhcCCCcceEEEecCC-cccC-----CchhhhccccccEEeccCcccccccch----hhhhccccCCEEeccCCCcchh
Q 037935          535 NFFKGMKKLRVVDLTRV-RLFS-----LPSSIGQLTKLRMLDLTDCLQLKFIVP----NILSSFTRLEELYMGSCSIKWE  604 (1085)
Q Consensus       535 ~~~~~l~~Lr~L~Ls~~-~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~lp~----~~~~~L~~L~~L~L~~~~~~~~  604 (1085)
                      ....+-+.|+.|+|+++ .|..     +-..+..-+.|+.|+|++| .+..--.    +.+..=+.|++|+|++|.+...
T Consensus        35 ~ll~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n-~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~  113 (197)
T 1pgv_A           35 RLREDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANT-AISDSEARGLIELIETSPSLRVLNVESNFLTPE  113 (197)
T ss_dssp             HHHTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTS-CCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHH
T ss_pred             HHHhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCC-CCChHHHHHHHHHHhcCCccCeEecCCCcCCHH
Confidence            34566788999999986 6643     4556777899999999999 7764222    2245667899999999998311


Q ss_pred             hcccCCccccccHHHhhcCCCCcEEEEEecc
Q 037935          605 VRKGNSERSNASLDELMHLQRLTTLEIDVED  635 (1085)
Q Consensus       605 ~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~  635 (1085)
                      .       .....+.+..-+.|+.|+++++.
T Consensus       114 G-------a~ala~aL~~N~tL~~L~L~n~~  137 (197)
T 1pgv_A          114 L-------LARLLRSTLVTQSIVEFKADNQR  137 (197)
T ss_dssp             H-------HHHHHHHTTTTCCCSEEECCCCS
T ss_pred             H-------HHHHHHHHhhCCceeEEECCCCc
Confidence            0       11233445556678888887653

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=88.63  E-value=0.22  Score=51.66  Aligned_cols=26  Identities=27%  Similarity=0.506  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|+.|+|||||++.+.--.
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            34799999999999999999997643

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=88.48  E-value=0.2  Score=51.57  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.+.--.
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            44799999999999999999987643

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=88.48  E-value=0.28  Score=46.56  Aligned_cols=22  Identities=23%  Similarity=0.401  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      ..|+|+|.+|+|||||.+.+..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            5689999999999999999875

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=88.45  E-value=0.21  Score=50.86  Aligned_cols=26  Identities=31%  Similarity=0.420  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.++--.
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34699999999999999999997643

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=88.45  E-value=0.24  Score=51.25  Aligned_cols=25  Identities=28%  Similarity=0.413  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-.+++|+|..|+|||||.+.++--
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4479999999999999999999874

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=88.44  E-value=0.21  Score=50.43  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34699999999999999999997643

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=88.41  E-value=0.22  Score=50.74  Aligned_cols=26  Identities=35%  Similarity=0.362  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.+.--.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44799999999999999999997643

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=88.40  E-value=0.18  Score=50.14  Aligned_cols=25  Identities=36%  Similarity=0.534  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      -.+++|+|..|+|||||.+.++--.
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999987643

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=88.36  E-value=1.5  Score=42.74  Aligned_cols=51  Identities=18%  Similarity=0.249  Sum_probs=34.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEK  236 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  236 (1085)
                      .|+|=|.-|+||||.++.+++..+.++ .+ +++..-+......+..+.++..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g-~~-v~~treP~~t~~~~~ir~~l~~   52 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRG-KK-VILKREPGGTETGEKIRKILLE   52 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTT-CC-EEEEESSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC-Cc-EEEEECCCCCcHHHHHHHHhhc
Confidence            367889999999999999999887653 33 4444444444455555555543

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=88.32  E-value=0.21  Score=50.97  Aligned_cols=26  Identities=38%  Similarity=0.543  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.+.--.
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34699999999999999999987643

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=88.27  E-value=0.88  Score=45.07  Aligned_cols=33  Identities=24%  Similarity=0.248  Sum_probs=26.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEE
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRV  215 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~  215 (1085)
                      ...|.|-|..|+||||+++.+.+..... .+..+
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~v~   38 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER-GIEVQ   38 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT-TCCEE
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc-CCCcc
Confidence            3688999999999999999999988654 35543

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=88.25  E-value=0.24  Score=51.23  Aligned_cols=26  Identities=23%  Similarity=0.448  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||++.+.--.
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34799999999999999999997643

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=88.21  E-value=0.24  Score=48.08  Aligned_cols=21  Identities=33%  Similarity=0.558  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      -|+|+|.+|+|||||.+.+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999876

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=88.17  E-value=0.22  Score=51.24  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.+.--.
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34699999999999999999997643

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=88.15  E-value=0.28  Score=48.22  Aligned_cols=24  Identities=29%  Similarity=0.592  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-.|+|+|..|+|||||.+.+...
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            356899999999999999999874

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=88.04  E-value=0.52  Score=45.89  Aligned_cols=25  Identities=24%  Similarity=0.243  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      ....|+|+|.+|+|||||...+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4458899999999999999998764

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=88.03  E-value=0.7  Score=51.54  Aligned_cols=100  Identities=17%  Similarity=0.226  Sum_probs=58.1

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHH-HHHHHHHhh----ccCCC-EEEEEEeCCCc-CHHHHHHHHHHHhCCC----
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLV-KEFARQARE----KKLFD-RVVFSEVSQTP-DIKKIQGEIAEKLGLE----  240 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa-~~v~~~~~~----~~~f~-~~~wv~~~~~~-~~~~~~~~i~~~l~~~----  240 (1085)
                      .++.+. =.+-..++|+|.+|+|||+|| ..+.+....    ..+-+ .++++-+.+.. .+.++.+++...=...    
T Consensus       152 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvv  231 (510)
T 2ck3_A          152 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIV  231 (510)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEE
T ss_pred             eeccccccccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceE
Confidence            455554 233467899999999999995 466665542    11234 46777777654 4666777666522111    


Q ss_pred             ----CCCchHHH-----HHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          241 ----LSDEAEYR-----RASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       241 ----~~~~~~~~-----~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                          .++.....     ....+.++++ +++.+|+++||+..
T Consensus       232 V~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr  273 (510)
T 2ck3_A          232 VSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  273 (510)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHH
Confidence                11111111     1223334444 58999999999753

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=87.99  E-value=0.3  Score=50.28  Aligned_cols=28  Identities=25%  Similarity=0.315  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..-.+++|+|+.|+||||+.+.+.....
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCC
Confidence            3457999999999999999999887654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=87.97  E-value=1.1  Score=58.89  Aligned_cols=84  Identities=21%  Similarity=0.347  Sum_probs=55.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC-----chHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD-----EAEYRRASRLYER  256 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~~~  256 (1085)
                      -+++.|+|.+|+||||||.++.......+  ..++|++....++...     ++.++.+...     ....+.+....+.
T Consensus       383 G~lilI~G~pGsGKTtLaLqia~~~a~~G--~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~~~  455 (2050)
T 3cmu_A          383 GRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDA  455 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHHHTTT--CCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHhcC--CeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHHHH
Confidence            46999999999999999999988776432  3588998888776542     5666654321     1112222222222


Q ss_pred             H-HcCCcEEEEEeCCCC
Q 037935          257 L-KNENKILVILDNIWK  272 (1085)
Q Consensus       257 l-~~~~~~LlvlDdv~~  272 (1085)
                      + .+.+.-+||+|-+..
T Consensus       456 lv~~~~~~lIVIDSL~a  472 (2050)
T 3cmu_A          456 LARSGAVDVIVVDSVAA  472 (2050)
T ss_dssp             HHHHTCCSEEEESCGGG
T ss_pred             HHHhcCCcEEEECCHHH
Confidence            2 245667999998764

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=87.96  E-value=0.3  Score=51.31  Aligned_cols=27  Identities=15%  Similarity=0.198  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..-.+++|+|+.|.|||||++.+..-.
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            345799999999999999999998765

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=87.94  E-value=0.23  Score=51.52  Aligned_cols=26  Identities=19%  Similarity=0.256  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.+.--.
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44799999999999999999997644

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=87.93  E-value=0.23  Score=51.16  Aligned_cols=26  Identities=27%  Similarity=0.314  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.+.--.
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            44699999999999999999997643

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=87.91  E-value=0.35  Score=50.29  Aligned_cols=38  Identities=21%  Similarity=0.420  Sum_probs=29.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      ++|+|.|-||+||||+|..+......++ . .++-|+...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G-~-~VlliD~D~   39 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMG-K-TIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTT-C-CEEEEEECT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCC-C-cEEEEcCCC
Confidence            6788899999999999999998876432 2 456666643

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=87.83  E-value=0.24  Score=50.81  Aligned_cols=26  Identities=31%  Similarity=0.459  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.++--.
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            44699999999999999999987643

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=87.83  E-value=0.3  Score=51.86  Aligned_cols=23  Identities=39%  Similarity=0.559  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .+|.|.|++|+||||+|+.+.+.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=87.82  E-value=0.55  Score=53.17  Aligned_cols=46  Identities=9%  Similarity=-0.053  Sum_probs=34.7

Q ss_pred             ccchHHHHHHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          163 FESRVSTLKSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       163 ~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      -+.|.+..+.+.+...  ..+..+|.+.|+.|+||||+|+.+.+....
T Consensus       374 ~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          374 WFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            3455555666666552  335578999999999999999999999864

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=87.76  E-value=0.36  Score=49.00  Aligned_cols=27  Identities=26%  Similarity=0.311  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+|+|+|+.|+||||+++.+.....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~lg   41 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDFG   41 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            456899999999999999999988654

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=87.74  E-value=0.24  Score=50.53  Aligned_cols=25  Identities=32%  Similarity=0.476  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      -.+++|+|..|+|||||.+.+.--.
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4689999999999999999987643

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=87.72  E-value=0.38  Score=50.65  Aligned_cols=39  Identities=26%  Similarity=0.442  Sum_probs=29.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      .++|+|.|-||+||||+|..+......++ . .++-|+...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~~G-~-rVlliD~D~   40 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAEMG-K-KVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHTT-C-CEEEEEECS
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHHCC-C-eEEEEecCC
Confidence            47889999999999999999988776432 2 355666654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=87.61  E-value=0.39  Score=47.51  Aligned_cols=37  Identities=16%  Similarity=0.063  Sum_probs=26.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      .|.+.|.||+||||+|..+......+ .++. ..+.+..
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~-G~~V-~v~d~D~   44 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQ-GVRV-MAGVVET   44 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHT-TCCE-EEEECCC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHC-CCCE-EEEEeCC
Confidence            47788999999999999988877654 3443 3445543

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=87.44  E-value=1.2  Score=57.70  Aligned_cols=84  Identities=19%  Similarity=0.266  Sum_probs=60.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC------chHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD------EAEYRRASRLYE  255 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~~~~  255 (1085)
                      -++|-|+|+.|+||||||.++......+  =..++|+.+....++..     ++.+|.+.+.      +.....+.....
T Consensus      1431 g~~iei~g~~~sGkttl~~~~~a~~~~~--g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~~~ 1503 (1706)
T 3cmw_A         1431 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDA 1503 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhc--CCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHHHH
Confidence            3799999999999999999998765543  25689999988888765     7788876432      222333444444


Q ss_pred             HHHcCCcEEEEEeCCCC
Q 037935          256 RLKNENKILVILDNIWK  272 (1085)
Q Consensus       256 ~l~~~~~~LlvlDdv~~  272 (1085)
                      .++++..-+||+|-|..
T Consensus      1504 ~~~s~~~~~vvvDsv~a 1520 (1706)
T 3cmw_A         1504 LARSGAVDVIVVDSVAA 1520 (1706)
T ss_dssp             HHHHTCCSEEEESCSTT
T ss_pred             HHHcCCCCEEEEccHHh
Confidence            45567788999998853

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=87.43  E-value=0.78  Score=45.44  Aligned_cols=43  Identities=21%  Similarity=0.198  Sum_probs=31.8

Q ss_pred             EEEEE-cCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHH
Q 037935          184 IIGVY-GMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKI  229 (1085)
Q Consensus       184 vi~I~-G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  229 (1085)
                      +|+|+ +-||+||||+|..+......++   .++-|+.....+....
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la~~g---~VlliD~D~q~~~~~~   45 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLALQG---ETLLIDGDPNRSATGW   45 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHTTS---CEEEEEECTTCHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHHhcC---CEEEEECCCCCCHHHH
Confidence            67776 6889999999999998887543   5777777665544433

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=87.38  E-value=0.26  Score=51.01  Aligned_cols=25  Identities=32%  Similarity=0.304  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-.+++|+|..|+|||||.+.++--
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4469999999999999999998754

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=87.30  E-value=0.27  Score=51.22  Aligned_cols=26  Identities=31%  Similarity=0.423  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.+.--.
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34689999999999999999997643

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=87.26  E-value=0.26  Score=50.47  Aligned_cols=26  Identities=31%  Similarity=0.445  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||.+.+.--.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999987643

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=87.20  E-value=0.82  Score=45.70  Aligned_cols=54  Identities=22%  Similarity=0.227  Sum_probs=31.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc---cCCCEEEEEEeCCCcCHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK---KLFDRVVFSEVSQTPDIKKIQGEIAEK  236 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~i~~~  236 (1085)
                      -..|.|-|+.|+||||+++.+.+.....   ..+..+ ...-+.....-+.+++++..
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~-~~rep~~t~~g~~ir~~l~~   81 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVV-VTREPGGTRLGETLREILLN   81 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHHHHGGGTCCEE-EEESSSSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhccccceeee-eecCCCCChHHHHHHHHHHc
Confidence            4689999999999999999999987653   035543 33333222233444555443

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=87.13  E-value=0.34  Score=45.86  Aligned_cols=24  Identities=21%  Similarity=0.559  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-.|+|+|.+|+|||||...+...
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            346789999999999999998864

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=87.11  E-value=0.32  Score=45.82  Aligned_cols=22  Identities=32%  Similarity=0.619  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .|+++|.+|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999999864

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=87.05  E-value=0.37  Score=52.28  Aligned_cols=25  Identities=28%  Similarity=0.517  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++|+|.|+.|+||||||..++....
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            6899999999999999999998754

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=87.05  E-value=0.58  Score=52.12  Aligned_cols=96  Identities=17%  Similarity=0.191  Sum_probs=56.6

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHH-HHHHHHHhhccCCCE-EEEEEeCCCc-CHHHHHHHHHHHhCC--------C
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLV-KEFARQAREKKLFDR-VVFSEVSQTP-DIKKIQGEIAEKLGL--------E  240 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa-~~v~~~~~~~~~f~~-~~wv~~~~~~-~~~~~~~~i~~~l~~--------~  240 (1085)
                      .++.+. =.+-..++|+|.+|+|||+|| ..+.+...    -+. ++++-+.+.. .+.++.+++...=..        .
T Consensus       165 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~~~~----~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~at  240 (515)
T 2r9v_A          165 AIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQKG----QGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVAS  240 (515)
T ss_dssp             HHHHHSCEETTCBEEEEEETTSSHHHHHHHHHHTTTT----TTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEEC
T ss_pred             ccccccccccCCEEEEEcCCCCCccHHHHHHHHHhhc----CCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEEC
Confidence            455554 123467899999999999996 46666432    453 5677777654 466677766542211        1


Q ss_pred             CCCchHHH-----HHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          241 LSDEAEYR-----RASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       241 ~~~~~~~~-----~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                      .++.....     ....+.++++ +++.+|+++||+..
T Consensus       241 ad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~DslTr  278 (515)
T 2r9v_A          241 ASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLSK  278 (515)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccHHH
Confidence            11111111     1223334444 58999999999743

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=87.04  E-value=0.44  Score=52.49  Aligned_cols=25  Identities=24%  Similarity=0.412  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      ....+++|+|..|+|||||.+.+..
T Consensus        67 ~~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           67 SSVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             HCCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHhC
Confidence            3557999999999999999999987

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=87.03  E-value=0.67  Score=50.40  Aligned_cols=27  Identities=22%  Similarity=0.062  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ....+++|+|+.|+|||||++.+....
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            345799999999999999999999754

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=86.91  E-value=0.35  Score=47.07  Aligned_cols=23  Identities=30%  Similarity=0.564  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -.|+|+|.+|+|||||+..+...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46789999999999999999864

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=86.80  E-value=0.31  Score=51.01  Aligned_cols=26  Identities=27%  Similarity=0.359  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -.++.|+|.+|+|||||+..+.....
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            47999999999999999999887554

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=86.76  E-value=0.33  Score=46.78  Aligned_cols=25  Identities=20%  Similarity=0.279  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      -+.|.|.|..|+||||||..+....
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            3678999999999999999997753

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=86.71  E-value=0.59  Score=52.04  Aligned_cols=95  Identities=15%  Similarity=0.160  Sum_probs=56.8

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHH-HHHHHHhhccCCCE-EEEEEeCCCc-CHHHHHHHHHHHhCCCC-------
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVK-EFARQAREKKLFDR-VVFSEVSQTP-DIKKIQGEIAEKLGLEL-------  241 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~-~v~~~~~~~~~f~~-~~wv~~~~~~-~~~~~~~~i~~~l~~~~-------  241 (1085)
                      .++.+. =.+-..++|+|.+|+|||+||. .+.+..    +-+. ++++-+.+.. .+.++.+++...-....       
T Consensus       152 aID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~at  227 (502)
T 2qe7_A          152 AIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQK----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTAS  227 (502)
T ss_dssp             HHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGG----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEEC
T ss_pred             ecccccccccCCEEEEECCCCCCchHHHHHHHHHhh----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEEC
Confidence            455554 1334678999999999999964 666643    2453 5677777654 46667777665322211       


Q ss_pred             CCch-HHH-----HHHHHHHHHH-cCCcEEEEEeCCC
Q 037935          242 SDEA-EYR-----RASRLYERLK-NENKILVILDNIW  271 (1085)
Q Consensus       242 ~~~~-~~~-----~~~~~~~~l~-~~~~~LlvlDdv~  271 (1085)
                      .+++ ...     ....+-++++ +++.+|+++||+.
T Consensus       228 ad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dslt  264 (502)
T 2qe7_A          228 ASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLS  264 (502)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence            1111 111     1123334444 5899999999974

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=86.71  E-value=0.28  Score=54.56  Aligned_cols=37  Identities=24%  Similarity=0.400  Sum_probs=27.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV  220 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~  220 (1085)
                      .++|+|+|.+|+||||++..+......++ + .++.|+.
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G-~-kVllv~~  135 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRG-L-KPALIAA  135 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHH-C-CEEEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcC-C-eEEEEec
Confidence            46999999999999999999888765432 2 2444544

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=86.68  E-value=0.39  Score=45.22  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      |+|+|.+|+|||||...+....
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999997653

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=86.62  E-value=1.9  Score=49.47  Aligned_cols=56  Identities=14%  Similarity=0.105  Sum_probs=39.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHH-hCCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEK-LGLE  240 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~-l~~~  240 (1085)
                      -.++.|.|.+|+||||+|.++..+...+.. ..++|++..  .+..++...++.. .+.+
T Consensus       242 G~l~li~G~pG~GKT~lal~~a~~~a~~~g-~~vl~~s~E--~s~~~l~~r~~~~~~~~~  298 (503)
T 1q57_A          242 GEVIMVTSGSGMVMSTFVRQQALQWGTAMG-KKVGLAMLE--ESVEETAEDLIGLHNRVR  298 (503)
T ss_dssp             TCEEEEEESSCHHHHHHHHHHHHHHTTTSC-CCEEEEESS--SCHHHHHHHHHHHHTTSC
T ss_pred             CeEEEEeecCCCCchHHHHHHHHHHHHhcC-CcEEEEecc--CCHHHHHHHHHHHHcCCC
Confidence            368899999999999999999887764311 247777664  4566777766543 3443

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=86.61  E-value=0.2  Score=58.69  Aligned_cols=45  Identities=18%  Similarity=0.124  Sum_probs=31.6

Q ss_pred             cccchHHHHHHHHHHhccCCce-----------EEEEEcCCCCcHHHHHHHHHHHH
Q 037935          162 AFESRVSTLKSIQNALTDVNVS-----------IIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~~~~~~-----------vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .++|.+..++.+.-.+..+..+           -|.++|.+|+|||+||+.+++..
T Consensus       296 ~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          296 SIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             TTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             hhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            3567776655554444433211           58899999999999999998754

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=86.60  E-value=0.36  Score=50.04  Aligned_cols=24  Identities=38%  Similarity=0.524  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++|+|..|+|||||.+.++....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            589999999999999999998654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=86.59  E-value=0.42  Score=46.31  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      ..|+|+|.+|+|||||...+...
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999763

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=86.57  E-value=1.2  Score=50.37  Aligned_cols=43  Identities=19%  Similarity=0.280  Sum_probs=31.7

Q ss_pred             hHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          166 RVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       166 r~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ....++.+...+.+++ +.+.|.|.+|+||||++..+.......
T Consensus        30 Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~~   72 (459)
T 3upu_A           30 QKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALIST   72 (459)
T ss_dssp             HHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHhc
Confidence            3344555555555433 489999999999999999999887654

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=86.38  E-value=0.42  Score=47.21  Aligned_cols=27  Identities=26%  Similarity=0.348  Sum_probs=20.9

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      ..+.-.|+|+|.+|+|||||...+...
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhC
Confidence            344457789999999999999988864

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=86.32  E-value=0.39  Score=46.50  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .--|+|+|.+|+|||||...+...
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999888764

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=86.29  E-value=0.4  Score=45.28  Aligned_cols=22  Identities=36%  Similarity=0.694  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+|+|.+|+|||||...+...
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5789999999999999999874

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=86.29  E-value=0.62  Score=45.09  Aligned_cols=34  Identities=24%  Similarity=0.352  Sum_probs=25.9

Q ss_pred             HHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          171 KSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       171 ~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .++.+ +.......|+|+|.+|+|||||...+...
T Consensus         6 ~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            6 TRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            34555 33455678899999999999999998753

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=86.24  E-value=0.28  Score=51.66  Aligned_cols=27  Identities=22%  Similarity=0.363  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..-.+++|+|..|.|||||++.+..-.
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            345799999999999999999987643

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=86.24  E-value=0.4  Score=45.25  Aligned_cols=24  Identities=29%  Similarity=0.545  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-|+|+|.+|+|||||...+....
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            468899999999999999988643

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=86.23  E-value=0.46  Score=48.42  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...|+|.|..|+||||+++.+.+...
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            36799999999999999999998763

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=86.19  E-value=0.38  Score=45.91  Aligned_cols=24  Identities=33%  Similarity=0.499  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .--|+|+|.+|+|||||...+...
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            346899999999999999988753

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=86.11  E-value=0.34  Score=49.86  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -.+++|+|..|+|||||.+.++--
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999998754

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=86.07  E-value=0.41  Score=45.38  Aligned_cols=23  Identities=30%  Similarity=0.511  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -.|+|+|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46889999999999999998864

---

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	1085
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-25
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	3e-05
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	4e-05
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	9e-05
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	0.002
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	1e-04
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	4e-04
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.001
d2i3ba1	189	c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57	0.001
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	0.003

>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 =  105 bits (262), Expect = 2e-25
 Identities = 30/248 (12%), Positives = 73/248 (29%), Gaps = 33/248 (13%)

Query: 164 ESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQARE--KKLFDRVVFSEVS 221
           E  V  +    + + D++   + ++G  G GK+ +  +   ++ +     +D +V+ + S
Sbjct: 26  EYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDS 85

Query: 222 QTPDIKKIQGEIAEKLGLELSD----------EAEYRRASRLYERLKNENKILVILDNIW 271
            T             L L+  D                   +   L +    L + D++ 
Sbjct: 86  GTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVV 145

Query: 272 KYLDLDTIGIPFGN--------------DHEGYNFLIGNLSEEEAWRLFKIMNGDDVENC 317
           +   +                               + +L  +E +   +          
Sbjct: 146 QEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGE 205

Query: 318 KFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSVVNFEGVPAETYSS 377
           K +       +   G P  L    ++   K+  +      +L++  +V  E +       
Sbjct: 206 KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECI------- 258

Query: 378 IELSFKYL 385
              S+K L
Sbjct: 259 TPYSYKSL 266

>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 = 45.1 bits (105), Expect = 3e-05
 Identities = 21/228 (9%), Positives = 64/228 (28%), Gaps = 23/228 (10%)

Query: 541 KKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCS 600
           + +      R  +    +      +++ +DL++ +     +  ILS  ++L+ L +    
Sbjct: 23  QGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLR 82

Query: 601 IKWEVRKGNSERSNASLDELMHLQRLTTLE-IDVEDDSILPDGLFTKKLERFDISIGDGS 659
           +        S+    +L +  +L RL         + ++        +L+  ++S     
Sbjct: 83  L--------SDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDF 134

Query: 660 FDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQS------ 713
            +    +          Q           + +   +           +            
Sbjct: 135 TEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQ 194

Query: 714 -------LTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEI 754
                  L  L +  C  +    +   +  +  L+ L++        +
Sbjct: 195 EFFQLNYLQHLSLSRCYDIIPE-TLLELGEIPTLKTLQVFGIVPDGTL 241

>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 = 44.3 bits (103), Expect = 4e-05
 Identities = 33/262 (12%), Positives = 65/262 (24%), Gaps = 27/262 (10%)

Query: 543 LRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIK 602
              V+  +  L +LP  +       +L L++   L       L  +TRL +L +    + 
Sbjct: 12  HLEVNCDKRNLTALPPDLP--KDTTILHLSEN-LLYTFSLATLMPYTRLTQLNLDRAELT 68

Query: 603 WEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDS 662
                G        L  L  L         +         L    +    ++        
Sbjct: 69  KLQVDGT-------LPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALR 121

Query: 663 TKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGC 722
                 + +   N        ++              +  +LPA +     L  L     
Sbjct: 122 GLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL--LNGLENLDTLLL 179

Query: 723 DKLKYIFSASTIQSLEQLQHLEIR----LC----KSLQEIISENRT------DQVTAYFV 768
            +               L    +     LC       +  + +N          V    +
Sbjct: 180 QENSLYTIPKGFFGSHLLPFAFLHGNPWLCNCEILYFRRWLQDNAENVYVWKQGVDVKAM 239

Query: 769 FPRVTTLKLDGLPELRCL-YPG 789
              V +++ D   +     YPG
Sbjct: 240 TSNVASVQCDNSDKFPVYKYPG 261

>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 = 43.5 bits (101), Expect = 9e-05
 Identities = 45/343 (13%), Positives = 83/343 (24%), Gaps = 68/343 (19%)

Query: 543 LRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIK 602
           LRVV  + + L  +P  +       +LDL +  ++  I      +   L  L + +  I 
Sbjct: 12  LRVVQCSDLGLEKVPKDLP--PDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNKIS 68

Query: 603 WEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDS 662
                               L +L  L +       LP+ +     E             
Sbjct: 69  KISP-----------GAFAPLVKLERLYLSKNQLKELPEKMPKTLQEL---------RVH 108

Query: 663 TKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGC 722
              I       FN  +  I   +                         FQ + +L     
Sbjct: 109 ENEITKVRKSVFNGLNQMIVVELG-----------TNPLKSSGIENGAFQGMKKLSYIRI 157

Query: 723 DKLKYIFSASTIQSLEQLQHLEIRLCKSLQEI-ISENRTDQVTAYFVFPRVTTLKLDGLP 781
                        +   +  +   L  SL E+ +  N   ++T            L  L 
Sbjct: 158 -------------ADTNITTIPQGLPPSLTELHLDGN---KITKVDAASLKGLNNLAKLG 201

Query: 782 ELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGL 841
                   +         +L   + +   L +                        ++ +
Sbjct: 202 LSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLAD--------------HKYIQVV 247

Query: 842 ALSGKDITMILQDDF-PQHLFGSLKQLRVGDDDLACFPLDLLE 883
            L   +I+ I  +DF P                L   P+   E
Sbjct: 248 YLHNNNISAIGSNDFCPPGYNTKKASYSG--VSLFSNPVQYWE 288

>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 = 39.3 bits (90), Expect = 0.002
 Identities = 30/175 (17%), Positives = 53/175 (30%), Gaps = 22/175 (12%)

Query: 834  ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYL 893
            + P+   L L    IT I   DF      +L  L + ++ ++            LE LYL
Sbjct: 29   LPPDTALLDLQNNKITEIKDGDFKN--LKNLHTLILINNKISKISPGAFAPLVKLERLYL 86

Query: 894  SDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVL 953
            S                   +L  +       L  L+      +K    +F  L  + V+
Sbjct: 87   SKN-----------------QLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVV 129

Query: 954  HCQN-LLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKSLERLVSLRIFGCP 1007
                  L      + +F+ + +L           +T+        L  L + G  
Sbjct: 130  ELGTNPLKSSGIENGAFQGMKKLSYIRIA--DTNITTIPQGLPPSLTELHLDGNK 182

>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 = 51/350 (14%), Positives = 104/350 (29%), Gaps = 36/350 (10%)

Query: 541 KKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCS 600
           ++   ++L  + L SLP     L  L       C  L  + P +  S   L        +
Sbjct: 38  RQAHELELNNLGLSSLPELPPHLESLVA----SCNSLTEL-PELPQSLKSLLVDNNNLKA 92

Query: 601 IKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSF 660
           +            + +  E +   + ++    ++ D+     L         I+ G+   
Sbjct: 93  LSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQL 152

Query: 661 DSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVW 720
           +    + N  F T           +  L L+  ++    +  +    +     LT +   
Sbjct: 153 EELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYAD 212

Query: 721 GCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTLKLDGL 780
                       ++++L    +    L +  Q +   + ++ + +           L+  
Sbjct: 213 NNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNAS 272

Query: 781 PELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEG 840
                          P+L+ L         +S N             L     + P LE 
Sbjct: 273 SNEIR----SLCDLPPSLEEL--------NVSNN------------KLIELPALPPRLER 308

Query: 841 LALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEF 890
           L  S   +  +        L  +LKQL V  + L  FP D+ E   +L  
Sbjct: 309 LIASFNHLAEV------PELPQNLKQLHVEYNPLREFP-DIPESVEDLRM 351

>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 = 41.9 bits (97), Expect = 4e-04
 Identities = 49/366 (13%), Positives = 113/366 (30%), Gaps = 36/366 (9%)

Query: 540 MKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSC 599
           + ++  +   R+ + S+   +  L  L  ++ ++  QL  I P  L + T+L ++ M + 
Sbjct: 43  LDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNN-QLTDITP--LKNLTKLVDILMNNN 98

Query: 600 SIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI------LPDGLFTKKLERFDI 653
            I       N             +  +  L+     + +      + D      L     
Sbjct: 99  QIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQ 158

Query: 654 SIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPC--F 711
                     K + N         S      +  L         I   NQ+  + P    
Sbjct: 159 LSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLGIL 218

Query: 712 QSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQEIISENRTDQVTAYFVFPR 771
            +L  L + G      +    T+ SL  L  L++   + +  +   +   ++T      +
Sbjct: 219 TNLDELSLNGN----QLKDIGTLASLTNLTDLDLANNQ-ISNLAPLSGLTKLTEL----K 269

Query: 772 VTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQND--ENDQFGVPAQQPLF 829
           +   ++  +  L  L    +          ++   +   L+      N+   +    P+ 
Sbjct: 270 LGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDIS---PVS 326

Query: 830 SFKKILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLE 889
           S    L  L+ L  +   ++ +           ++  L  G + ++      L     + 
Sbjct: 327 S----LTKLQRLFFANNKVSDV--SSLAN--LTNINWLSAGHNQISDLTP--LANLTRIT 376

Query: 890 FLYLSD 895
            L L+D
Sbjct: 377 QLGLND 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 = 40.0 bits (92), Expect = 0.001
 Identities = 19/106 (17%), Positives = 36/106 (33%), Gaps = 10/106 (9%)

Query: 497 ISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKG------MKKLRVVDLTR 550
             L   +        E    +   I        L +  N          + KL+ +    
Sbjct: 279 SPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFAN 338

Query: 551 VRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYM 596
            ++ S  SS+  LT +  L      Q+  + P  L++ TR+ +L +
Sbjct: 339 NKV-SDVSSLANLTNINWLSAGHN-QISDLTP--LANLTRITQLGL 380

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]} Length = 189

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]

 Score = 39.2 bits (90), Expect = 0.001
 Identities = 19/185 (10%), Positives = 46/185 (24%), Gaps = 20/185 (10%)

Query: 184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD 243
            + + G  G+GKTTL+ + +   +   +     +     T ++++    I   +      
Sbjct: 3   HVFLTGPPGVGKTTLIHKASEVLKSSGVPVDGFY-----TEEVRQGGRRIGFDVVTLSGT 57

Query: 244 EAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLIGNLSEEEAW 303
                R                        +DL +            +   G        
Sbjct: 58  RGPLSRVGL------EPPPGKRECRVGQYVVDLTSFEQLALPVLRNADCSSG-------- 103

Query: 304 RLFKIMNGDDVENCKFK-PTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTP 362
              ++   D++   +      I   +     P  +      +           +R  +  
Sbjct: 104 PGQRVCVIDEIGKMELFSQLFIQAVRQTLSTPGTIILGTIPVPKGKPLALVEEIRNRKDV 163

Query: 363 SVVNF 367
            V N 
Sbjct: 164 KVFNV 168

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 242

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]

 Score = 38.4 bits (87), Expect = 0.003
 Identities = 30/160 (18%), Positives = 52/160 (32%), Gaps = 1/160 (0%)

Query: 419 FHGVNKMEDARNKLYALVHELRDCCLLLEGDRNETFYMHDVVCDVAVSIACRDQHVFLVR 478
                ++E A N LY      ++   L     + T   H        S+      +    
Sbjct: 79  KLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNI 138

Query: 479 NDAVWEWPDGDALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFK 538
           N    E      L     I  LN +  +          +   ++         +P++ F 
Sbjct: 139 NIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFH 198

Query: 539 GMKKLRVVDLTRVRLFSLPSSI-GQLTKLRMLDLTDCLQL 577
           G     ++D++R R+ SLPS     L KLR     +  +L
Sbjct: 199 GASGPVILDISRTRIHSLPSYGLENLKKLRARSTYNLKKL 238

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	1085
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.81
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.81
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.73
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.69
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.68
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.66
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.62
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.58
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.57
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.56
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.55
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.55
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.44
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.41
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.41
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.4
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.38
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.35
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.35
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.33
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.32
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.31
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.3
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.29
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.26
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.18
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.17
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.08
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.05
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.97
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.97
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.97
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.89
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.84
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.6
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.59
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.57
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.35
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.31
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.29
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.16
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.15
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.12
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.12
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.08
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.03
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.94
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.91
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.74
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.73
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.73
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.68
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.61
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.58
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.55
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.54
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.43
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.19
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.13
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.76
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.39
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.23
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.13
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	96.05
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.04
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.0
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	95.97
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	95.93
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	95.87
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.86
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	95.75
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	95.74
d1okkd2	207	GTPase domain of the signal recognition particle r	95.68
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	95.68
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.42
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.4
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.39
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.39
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	95.37
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.34
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.33
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.32
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.32
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.29
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.22
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.2
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.15
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.09
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.06
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.05
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.03
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	95.01
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	94.97
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	94.78
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	94.75
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.75
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.6
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	94.52
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	94.47
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	94.34
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	94.32
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	94.27
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	94.24
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.07
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	94.02
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	93.88
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	93.87
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.83
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	93.77
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	93.75
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	93.72
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	93.71
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	93.47
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	93.44
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	93.41
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	93.36
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	93.12
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	93.1
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	93.1
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	92.99
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.98
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	92.94
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	92.79
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	92.75
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	92.72
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	92.72
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	92.58
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	92.57
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	92.42
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	92.41
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	92.37
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	92.03
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	91.88
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	91.54
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	91.53
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	91.38
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	91.36
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	91.14
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	91.07
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.88
d1g2912	240	Maltose transport protein MalK, N-terminal domain	90.85
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	90.7
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	90.58
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	90.51
d2awna2	232	Maltose transport protein MalK, N-terminal domain	90.5
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	90.47
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	90.14
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	90.03
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	90.03
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	90.02
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	90.01
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	89.97
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	89.97
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	89.96
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	89.92
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	89.85
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	89.77
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	89.76
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	89.73
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	89.69
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	89.63
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	89.61
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	89.43
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	89.4
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	89.4
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	89.37
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	89.33
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	89.3
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	89.22
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	89.22
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	89.21
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	89.2
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	89.12
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	88.98
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	88.77
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	88.72
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	88.7
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	88.6
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	88.57
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	88.51
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	88.49
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	88.44
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	88.41
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	88.22
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	88.2
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	88.11
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	88.01
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	88.0
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	87.94
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	87.89
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	87.88
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	87.76
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	87.73
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	87.69
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	87.6
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	87.58
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	87.58
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	87.55
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	87.47
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	87.37
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	87.28
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	87.25
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	87.2
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	87.05
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	87.02
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	87.0
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	86.95
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	86.94
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	86.9
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	86.8
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	86.69
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	86.59
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	86.56
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	86.55
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	86.52
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	86.48
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	86.47
d1nrjb_	209	Signal recognition particle receptor beta-subunit	86.46
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	86.36
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	86.34
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	86.26
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	86.18
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	86.16
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	86.05
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	86.02
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	85.93
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	85.82
d2fh5b1	207	Signal recognition particle receptor beta-subunit	85.72
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	85.64
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	85.56
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	85.49
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	85.41
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	85.39
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	85.26
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	85.22
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	85.2
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	85.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	84.87
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	84.86
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	84.81
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	84.76
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	84.69
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	84.67
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	84.41
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	83.56
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	83.08
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	82.92
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	82.75
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	82.72
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	82.65
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	82.17
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	81.88
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	81.82
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	80.97
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	80.6

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=1.4e-34  Score=305.59  Aligned_cols=224  Identities=13%  Similarity=0.099  Sum_probs=178.1

Q ss_pred             CccccchHHHHHHHHHHhc---cCCceEEEEEcCCCCcHHHHHHHHHHHHh--hccCCCEEEEEEeCCCcCHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALT---DVNVSIIGVYGMGGIGKTTLVKEFARQAR--EKKLFDRVVFSEVSQTPDIKKIQGEIA  234 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~G~GKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~~~~~~~~~i~  234 (1085)
                      ...++||+.++++|+++|.   +...++|+|+||||+||||||+++|++..  .+.+|++++||++++.++...+...+.
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~   98 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD   98 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHH
Confidence            3457899999999999985   45678999999999999999999999854  567899999999999998777766664


Q ss_pred             HHh---CCCC-------CCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcccccccccccCCCCCCcEEEe----------
Q 037935          235 EKL---GLEL-------SDEAEYRRASRLYERLKNENKILVILDNIWKYLDLDTIGIPFGNDHEGYNFLI----------  294 (1085)
Q Consensus       235 ~~l---~~~~-------~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~~~~~~~~~~~~~~gs~ilv----------  294 (1085)
                      ..+   +...       ..................++|+|+||||||+..+|+.+.      ..||+|||          
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~~  172 (277)
T d2a5yb3          99 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISNA  172 (277)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGGG
T ss_pred             HHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc------ccCceEEEEeehHHHHHh
Confidence            433   2211       111222223334444446899999999999998876542      23667776          


Q ss_pred             ----------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHHHHHHHHHhcCCHHHHHHHHHHhcCCCC
Q 037935          295 ----------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIALTTVARALRNKSLHEWKNALRELQTPSV  364 (1085)
Q Consensus       295 ----------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~~~  364 (1085)
                                ++|+.+|||+||..+++.....+..++++++|+++|+|+|||++++|+.++.++.+.|....+.+.... 
T Consensus       173 ~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~-  251 (277)
T d2a5yb3         173 ASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRG-  251 (277)
T ss_dssp             CCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHC-
T ss_pred             cCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCc-
Confidence                      899999999999999986666666788999999999999999999999999999999999888875432 


Q ss_pred             CCCCCCcccchhhHHHHHhcCChHHHHHHHHhc
Q 037935          365 VNFEGVPAETYSSIELSFKYLKGEQLKKIFLLC  397 (1085)
Q Consensus       365 ~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~  397 (1085)
                            ..++..++.+||++||+ ++|.||.++
T Consensus       252 ------~~~v~~il~~sY~~L~~-~lk~c~~~l  277 (277)
T d2a5yb3         252 ------LVGVECITPYSYKSLAM-ALQRCVEVL  277 (277)
T ss_dssp             ------SSTTCCCSSSSSSSHHH-HHHHHHHTS
T ss_pred             ------HHHHHHHHHHHHhcccH-HHHHHHHhC
Confidence                  35688999999999997 799999874

>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=99.81  E-value=9e-19  Score=196.58  Aligned_cols=144  Identities=19%  Similarity=0.240  Sum_probs=77.7

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCcccccccc
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARK  914 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~  914 (1085)
                      +++|+.|++++|.+++..+  +..  +++|++|+++++.++.+++  +..++.++.+.+++|.++.+.        .+..
T Consensus       240 l~~L~~L~l~~n~l~~~~~--~~~--~~~L~~L~l~~~~l~~~~~--~~~~~~l~~l~~~~n~l~~~~--------~~~~  305 (384)
T d2omza2         240 LTNLTDLDLANNQISNLAP--LSG--LTKLTELKLGANQISNISP--LAGLTALTNLELNENQLEDIS--------PISN  305 (384)
T ss_dssp             CTTCSEEECCSSCCCCCGG--GTT--CTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCSCCG--------GGGG
T ss_pred             ccccchhccccCccCCCCc--ccc--cccCCEeeccCcccCCCCc--ccccccccccccccccccccc--------ccch
Confidence            4455555555555444322  111  3455555555555554432  334555555555555544321        1233


Q ss_pred             ccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccccCcccccchhhhhh
Q 037935          915 LALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFACKKLMNLLTSSKAKS  994 (1085)
Q Consensus       915 l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~~~~  994 (1085)
                      +++++.|++++ ++++.++.      ...+++|+.|++++| .++.+.  .+..+++|++|++++| ++++++   .+.+
T Consensus       306 ~~~l~~L~ls~-n~l~~l~~------l~~l~~L~~L~L~~n-~l~~l~--~l~~l~~L~~L~l~~N-~l~~l~---~l~~  371 (384)
T d2omza2         306 LKNLTYLTLYF-NNISDISP------VSSLTKLQRLFFANN-KVSDVS--SLANLTNINWLSAGHN-QISDLT---PLAN  371 (384)
T ss_dssp             CTTCSEEECCS-SCCSCCGG------GGGCTTCCEEECCSS-CCCCCG--GGGGCTTCCEEECCSS-CCCBCG---GGTT
T ss_pred             hcccCeEECCC-CCCCCCcc------cccCCCCCEEECCCC-CCCCCh--hHcCCCCCCEEECCCC-cCCCCh---hhcc
Confidence            44555555554 23443321      124567777777776 555442  3677788888888664 577663   2677


Q ss_pred             cccccEEEEcCC
Q 037935          995 LERLVSLRIFGC 1006 (1085)
Q Consensus       995 l~~L~~L~i~~c 1006 (1085)
                      +++|++|+|+++
T Consensus       372 l~~L~~L~L~~N  383 (384)
T d2omza2         372 LTRITQLGLNDQ  383 (384)
T ss_dssp             CTTCSEEECCCE
T ss_pred             CCCCCEeeCCCC
Confidence            888888888764

>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=99.81  E-value=1.3e-18  Score=195.34  Aligned_cols=341  Identities=18%  Similarity=0.205  Sum_probs=169.4

Q ss_pred             CCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCC
Q 037935          513 CPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLE  592 (1085)
Q Consensus       513 ~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~  592 (1085)
                      +.+|++|.+.++.   +..+..  +..+++|++|++++|+|+.+|. ++++++|++|++++| .+..+++  ++++++|+
T Consensus        43 l~~l~~L~l~~~~---I~~l~g--l~~L~nL~~L~Ls~N~l~~l~~-l~~L~~L~~L~L~~n-~i~~i~~--l~~l~~L~  113 (384)
T d2omza2          43 LDQVTTLQADRLG---IKSIDG--VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNN-QIADITP--LANLTNLT  113 (384)
T ss_dssp             HTTCCEEECCSSC---CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG--GTTCTTCC
T ss_pred             hCCCCEEECCCCC---CCCccc--cccCCCCCEEeCcCCcCCCCcc-ccCCccccccccccc-ccccccc--cccccccc
Confidence            4566677776665   444432  5667777777777777777763 777777777777777 6776665  57777777


Q ss_pred             EEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcccccccceeeEEecCCCccccccccccccc
Q 037935          593 ELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQ  672 (1085)
Q Consensus       593 ~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~~~~~  672 (1085)
                      .|++.++.+..             .........+..+....+.+..+...................              
T Consensus       114 ~L~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~--------------  166 (384)
T d2omza2         114 GLTLFNNQITD-------------IDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVT--------------  166 (384)
T ss_dssp             EEECCSSCCCC-------------CGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCC--------------
T ss_pred             ccccccccccc-------------cccccccccccccccccccccccccccccccccccccccccc--------------
Confidence            77777766521             112334445555555555443332221111111100000000              


Q ss_pred             ccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccccEEEeccccchH
Q 037935          673 TFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQLQHLEIRLCKSLQ  752 (1085)
Q Consensus       673 ~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~  752 (1085)
                        .     ...+...........  .......+.....++++..+.+++|. +..+++   ....++|+.|++++|. +.
T Consensus       167 --~-----~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~l~l~~n~-i~~~~~---~~~~~~L~~L~l~~n~-l~  232 (384)
T d2omza2         167 --D-----LKPLANLTTLERLDI--SSNKVSDISVLAKLTNLESLIATNNQ-ISDITP---LGILTNLDELSLNGNQ-LK  232 (384)
T ss_dssp             --C-----CGGGTTCTTCCEEEC--CSSCCCCCGGGGGCTTCSEEECCSSC-CCCCGG---GGGCTTCCEEECCSSC-CC
T ss_pred             --h-----hhhhccccccccccc--cccccccccccccccccceeeccCCc-cCCCCc---ccccCCCCEEECCCCC-CC
Confidence              0     000000000000000  00001122234455666677766653 333322   4555666666666664 21


Q ss_pred             HHhccCCcccccccccCCcccEEecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCccccc
Q 037935          753 EIISENRTDQVTAYFVFPRVTTLKLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFK  832 (1085)
Q Consensus       753 ~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~  832 (1085)
                      .+.         ....+++|+.|.+.++. +.....                                           .
T Consensus       233 ~~~---------~l~~l~~L~~L~l~~n~-l~~~~~-------------------------------------------~  259 (384)
T d2omza2         233 DIG---------TLASLTNLTDLDLANNQ-ISNLAP-------------------------------------------L  259 (384)
T ss_dssp             CCG---------GGGGCTTCSEEECCSSC-CCCCGG-------------------------------------------G
T ss_pred             Ccc---------hhhcccccchhccccCc-cCCCCc-------------------------------------------c
Confidence            111         11134455555554431 111110                                           1


Q ss_pred             ccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEEEecCCcccccc
Q 037935          833 KILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHA  912 (1085)
Q Consensus       833 ~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l  912 (1085)
                      ..+++|+.|++++|.++...+  +..  ++.++.++++.|.++.++  .+..+++++.|++++|.++++.+        +
T Consensus       260 ~~~~~L~~L~l~~~~l~~~~~--~~~--~~~l~~l~~~~n~l~~~~--~~~~~~~l~~L~ls~n~l~~l~~--------l  325 (384)
T d2omza2         260 SGLTKLTELKLGANQISNISP--LAG--LTALTNLELNENQLEDIS--PISNLKNLTYLTLYFNNISDISP--------V  325 (384)
T ss_dssp             TTCTTCSEEECCSSCCCCCGG--GTT--CTTCSEEECCSSCCSCCG--GGGGCTTCSEEECCSSCCSCCGG--------G
T ss_pred             cccccCCEeeccCcccCCCCc--ccc--cccccccccccccccccc--ccchhcccCeEECCCCCCCCCcc--------c
Confidence            224555666666555544332  111  455566666655555543  23455666666666666554321        3


Q ss_pred             ccccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccccccccCCCCcccccCccEEEeccc
Q 037935          913 RKLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQNLLSLLPSSSVSFRNLTRLETFAC  980 (1085)
Q Consensus       913 ~~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~l~~l~~L~~L~l~~c  980 (1085)
                      ..+++|+.|++++| .++.++.  +    ..+++|+.|++++| ++.+++|  +.++++|+.|+|+++
T Consensus       326 ~~l~~L~~L~L~~n-~l~~l~~--l----~~l~~L~~L~l~~N-~l~~l~~--l~~l~~L~~L~L~~N  383 (384)
T d2omza2         326 SSLTKLQRLFFANN-KVSDVSS--L----ANLTNINWLSAGHN-QISDLTP--LANLTRITQLGLNDQ  383 (384)
T ss_dssp             GGCTTCCEEECCSS-CCCCCGG--G----GGCTTCCEEECCSS-CCCBCGG--GTTCTTCSEEECCCE
T ss_pred             ccCCCCCEEECCCC-CCCCChh--H----cCCCCCCEEECCCC-cCCCChh--hccCCCCCEeeCCCC
Confidence            34556666666653 4544431  1    24577777777766 5655543  677788888888763

>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=99.73  E-value=3.6e-17  Score=176.29  Aligned_cols=65  Identities=22%  Similarity=0.316  Sum_probs=42.5

Q ss_pred             cCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccccEE
Q 037935          834 ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYEVV  901 (1085)
Q Consensus       834 ~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~  901 (1085)
                      .++.++.|++++|.+.++.+..+..  +++|++|++++|+++.+|. .+..+++|+.|++++|+++.+
T Consensus       193 ~~~~l~~L~~s~n~l~~~~~~~~~~--l~~L~~L~L~~N~L~~lp~-~l~~l~~L~~L~Ls~N~i~~i  257 (305)
T d1xkua_         193 GLNNLAKLGLSFNSISAVDNGSLAN--TPHLRELHLNNNKLVKVPG-GLADHKYIQVVYLHNNNISAI  257 (305)
T ss_dssp             TCTTCCEEECCSSCCCEECTTTGGG--STTCCEEECCSSCCSSCCT-TTTTCSSCCEEECCSSCCCCC
T ss_pred             ccccccccccccccccccccccccc--cccceeeeccccccccccc-ccccccCCCEEECCCCccCcc
Confidence            3566667777777766665555544  5677777777777776664 455677777777777776554

>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=99.69  E-value=6.8e-16  Score=166.12  Aligned_cols=64  Identities=8%  Similarity=0.137  Sum_probs=39.6

Q ss_pred             ccCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHH------hhccccceEEeeccccc
Q 037935          833 KILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLL------ERFHNLEFLYLSDCSYE  899 (1085)
Q Consensus       833 ~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~------~~l~~L~~L~l~~~~l~  899 (1085)
                      ..+++|++|++++|.++.++. .+..  +++|++|++++|+|+.++...|      ..+++|+.|++++|++.
T Consensus       216 ~~l~~L~~L~L~~N~L~~lp~-~l~~--l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~~  285 (305)
T d1xkua_         216 ANTPHLRELHLNNNKLVKVPG-GLAD--HKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ  285 (305)
T ss_dssp             GGSTTCCEEECCSSCCSSCCT-TTTT--CSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSC
T ss_pred             cccccceeeeccccccccccc-cccc--ccCCCEEECCCCccCccChhhccCcchhcccCCCCEEECCCCcCc
Confidence            345667777777776665533 3333  5677777777777766654332      34567777777777753

>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=99.68  E-value=4e-17  Score=176.60  Aligned_cols=109  Identities=19%  Similarity=0.263  Sum_probs=75.2

Q ss_pred             CcceeeeccCCCccccccChhhhcCCCcceEEEecC-Cccc-CCchhhhccccccEEeccCcccccccchhhhhccccCC
Q 037935          515 QLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTR-VRLF-SLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLE  592 (1085)
Q Consensus       515 ~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~-~~i~-~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~  592 (1085)
                      +++.|++.++.......+|+. +.++++|++|+|++ |++. .+|.+|++|++|++|+|++| ++..+++..+.++.+|+
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~  128 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSS-LANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHT-NVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGG-GGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEE-CCEEECCGGGGGCTTCC
T ss_pred             EEEEEECCCCCCCCCCCCChH-HhcCccccccccccccccccccccccccccccchhhhccc-cccccccccccchhhhc
Confidence            566666666653212346654 66788888888875 5665 57888888888888888888 77777666667788888


Q ss_pred             EEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccC
Q 037935          593 ELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDD  636 (1085)
Q Consensus       593 ~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  636 (1085)
                      ++++++|.+           ....+..+.++++|+++++++|.+
T Consensus       129 ~l~l~~N~~-----------~~~~p~~l~~l~~L~~l~l~~n~l  161 (313)
T d1ogqa_         129 TLDFSYNAL-----------SGTLPPSISSLPNLVGITFDGNRI  161 (313)
T ss_dssp             EEECCSSEE-----------ESCCCGGGGGCTTCCEEECCSSCC
T ss_pred             ccccccccc-----------cccCchhhccCcccceeecccccc
Confidence            888887776           233445667777777777766654

>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=99.66  E-value=2.3e-16  Score=170.58  Aligned_cols=250  Identities=19%  Similarity=0.185  Sum_probs=162.0

Q ss_pred             CcceEEEecCCcccC---CchhhhccccccEEeccCccccc-ccchhhhhccccCCEEeccCCCcchhhcccCCcccccc
Q 037935          541 KKLRVVDLTRVRLFS---LPSSIGQLTKLRMLDLTDCLQLK-FIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNAS  616 (1085)
Q Consensus       541 ~~Lr~L~Ls~~~i~~---lp~~i~~L~~L~~L~Ls~~~~l~-~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~  616 (1085)
                      .+++.|+|+++.+..   +|.+|++|++|++|+|++|..+. .+|.++ ++|++|++|+|++|.+.           ...
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~-----------~~~  117 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAI-AKLTQLHYLYITHTNVS-----------GAI  117 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGG-GGCTTCSEEEEEEECCE-----------EEC
T ss_pred             EEEEEEECCCCCCCCCCCCChHHhcCcccccccccccccccccccccc-ccccccchhhhcccccc-----------ccc
Confidence            479999999998874   89999999999999999733665 788884 99999999999999884           334


Q ss_pred             HHHhhcCCCCcEEEEEeccCCCCCCcccccccceeeEEecCCCcccccccccccccccccccceeehhhhhhcccccccc
Q 037935          617 LDELMHLQRLTTLEIDVEDDSILPDGLFTKKLERFDISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVD  696 (1085)
Q Consensus       617 ~~~l~~L~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~  696 (1085)
                      +..+..+.+|+.++++.|...                                                           
T Consensus       118 ~~~~~~~~~L~~l~l~~N~~~-----------------------------------------------------------  138 (313)
T d1ogqa_         118 PDFLSQIKTLVTLDFSYNALS-----------------------------------------------------------  138 (313)
T ss_dssp             CGGGGGCTTCCEEECCSSEEE-----------------------------------------------------------
T ss_pred             cccccchhhhccccccccccc-----------------------------------------------------------
Confidence            455777888888888776432                                                           


Q ss_pred             cccccCCCCCcccccccccEEEEcCCCCCccccchhhHhhcccc-cEEEeccccchHHHhccCCcccccccccCCcccEE
Q 037935          697 EIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSASTIQSLEQL-QHLEIRLCKSLQEIISENRTDQVTAYFVFPRVTTL  775 (1085)
Q Consensus       697 ~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~~~l~~l~~L-~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L  775 (1085)
                           ..+|.++..+++|+.+++++|.....+|  ..+..+..+ +.+.+++|......+.           .+.++   
T Consensus       139 -----~~~p~~l~~l~~L~~l~l~~n~l~~~ip--~~~~~l~~l~~~l~~~~n~l~~~~~~-----------~~~~l---  197 (313)
T d1ogqa_         139 -----GTLPPSISSLPNLVGITFDGNRISGAIP--DSYGSFSKLFTSMTISRNRLTGKIPP-----------TFANL---  197 (313)
T ss_dssp             -----SCCCGGGGGCTTCCEEECCSSCCEEECC--GGGGCCCTTCCEEECCSSEEEEECCG-----------GGGGC---
T ss_pred             -----ccCchhhccCcccceeeccccccccccc--cccccccccccccccccccccccccc-----------ccccc---
Confidence                 1245556677788888888776554542  235555554 6666665541110000           01111   


Q ss_pred             ecCCCCccccccCCCcccCCCcccceeeccCCCcccccCCCCCCCCCCCCCCcccccccCCccceeeeccCCceeeeccc
Q 037935          776 KLDGLPELRCLYPGMHTSEWPALKNLVACNCDKITLSQNDENDQFGVPAQQPLFSFKKILPNLEGLALSGKDITMILQDD  855 (1085)
Q Consensus       776 ~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~ls~n~l~~~~~~~  855 (1085)
                                           .+..+.+.++......+                .....+++|+.+++++|.+....+. 
T Consensus       198 ---------------------~~~~l~l~~~~~~~~~~----------------~~~~~~~~l~~l~~~~~~l~~~~~~-  239 (313)
T d1ogqa_         198 ---------------------NLAFVDLSRNMLEGDAS----------------VLFGSDKNTQKIHLAKNSLAFDLGK-  239 (313)
T ss_dssp             ---------------------CCSEEECCSSEEEECCG----------------GGCCTTSCCSEEECCSSEECCBGGG-
T ss_pred             ---------------------ccccccccccccccccc----------------ccccccccccccccccccccccccc-
Confidence                                 01112222221111111                1123467888888888887655442 


Q ss_pred             CCcCccCCceEEEecCCccc-ccchhHHhhccccceEEeecccccEEEecCCccccccccccccceeccCCccccc
Q 037935          856 FPQHLFGSLKQLRVGDDDLA-CFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARKLALIKRLNLTRLNHLQ  930 (1085)
Q Consensus       856 ~~~~~~~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~l~~L~~L~l~~c~~L~  930 (1085)
                      +..  +++|+.|++++|+++ .+| ..+.++++|+.|++++|++++..|.       +..+++|+.+++.+.+.+.
T Consensus       240 ~~~--~~~L~~L~Ls~N~l~g~iP-~~l~~L~~L~~L~Ls~N~l~g~iP~-------~~~L~~L~~l~l~~N~~l~  305 (313)
T d1ogqa_         240 VGL--SKNLNGLDLRNNRIYGTLP-QGLTQLKFLHSLNVSFNNLCGEIPQ-------GGNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             CCC--CTTCCEEECCSSCCEECCC-GGGGGCTTCCEEECCSSEEEEECCC-------STTGGGSCGGGTCSSSEEE
T ss_pred             ccc--ccccccccCccCeecccCC-hHHhCCCCCCEEECcCCcccccCCC-------cccCCCCCHHHhCCCcccc
Confidence            333  688999999999988 455 4578899999999999998754332       2345667777776654443

>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=99.62  E-value=1.6e-14  Score=159.12  Aligned_cols=95  Identities=19%  Similarity=0.204  Sum_probs=76.9

Q ss_pred             cceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEecc
Q 037935          493 KCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLT  572 (1085)
Q Consensus       493 ~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls  572 (1085)
                      ++++|++++++++.+|+.  .++|++|++++|.   +..+|..    +.+|+.|++++|+++.++. +  .+.|++|+++
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--PPHLESLVASCNS---LTELPEL----PQSLKSLLVDNNNLKALSD-L--PPLLEYLGVS  106 (353)
T ss_dssp             TCSEEECTTSCCSCCCSC--CTTCSEEECCSSC---CSSCCCC----CTTCCEEECCSSCCSCCCS-C--CTTCCEEECC
T ss_pred             CCCEEEeCCCCCCCCCCC--CCCCCEEECCCCC---Ccccccc----hhhhhhhhhhhcccchhhh-h--cccccccccc
Confidence            477899999999988865  4789999999886   6777753    4688999999998887763 1  2469999999


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcc
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIK  602 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~  602 (1085)
                      +| .+..+|.  ++++++|++|+++++.+.
T Consensus       107 ~n-~l~~lp~--~~~l~~L~~L~l~~~~~~  133 (353)
T d1jl5a_         107 NN-QLEKLPE--LQNSSFLKIIDVDNNSLK  133 (353)
T ss_dssp             SS-CCSSCCC--CTTCTTCCEEECCSSCCS
T ss_pred             cc-ccccccc--hhhhccceeecccccccc
Confidence            99 8999986  488999999999988764

>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=99.58  E-value=2.1e-14  Score=158.23  Aligned_cols=100  Identities=22%  Similarity=0.179  Sum_probs=65.0

Q ss_pred             CCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCE
Q 037935          514 PQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEE  593 (1085)
Q Consensus       514 ~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~  593 (1085)
                      .+++.|+++++.   ...+|+    ..++|++|++++|+|+++|..+   .+|+.|++++| .++.++.  +  ..+|++
T Consensus        38 ~~l~~LdLs~~~---L~~lp~----~~~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n-~l~~l~~--l--p~~L~~  102 (353)
T d1jl5a_          38 RQAHELELNNLG---LSSLPE----LPPHLESLVASCNSLTELPELP---QSLKSLLVDNN-NLKALSD--L--PPLLEY  102 (353)
T ss_dssp             HTCSEEECTTSC---CSCCCS----CCTTCSEEECCSSCCSSCCCCC---TTCCEEECCSS-CCSCCCS--C--CTTCCE
T ss_pred             cCCCEEEeCCCC---CCCCCC----CCCCCCEEECCCCCCcccccch---hhhhhhhhhhc-ccchhhh--h--cccccc
Confidence            457777777776   566664    2457778888888887777543   46777777777 6666653  1  135777


Q ss_pred             EeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCC
Q 037935          594 LYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPD  641 (1085)
Q Consensus       594 L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  641 (1085)
                      |++++|.+...             ..++.+++|++|+++++.+...+.
T Consensus       103 L~L~~n~l~~l-------------p~~~~l~~L~~L~l~~~~~~~~~~  137 (353)
T d1jl5a_         103 LGVSNNQLEKL-------------PELQNSSFLKIIDVDNNSLKKLPD  137 (353)
T ss_dssp             EECCSSCCSSC-------------CCCTTCTTCCEEECCSSCCSCCCC
T ss_pred             ccccccccccc-------------cchhhhccceeecccccccccccc
Confidence            88877776321             124567777777777776655443

>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=99.57  E-value=5.4e-15  Score=154.94  Aligned_cols=61  Identities=23%  Similarity=0.404  Sum_probs=44.6

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeecccc
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSY  898 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l  898 (1085)
                      +++|+.+++++|.++.+++..|..  +++|++|++++|+++.+|..++ .+++|+.|++++|++
T Consensus       147 l~~l~~l~l~~N~l~~~~~~~~~~--l~~L~~L~Ls~N~L~~lp~~~~-~~~~L~~L~L~~Np~  207 (266)
T d1p9ag_         147 TPKLEKLSLANNNLTELPAGLLNG--LENLDTLLLQENSLYTIPKGFF-GSHLLPFAFLHGNPW  207 (266)
T ss_dssp             CTTCCEEECTTSCCSCCCTTTTTT--CTTCCEEECCSSCCCCCCTTTT-TTCCCSEEECCSCCB
T ss_pred             cccchhcccccccccccCcccccc--ccccceeecccCCCcccChhHC-CCCCCCEEEecCCCC
Confidence            567777777777777766665654  6788888888888887776543 577888888888774

>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=99.56  E-value=7e-15  Score=154.05  Aligned_cols=193  Identities=18%  Similarity=0.174  Sum_probs=140.4

Q ss_pred             ceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccC
Q 037935          494 CYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       494 ~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~  573 (1085)
                      ...++.++++++.+|..+. +++++|++++|.   +..++...|.++++|++|+|++|+|+.+|. ++.+++|++|+|++
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-KDTTILHLSENL---LYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLDLSH   86 (266)
T ss_dssp             CCEEECTTSCCSSCCSCCC-TTCCEEECTTSC---CSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEECCS
T ss_pred             CeEEEccCCCCCeeCcCcC-cCCCEEECcCCc---CCCcCHHHhhcccccccccccccccccccc-cccccccccccccc
Confidence            4456667777888886553 678999999887   677887788899999999999999988874 57889999999999


Q ss_pred             cccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--ccccccee
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLERF  651 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~L  651 (1085)
                      | .++..+.. +.++++|++|++++|.+..           .....+..+.+++.|.++.|.+..++...  .+.+|+.+
T Consensus        87 N-~l~~~~~~-~~~l~~L~~L~l~~~~~~~-----------~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l  153 (266)
T d1p9ag_          87 N-QLQSLPLL-GQTLPALTVLDVSFNRLTS-----------LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKL  153 (266)
T ss_dssp             S-CCSSCCCC-TTTCTTCCEEECCSSCCCC-----------CCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             c-cccccccc-cccccccccccccccccce-----------eeccccccccccccccccccccceeccccccccccchhc
Confidence            8 88887775 4889999999999888732           23344667888889988888888777654  45556655


Q ss_pred             eEEecCCCcccccccccccccccccccceeehhhhhhcccccccccccccCCCCCcccccccccEEEEcCCCCCccccch
Q 037935          652 DISIGDGSFDSTKIIGNDWFQTFNIQSIYIFCIVMALELNAINVDEIWHYNQLPAMVPCFQSLTRLIVWGCDKLKYIFSA  731 (1085)
Q Consensus       652 ~l~~~~~~~~~~~~l~~~~~~~~~l~~~~l~~~~~~~~L~~l~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~~l~~l~~~  731 (1085)
                      +++.+                                          ......+..+..+++|++|+|++|. ++.+|+ 
T Consensus       154 ~l~~N------------------------------------------~l~~~~~~~~~~l~~L~~L~Ls~N~-L~~lp~-  189 (266)
T d1p9ag_         154 SLANN------------------------------------------NLTELPAGLLNGLENLDTLLLQENS-LYTIPK-  189 (266)
T ss_dssp             ECTTS------------------------------------------CCSCCCTTTTTTCTTCCEEECCSSC-CCCCCT-
T ss_pred             ccccc------------------------------------------cccccCccccccccccceeecccCC-CcccCh-
Confidence            55321                                          1112233456667788888887764 556633 


Q ss_pred             hhHhhcccccEEEecccc
Q 037935          732 STIQSLEQLQHLEIRLCK  749 (1085)
Q Consensus       732 ~~l~~l~~L~~L~l~~~~  749 (1085)
                       .+..+++|+.|++++|+
T Consensus       190 -~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         190 -GFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             -TTTTTCCCSEEECCSCC
T ss_pred             -hHCCCCCCCEEEecCCC
Confidence             35567788888887765

>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=99.55  E-value=1.6e-14  Score=153.14  Aligned_cols=64  Identities=23%  Similarity=0.416  Sum_probs=52.6

Q ss_pred             cCCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeeccccc
Q 037935          834 ILPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCSYE  899 (1085)
Q Consensus       834 ~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~  899 (1085)
                      .+++|+.+++++|.++.+.+..|..  +++|++|+++.|.++.++...+..+++|+.|++++|++.
T Consensus       175 ~l~~L~~l~l~~N~l~~i~~~~f~~--l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l~  238 (284)
T d1ozna_         175 GLHSLDRLLLHQNRVAHVHPHAFRD--LGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWV  238 (284)
T ss_dssp             TCTTCCEEECCSSCCCEECTTTTTT--CTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             cccccchhhhhhccccccChhHhhh--hhhcccccccccccccccccccccccccCEEEecCCCCC
Confidence            3678888888888888777777765  788889999988888888888888889999999888854

>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=99.55  E-value=1.4e-14  Score=153.69  Aligned_cols=143  Identities=19%  Similarity=0.260  Sum_probs=94.3

Q ss_pred             EEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEeccCcc
Q 037935          497 ISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLTDCL  575 (1085)
Q Consensus       497 Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~  575 (1085)
                      +..++.+++.+|..+. +.++.|++++|.   +..+|...|.++++|++|++++|.+..++ ..+..+..++++....+.
T Consensus        16 v~c~~~~L~~iP~~ip-~~~~~L~Ls~N~---i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~   91 (284)
T d1ozna_          16 TSCPQQGLQAVPVGIP-AASQRIFLHGNR---ISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNA   91 (284)
T ss_dssp             EECCSSCCSSCCTTCC-TTCSEEECTTSC---CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCT
T ss_pred             EEcCCCCCCccCCCCC-CCCCEEECcCCc---CCCCCHHHhhcccccccccccccccccccccccccccccccccccccc
Confidence            3444555666665442 567777777776   66777767777777777777777777654 345667777777766555


Q ss_pred             cccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc--cccccceeeE
Q 037935          576 QLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL--FTKKLERFDI  653 (1085)
Q Consensus       576 ~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~--~l~~L~~L~l  653 (1085)
                      .++.+++..|+++++|++|++++|.+.           ......+....+|+.++++.|.++.++...  .+.+|+.|++
T Consensus        92 ~~~~l~~~~~~~l~~L~~L~l~~n~~~-----------~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l  160 (284)
T d1ozna_          92 QLRSVDPATFHGLGRLHTLHLDRCGLQ-----------ELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFL  160 (284)
T ss_dssp             TCCCCCTTTTTTCTTCCEEECTTSCCC-----------CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             ccccccchhhcccccCCEEecCCcccc-----------cccccccchhcccchhhhccccccccChhHhccccchhhccc
Confidence            777776666777777777777777652           222334566677777777777777776543  4556666665


Q ss_pred             E
Q 037935          654 S  654 (1085)
Q Consensus       654 ~  654 (1085)
                      .
T Consensus       161 ~  161 (284)
T d1ozna_         161 H  161 (284)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.44  E-value=4.1e-13  Score=134.47  Aligned_cols=61  Identities=18%  Similarity=0.266  Sum_probs=30.9

Q ss_pred             hcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCc
Q 037935          537 FKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       537 ~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      +..+++|++|++++|.++.++ .++++++|++|++++| .++.+|.  +.++++|+.|++++|.+
T Consensus        64 l~~l~~L~~L~L~~n~i~~l~-~~~~l~~L~~L~l~~n-~i~~l~~--l~~l~~L~~L~l~~~~~  124 (210)
T d1h6ta2          64 IQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDEN-KVKDLSS--LKDLKKLKSLSLEHNGI  124 (210)
T ss_dssp             GGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSS-CCCCGGG--GTTCTTCCEEECTTSCC
T ss_pred             HhhCCCCCEEeCCCccccCcc-ccccCccccccccccc-ccccccc--ccccccccccccccccc
Confidence            344555555555555555544 2445555555555555 4555443  35555555555555543

>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=99.41  E-value=2.2e-13  Score=138.83  Aligned_cols=81  Identities=19%  Similarity=0.230  Sum_probs=42.1

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccC
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL  591 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L  591 (1085)
                      .+.+|+.|.+.++.   +..++.  +.++++|++|++++|.++.++. +.++++|+++++++| .++.++.  +.++++|
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  109 (227)
T d1h6ua2          39 DLDGITTLSAFGTG---VTTIEG--VQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGN-PLKNVSA--IAGLQSI  109 (227)
T ss_dssp             HHHTCCEEECTTSC---CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSC-CCSCCGG--GTTCTTC
T ss_pred             HcCCcCEEECCCCC---CCcchh--HhcCCCCcEeecCCceeecccc-ccccccccccccccc-ccccccc--ccccccc
Confidence            34455555555554   344432  4555555555555555555432 555555555555555 5555443  3555555


Q ss_pred             CEEeccCCCc
Q 037935          592 EELYMGSCSI  601 (1085)
Q Consensus       592 ~~L~L~~~~~  601 (1085)
                      +.++++++..
T Consensus       110 ~~l~l~~~~~  119 (227)
T d1h6ua2         110 KTLDLTSTQI  119 (227)
T ss_dssp             CEEECTTSCC
T ss_pred             cccccccccc
Confidence            5555555543

>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=99.41  E-value=5.4e-13  Score=132.34  Aligned_cols=106  Identities=24%  Similarity=0.293  Sum_probs=65.0

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccC
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRL  591 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L  591 (1085)
                      .++++++|++.++.   +..+..  ++.+++|++|++++|+++.++. ++++++|++|++++| .+..++.  ++++++|
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  108 (199)
T d2omxa2          38 DLDQVTTLQADRLG---IKSIDG--VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNN-QIADITP--LANLTNL  108 (199)
T ss_dssp             HHTTCCEEECTTSC---CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG--GTTCTTC
T ss_pred             HhcCCCEEECCCCC---CCCccc--cccCCCcCcCccccccccCccc-ccCCccccccccccc-ccccccc--ccccccc
Confidence            34566666666665   444432  5566677777777777766653 666777777777776 6666654  4667777


Q ss_pred             CEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC
Q 037935          592 EELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL  639 (1085)
Q Consensus       592 ~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  639 (1085)
                      ++|++++|...             ....+.++++|+.|++++|.+..+
T Consensus       109 ~~L~l~~~~~~-------------~~~~~~~l~~L~~L~l~~n~l~~~  143 (199)
T d2omxa2         109 TGLTLFNNQIT-------------DIDPLKNLTNLNRLELSSNTISDI  143 (199)
T ss_dssp             SEEECCSSCCC-------------CCGGGTTCTTCSEEECCSSCCCCC
T ss_pred             ccccccccccc-------------cccccchhhhhHHhhhhhhhhccc
Confidence            77777666552             112355666666666666655433

>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=99.40  E-value=8.6e-13  Score=130.88  Aligned_cols=128  Identities=20%  Similarity=0.236  Sum_probs=108.5

Q ss_pred             ccccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEE
Q 037935          490 ALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRML  569 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L  569 (1085)
                      ...+++.|++.++.+..+...-.+++|++|++++|.   +..+++  |+++++|++|++++|.+..+| .++++++|++|
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 DLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQ---LTDITP--LKNLTKLVDILMNNNQIADIT-PLANLTNLTGL  111 (199)
T ss_dssp             HHTTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC---CCCCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEE
T ss_pred             HhcCCCEEECCCCCCCCccccccCCCcCcCcccccc---ccCccc--ccCCccccccccccccccccc-ccccccccccc
Confidence            355789999999999988766688999999999987   666665  889999999999999999987 48999999999


Q ss_pred             eccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC
Q 037935          570 DLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL  639 (1085)
Q Consensus       570 ~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  639 (1085)
                      ++++| ....++.  +.++++|+.|++++|.+.             .+..+..+++|+.|++.+|.++.+
T Consensus       112 ~l~~~-~~~~~~~--~~~l~~L~~L~l~~n~l~-------------~~~~l~~~~~L~~L~l~~n~l~~l  165 (199)
T d2omxa2         112 TLFNN-QITDIDP--LKNLTNLNRLELSSNTIS-------------DISALSGLTSLQQLNFSSNQVTDL  165 (199)
T ss_dssp             ECCSS-CCCCCGG--GTTCTTCSEEECCSSCCC-------------CCGGGTTCTTCSEEECCSSCCCCC
T ss_pred             ccccc-ccccccc--cchhhhhHHhhhhhhhhc-------------ccccccccccccccccccccccCC
Confidence            99999 7777664  689999999999999873             223578899999999998876643

>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=99.38  E-value=4.8e-13  Score=133.97  Aligned_cols=125  Identities=26%  Similarity=0.304  Sum_probs=82.8

Q ss_pred             cccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEe
Q 037935          491 LKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLD  570 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~  570 (1085)
                      ...+++|.+.++.+..++..-.+++|++|++++|.   +..+++  +..+++|++|++++|+++.+| .++++++|++|+
T Consensus        45 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~  118 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK---LTDIKP--LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLS  118 (210)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC---CCCCGG--GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEE
T ss_pred             hcCccEEECcCCCCCCchhHhhCCCCCEEeCCCcc---ccCccc--cccCccccccccccccccccc-cccccccccccc
Confidence            44677777777777666654467777777777775   455553  566777777777777777766 467777777777


Q ss_pred             ccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCC
Q 037935          571 LTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDS  637 (1085)
Q Consensus       571 Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~  637 (1085)
                      +++| .+..++.  +..+++|+.+++++|.+.             .+..+.++++|+++++++|.+.
T Consensus       119 l~~~-~~~~~~~--l~~l~~l~~l~~~~n~l~-------------~~~~~~~l~~L~~l~l~~n~l~  169 (210)
T d1h6ta2         119 LEHN-GISDING--LVHLPQLESLYLGNNKIT-------------DITVLSRLTKLDTLSLEDNQIS  169 (210)
T ss_dssp             CTTS-CCCCCGG--GGGCTTCCEEECCSSCCC-------------CCGGGGGCTTCSEEECCSSCCC
T ss_pred             cccc-ccccccc--cccccccccccccccccc-------------cccccccccccccccccccccc
Confidence            7777 6666654  567777777777777652             1223456666777776666544

>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=99.35  E-value=9.9e-13  Score=135.59  Aligned_cols=81  Identities=17%  Similarity=0.103  Sum_probs=54.7

Q ss_pred             CccceeeeccCCceeeecccCCcCccCCceEEE-ecCCcccccchhHHhhccccceEEeecccccEEEecCCcccccccc
Q 037935          836 PNLEGLALSGKDITMILQDDFPQHLFGSLKQLR-VGDDDLACFPLDLLERFHNLEFLYLSDCSYEVVFSNEGYLETHARK  914 (1085)
Q Consensus       836 ~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~-l~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~~~l~~  914 (1085)
                      ..++.|++++|.++.+....+.   .++++++. +++|+++.+|...|.++++|++|++++|+++.++.      ..+..
T Consensus       153 ~~l~~L~l~~n~l~~i~~~~~~---~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~------~~~~~  223 (242)
T d1xwdc1         153 FESVILWLNKNGIQEIHNCAFN---GTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPS------YGLEN  223 (242)
T ss_dssp             SSCEEEECCSSCCCEECTTTTT---TCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSCCCCCCS------SSCTT
T ss_pred             ccceeeeccccccccccccccc---chhhhccccccccccccccHHHhcCCCCCCEEECCCCcCCccCH------HHHcC
Confidence            4677778888887776665554   35555554 45788888888778888999999999988776532      22444


Q ss_pred             ccccceeccCC
Q 037935          915 LALIKRLNLTR  925 (1085)
Q Consensus       915 l~~L~~L~l~~  925 (1085)
                      ++.|+.+++.+
T Consensus       224 l~~L~~l~~~~  234 (242)
T d1xwdc1         224 LKKLRARSTYN  234 (242)
T ss_dssp             CCEEESSSEES
T ss_pred             CcccccCcCCC
Confidence            55555555433

>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=99.35  E-value=4.1e-12  Score=129.18  Aligned_cols=127  Identities=21%  Similarity=0.289  Sum_probs=105.4

Q ss_pred             ccccceEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEE
Q 037935          490 ALKKCYAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRML  569 (1085)
Q Consensus       490 ~~~~~r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L  569 (1085)
                      ...+++.|++.++.++.++..-.+++|+.|++++|.   +..+++  |.++++|+++++++|.++.++ .+.++++|+++
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  112 (227)
T d1h6ua2          39 DLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQ---ITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTL  112 (227)
T ss_dssp             HHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC---CCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEE
T ss_pred             HcCCcCEEECCCCCCCcchhHhcCCCCcEeecCCce---eecccc--ccccccccccccccccccccc-ccccccccccc
Confidence            356799999999999998766689999999999987   555554  889999999999999999887 58899999999


Q ss_pred             eccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCC
Q 037935          570 DLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI  638 (1085)
Q Consensus       570 ~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  638 (1085)
                      ++++| ....++.  +.....++.+.++++.+.             ....+.+.++|+.|+++++.+..
T Consensus       113 ~l~~~-~~~~~~~--~~~~~~~~~l~~~~~~~~-------------~~~~~~~~~~L~~L~l~~n~~~~  165 (227)
T d1h6ua2         113 DLTST-QITDVTP--LAGLSNLQVLYLDLNQIT-------------NISPLAGLTNLQYLSIGNAQVSD  165 (227)
T ss_dssp             ECTTS-CCCCCGG--GTTCTTCCEEECCSSCCC-------------CCGGGGGCTTCCEEECCSSCCCC
T ss_pred             ccccc-cccccch--hccccchhhhhchhhhhc-------------hhhhhcccccccccccccccccc
Confidence            99999 7776665  578899999999888763             12336778889999998876654

>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=99.33  E-value=1.9e-13  Score=144.02  Aligned_cols=214  Identities=19%  Similarity=0.182  Sum_probs=136.1

Q ss_pred             CCccceeeeccCCceeeecccCCcCccCCceEEEecCCcccccchhHHhhccccceEEeeccc-ccEEEecCCccccccc
Q 037935          835 LPNLEGLALSGKDITMILQDDFPQHLFGSLKQLRVGDDDLACFPLDLLERFHNLEFLYLSDCS-YEVVFSNEGYLETHAR  913 (1085)
Q Consensus       835 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~~~-l~~~~~~~~~~~~~l~  913 (1085)
                      ..+|++|++++|.++......+. ..+++|++|+++++.++......+..+++|+.|++++|. +++.    + ......
T Consensus        45 ~~~L~~LdLs~~~i~~~~l~~l~-~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~----~-l~~l~~  118 (284)
T d2astb2          45 PFRVQHMDLSNSVIEVSTLHGIL-SQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEF----A-LQTLLS  118 (284)
T ss_dssp             CBCCCEEECTTCEECHHHHHHHH-TTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHH----H-HHHHHH
T ss_pred             CCCCCEEECCCCccCHHHHHHHH-HhCCCcccccccccCCCcHHHHHHhcCCCCcCcccccccccccc----c-cchhhH
Confidence            46899999999886543322221 127899999999888876555667788999999999986 4321    0 011234


Q ss_pred             cccccceeccCCcccccccccCCCchhhhHhhhhceeeeeccc-ccccc-CCCCcccccCccEEEeccccCcccccchhh
Q 037935          914 KLALIKRLNLTRLNHLQQLWKHDSKELDFIFQHLQILRVLHCQ-NLLSL-LPSSSVSFRNLTRLETFACKKLMNLLTSSK  991 (1085)
Q Consensus       914 ~l~~L~~L~l~~c~~L~~l~~~~~~~~~~~l~~L~~L~i~~c~-~l~~~-~~~~l~~l~~L~~L~l~~c~~L~~l~~~~~  991 (1085)
                      .+++|++|++++|.+++.-...  ......+++|+.|++++|. .+... ......++++|++|++++|+.+++.. ...
T Consensus       119 ~~~~L~~L~ls~c~~~~~~~~~--~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~-~~~  195 (284)
T d2astb2         119 SCSRLDELNLSWCFDFTEKHVQ--VAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDC-FQE  195 (284)
T ss_dssp             HCTTCCEEECCCCTTCCHHHHH--HHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGG-GGG
T ss_pred             HHHhccccccccccccccccch--hhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchh-hhh
Confidence            6788999999998877532110  0011235789999998874 33221 11113467889999999998887653 334


Q ss_pred             hhhcccccEEEEcCCcccccccccccccccccccceeeccccccccccccccceecCCCccccCCCcCceeeccCCCccc
Q 037935          992 AKSLERLVSLRIFGCPAMTEVIISDEDETANLKEEIVFSKLSALSLFDLDSLTSFSSGNYAFKLPSLQDLWVIGCPKMKL 1071 (1085)
Q Consensus       992 ~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~~~~~~~~l~~L~~L~i~~C~~l~~ 1071 (1085)
                      +..+++|++|++++|+.+++-..      .   ....+++|+.|++++|-.-..+..  +...+|.|   .+ +|+++..
T Consensus       196 l~~~~~L~~L~L~~C~~i~~~~l------~---~L~~~~~L~~L~l~~~~~d~~l~~--l~~~lp~L---~i-~~~~ls~  260 (284)
T d2astb2         196 FFQLNYLQHLSLSRCYDIIPETL------L---ELGEIPTLKTLQVFGIVPDGTLQL--LKEALPHL---QI-NCSHFTT  260 (284)
T ss_dssp             GGGCTTCCEEECTTCTTCCGGGG------G---GGGGCTTCCEEECTTSSCTTCHHH--HHHHSTTS---EE-SCCCSCC
T ss_pred             hcccCcCCEEECCCCCCCChHHH------H---HHhcCCCCCEEeeeCCCCHHHHHH--HHHhCccc---cc-cCccCCC
Confidence            56788999999999987754322      1   222368899999988832222211  12334554   44 5777766


Q ss_pred             c
Q 037935         1072 F 1072 (1085)
Q Consensus      1072 l 1072 (1085)
                      +
T Consensus       261 ~  261 (284)
T d2astb2         261 I  261 (284)
T ss_dssp             T
T ss_pred             C
Confidence            5

>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=99.32  E-value=1.6e-12  Score=116.78  Aligned_cols=105  Identities=22%  Similarity=0.307  Sum_probs=59.7

Q ss_pred             ceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCEEec
Q 037935          517 EFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYM  596 (1085)
Q Consensus       517 r~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L  596 (1085)
                      |+|++++|.   +..++.  +.++++|++|++++|.++.+|..++.+++|++|++++| .++.+|.  ++++++|++|++
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   72 (124)
T d1dcea3           1 RVLHLAHKD---LTVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDN-ALENVDG--VANLPRLQELLL   72 (124)
T ss_dssp             SEEECTTSC---CSSCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS-CCCCCGG--GTTCSSCCEEEC
T ss_pred             CEEEcCCCC---CCCCcc--cccCCCCCEEECCCCccCcchhhhhhhhcccccccccc-cccccCc--cccccccCeEEC
Confidence            455555555   444443  45566666666666666666655666666666666666 6666653  466666666666


Q ss_pred             cCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC
Q 037935          597 GSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL  639 (1085)
Q Consensus       597 ~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  639 (1085)
                      ++|.+..          ...+..+..+++|++|++++|.+...
T Consensus        73 ~~N~i~~----------~~~~~~l~~~~~L~~L~l~~N~i~~~  105 (124)
T d1dcea3          73 CNNRLQQ----------SAAIQPLVSCPRLVLLNLQGNSLCQE  105 (124)
T ss_dssp             CSSCCCS----------SSTTGGGGGCTTCCEEECTTSGGGGS
T ss_pred             CCCccCC----------CCCchhhcCCCCCCEEECCCCcCCcC
Confidence            6666521          11223455566666666666655443

>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=99.31  E-value=5.5e-13  Score=126.46  Aligned_cols=133  Identities=16%  Similarity=0.116  Sum_probs=95.4

Q ss_pred             ccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhh
Q 037935          505 HEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNI  584 (1085)
Q Consensus       505 ~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~  584 (1085)
                      ...+...++.++|.|++++|.   +..++. .+..+++|++|+|++|.|+.++ .+..+++|++|++++| .++.+|+++
T Consensus         9 ~~~~~~~n~~~lr~L~L~~n~---I~~i~~-~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N-~i~~l~~~~   82 (162)
T d1a9na_           9 EQAAQYTNAVRDRELDLRGYK---IPVIEN-LGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNN-RICRIGEGL   82 (162)
T ss_dssp             HTSCEEECTTSCEEEECTTSC---CCSCCC-GGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSS-CCCEECSCH
T ss_pred             hhhHhccCcCcCcEEECCCCC---CCccCc-cccccccCCEEECCCCCCCccC-CcccCcchhhhhcccc-cccCCCccc
Confidence            334444566778888888876   666653 4677888888888888888775 4778888888888888 788888777


Q ss_pred             hhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCc----c-cccccceeeE
Q 037935          585 LSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDG----L-FTKKLERFDI  653 (1085)
Q Consensus       585 ~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~----~-~l~~L~~L~l  653 (1085)
                      +..+++|++|++++|.+...          ..+..+..+++|++|++++|.+...+..    + .+++|+.|+.
T Consensus        83 ~~~l~~L~~L~L~~N~i~~~----------~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          83 DQALPDLTELILTNNSLVEL----------GDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             HHHCTTCCEEECCSCCCCCG----------GGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             cccccccccceecccccccc----------ccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeCC
Confidence            67788888888888877311          1234577788888888888887776642    1 5566666653

>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=99.30  E-value=1.9e-12  Score=136.28  Aligned_cols=78  Identities=15%  Similarity=0.199  Sum_probs=38.7

Q ss_pred             eEEEecCCcccCCchhhhccccccEEeccCcccccc-cchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhc
Q 037935          544 RVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKF-IVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMH  622 (1085)
Q Consensus       544 r~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~-lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~  622 (1085)
                      ..+.++.+.+............|++||+++| .+.. ....++.++++|++|++++|.+           .+..+..+.+
T Consensus        26 ~~lrl~~~~~~~~~~~~~~~~~L~~LdLs~~-~i~~~~l~~l~~~c~~L~~L~L~~~~l-----------~~~~~~~l~~   93 (284)
T d2astb2          26 IAFRCPRSFMDQPLAEHFSPFRVQHMDLSNS-VIEVSTLHGILSQCSKLQNLSLEGLRL-----------SDPIVNTLAK   93 (284)
T ss_dssp             SEEECTTCEECSCCCSCCCCBCCCEEECTTC-EECHHHHHHHHTTBCCCSEEECTTCBC-----------CHHHHHHHTT
T ss_pred             eEeeccccccccchhhhccCCCCCEEECCCC-ccCHHHHHHHHHhCCCcccccccccCC-----------CcHHHHHHhc
Confidence            3444444443332222334456666666666 4432 2223346666666666666654           2334444555


Q ss_pred             CCCCcEEEEEe
Q 037935          623 LQRLTTLEIDV  633 (1085)
Q Consensus       623 L~~L~~L~l~~  633 (1085)
                      +++|++|++++
T Consensus        94 ~~~L~~L~Ls~  104 (284)
T d2astb2          94 NSNLVRLNLSG  104 (284)
T ss_dssp             CTTCSEEECTT
T ss_pred             CCCCcCccccc
Confidence            55555555543

>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=99.29  E-value=4.9e-12  Score=130.28  Aligned_cols=102  Identities=16%  Similarity=0.268  Sum_probs=59.3

Q ss_pred             EEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC--chhhhccccccEEeccC
Q 037935          496 AISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL--PSSIGQLTKLRMLDLTD  573 (1085)
Q Consensus       496 ~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l--p~~i~~L~~L~~L~Ls~  573 (1085)
                      .+..++.+++.+|..+. +++++|++++|.   +..++...|.++++|++|++++|.+...  +..+.+++++++|.+..
T Consensus        12 ~i~c~~~~l~~iP~~l~-~~l~~L~Ls~n~---i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~   87 (242)
T d1xwdc1          12 VFLCQESKVTEIPSDLP-RNAIELRFVLTK---LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK   87 (242)
T ss_dssp             EEEEESCSCSSCCSCSC-SCCSEEEEESCC---CCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEEC
T ss_pred             EEEEeCCCCCCcCCCCC-CCCCEEECcCCc---CCccChhHhhccchhhhhhhccccccceeeccccccccccccccccc
Confidence            44445555555654432 456666666665   5556665566666666666666665542  23455666666666554


Q ss_pred             cccccccchhhhhccccCCEEeccCCCc
Q 037935          574 CLQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       574 ~~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      +..+..++++.|.++++|++|++++|.+
T Consensus        88 ~n~l~~~~~~~~~~l~~L~~l~l~~~~l  115 (242)
T d1xwdc1          88 ANNLLYINPEAFQNLPNLQYLLISNTGI  115 (242)
T ss_dssp             CTTCCEECTTSEECCTTCCEEEEESCCC
T ss_pred             cccccccccccccccccccccccchhhh
Confidence            4356556555556666666666666655

>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=99.26  E-value=1.1e-11  Score=111.23  Aligned_cols=102  Identities=17%  Similarity=0.181  Sum_probs=91.6

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCc
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDC  574 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~  574 (1085)
                      |.|++++|+++.++....+++|++|++++|.   +..+|+. |..+++|++|++++|.|+.+| .++++++|++|++++|
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 RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNR---LRALPPA-LAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNN   75 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGTTCCEEECCSSC---CCCCCGG-GGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSS
T ss_pred             CEEEcCCCCCCCCcccccCCCCCEEECCCCc---cCcchhh-hhhhhcccccccccccccccC-ccccccccCeEECCCC
Confidence            5789999999999876689999999999997   7888875 788999999999999999997 5999999999999999


Q ss_pred             ccccccch-hhhhccccCCEEeccCCCcc
Q 037935          575 LQLKFIVP-NILSSFTRLEELYMGSCSIK  602 (1085)
Q Consensus       575 ~~l~~lp~-~~~~~L~~L~~L~L~~~~~~  602 (1085)
                       .++.+|. ..++++++|++|++++|.+.
T Consensus        76 -~i~~~~~~~~l~~~~~L~~L~l~~N~i~  103 (124)
T d1dcea3          76 -RLQQSAAIQPLVSCPRLVLLNLQGNSLC  103 (124)
T ss_dssp             -CCCSSSTTGGGGGCTTCCEEECTTSGGG
T ss_pred             -ccCCCCCchhhcCCCCCCEEECCCCcCC
Confidence             9998874 44689999999999999984

>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=99.18  E-value=1.3e-11  Score=121.43  Aligned_cols=128  Identities=16%  Similarity=0.209  Sum_probs=101.4

Q ss_pred             eEEEeeccCcccccccCCCCCcceeeeccCCCcccc-ccChhhhcCCCcceEEEecCCcccCCc-hhhhccccccEEecc
Q 037935          495 YAISLLNSSIHEVSLEFECPQLEFLHIDPKITFAEL-NIPDNFFKGMKKLRVVDLTRVRLFSLP-SSIGQLTKLRMLDLT  572 (1085)
Q Consensus       495 r~Lsl~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~-~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~i~~L~~L~~L~Ls  572 (1085)
                      +.++.++++++.+|..+. +++++|++++|.   +. .++...|.++++|+.|+|++|.+..++ ..+..+++|++|+|+
T Consensus        11 ~~v~Cs~~~L~~iP~~lp-~~l~~L~Ls~N~---i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls   86 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDIP-LHTTELLLNDNE---LGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG   86 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC-TTCSEEECCSCC---CCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CEEEEeCCCcCccCCCCC-CCCCEEEeCCCC---CcccccccccCCCceEeeeeccccccccccccccccccccceeeec
Confidence            356777778888887653 688899998887   43 466677888999999999999888764 677888999999999


Q ss_pred             CcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCC
Q 037935          573 DCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSI  638 (1085)
Q Consensus       573 ~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~  638 (1085)
                      +| +++.+|+++|.++++|++|+|++|.+...           .+..|..+++|++|++++|.+..
T Consensus        87 ~N-~l~~l~~~~F~~l~~L~~L~L~~N~l~~i-----------~~~~f~~l~~L~~l~L~~N~~~~  140 (192)
T d1w8aa_          87 EN-KIKEISNKMFLGLHQLKTLNLYDNQISCV-----------MPGSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             SC-CCCEECSSSSTTCTTCCEEECCSSCCCEE-----------CTTSSTTCTTCCEEECTTCCBCC
T ss_pred             cc-cccccCHHHHhCCCcccccccCCcccccc-----------CHHHhcCCccccccccccccccc
Confidence            99 89999888888899999999999988533           33447788888888888876553

>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=99.17  E-value=2.4e-11  Score=114.85  Aligned_cols=128  Identities=14%  Similarity=0.127  Sum_probs=105.3

Q ss_pred             cccceEEEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchh-hhccccccE
Q 037935          491 LKKCYAISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSS-IGQLTKLRM  568 (1085)
Q Consensus       491 ~~~~r~Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~-i~~L~~L~~  568 (1085)
                      ..++|.|++++|.+..++... .+++|++|++++|.   +..++.  |..+++|++|++++|.++.+|.. +..+++|++
T Consensus        17 ~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~---i~~l~~--~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~   91 (162)
T d1a9na_          17 AVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNE---IRKLDG--FPLLRRLKTLLVNNNRICRIGEGLDQALPDLTE   91 (162)
T ss_dssp             TTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSC---CCEECC--CCCCSSCCEEECCSSCCCEECSCHHHHCTTCCE
T ss_pred             cCcCcEEECCCCCCCccCccccccccCCEEECCCCC---CCccCC--cccCcchhhhhcccccccCCCcccccccccccc
Confidence            346899999999999998654 68999999999997   677754  88999999999999999998765 568999999


Q ss_pred             EeccCcccccccch-hhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEE
Q 037935          569 LDLTDCLQLKFIVP-NILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEID  632 (1085)
Q Consensus       569 L~Ls~~~~l~~lp~-~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~  632 (1085)
                      |++++| .++.++. ..+.++++|++|++++|.+...+        ......+..+++|++|+-.
T Consensus        92 L~L~~N-~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~--------~~r~~~i~~lp~L~~LD~~  147 (162)
T d1a9na_          92 LILTNN-SLVELGDLDPLASLKSLTYLCILRNPVTNKK--------HYRLYVIYKVPQVRVLDFQ  147 (162)
T ss_dssp             EECCSC-CCCCGGGGGGGGGCTTCCEEECCSSGGGGST--------THHHHHHHHCTTCSEETTE
T ss_pred             ceeccc-cccccccccccccccccchhhcCCCcccccc--------chHHHHHHHCCCcCeeCCC
Confidence            999999 9988875 44689999999999999874221        1123457889999998743

>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=99.08  E-value=1.3e-12  Score=149.51  Aligned_cols=41  Identities=22%  Similarity=0.263  Sum_probs=21.1

Q ss_pred             hcCCCcceEEEecCCcccC-----CchhhhccccccEEeccCccccc
Q 037935          537 FKGMKKLRVVDLTRVRLFS-----LPSSIGQLTKLRMLDLTDCLQLK  578 (1085)
Q Consensus       537 ~~~l~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~  578 (1085)
                      +..++++|+|+|++|.++.     ++..+..+++|++|||++| .++
T Consensus        23 ~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N-~i~   68 (460)
T d1z7xw1          23 LPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSN-ELG   68 (460)
T ss_dssp             HHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTC-CCH
T ss_pred             HHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCC-cCC
Confidence            4445555555555555442     2334455555555555555 443

>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=99.05  E-value=1.2e-10  Score=114.19  Aligned_cols=120  Identities=19%  Similarity=0.258  Sum_probs=103.1

Q ss_pred             ecCccccCCCccccccceEEEeeccCccc-cccc--CCCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCccc
Q 037935          478 RNDAVWEWPDGDALKKCYAISLLNSSIHE-VSLE--FECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLF  554 (1085)
Q Consensus       478 ~~~~~~~~~~~~~~~~~r~Lsl~~~~~~~-l~~~--~~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~  554 (1085)
                      .+.++...|. +.+..+++|++++|.+.. ++..  ..+++|+.|++.+|.   +..++...|..+++|++|+|++|+|+
T Consensus        16 s~~~L~~iP~-~lp~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~---i~~~~~~~~~~~~~L~~L~Ls~N~l~   91 (192)
T d1w8aa_          16 TGRGLKEIPR-DIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQ---LTGIEPNAFEGASHIQELQLGENKIK   91 (192)
T ss_dssp             TTSCCSSCCS-CCCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSC---CCCBCTTTTTTCTTCCEEECCSCCCC
T ss_pred             eCCCcCccCC-CCCCCCCEEEeCCCCCcccccccccCCCceEeeeeccccc---cccccccccccccccceeeecccccc
Confidence            3445555553 466789999999999975 4333  378999999999998   67788888999999999999999999


Q ss_pred             CCc-hhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcc
Q 037935          555 SLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIK  602 (1085)
Q Consensus       555 ~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~  602 (1085)
                      .+| ..|.++++|++|+|++| .++.+|++.|..+.+|++|+|++|.+.
T Consensus        92 ~l~~~~F~~l~~L~~L~L~~N-~l~~i~~~~f~~l~~L~~l~L~~N~~~  139 (192)
T d1w8aa_          92 EISNKMFLGLHQLKTLNLYDN-QISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             EECSSSSTTCTTCCEEECCSS-CCCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             ccCHHHHhCCCcccccccCCc-cccccCHHHhcCCcccccccccccccc
Confidence            986 56899999999999999 999999999999999999999999874

>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=98.97  E-value=1.9e-11  Score=120.15  Aligned_cols=128  Identities=18%  Similarity=0.195  Sum_probs=96.8

Q ss_pred             ceEEEeecc--CcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEe
Q 037935          494 CYAISLLNS--SIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLD  570 (1085)
Q Consensus       494 ~r~Lsl~~~--~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~  570 (1085)
                      ...+++.+.  .+..++..+ .+++|+.|++++|.   +..++.  |.++++|++|+|++|.|+.+|..+..+++|++|+
T Consensus        25 ~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n~---I~~i~~--l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~   99 (198)
T d1m9la_          25 AEKVELHGMIPPIEKMDATLSTLKACKHLALSTNN---IEKISS--LSGMENLRILSLGRNLIKKIENLDAVADTLEELW   99 (198)
T ss_dssp             CSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEEE---ESCCCC--HHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEE
T ss_pred             cceeeeecccCchhhhhhHHhcccccceeECcccC---CCCccc--ccCCccccChhhcccccccccccccccccccccc
Confidence            344444432  344554443 67899999998887   667753  7888999999999999998887677778899999


Q ss_pred             ccCcccccccchhhhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC
Q 037935          571 LTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL  639 (1085)
Q Consensus       571 Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  639 (1085)
                      +++| .++.++.  +.++++|++|++++|.+...          ..+..+..+++|+.|++++|.+...
T Consensus       100 l~~N-~i~~l~~--~~~l~~L~~L~L~~N~i~~~----------~~~~~l~~l~~L~~L~L~~N~l~~~  155 (198)
T d1m9la_         100 ISYN-QIASLSG--IEKLVNLRVLYMSNNKITNW----------GEIDKLAALDKLEDLLLAGNPLYND  155 (198)
T ss_dssp             CSEE-ECCCHHH--HHHHHHSSEEEESEEECCCH----------HHHHHHTTTTTCSEEEECSSHHHHH
T ss_pred             cccc-ccccccc--ccccccccccccccchhccc----------cccccccCCCccceeecCCCccccC
Confidence            9999 8888864  58899999999999987311          1245688899999999998876443

>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=98.97  E-value=4.3e-11  Score=117.50  Aligned_cols=108  Identities=19%  Similarity=0.207  Sum_probs=78.3

Q ss_pred             CCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCCchhhhccccccEEeccCcccccccchhhhhccccCCE
Q 037935          514 PQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSLPSSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEE  593 (1085)
Q Consensus       514 ~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~  593 (1085)
                      ..++.+.+.+... .+..++. .+..+++|++|+|++|+|+.++ .++++++|++|++++| .++.+|.- +..+.+|++
T Consensus        23 ~~~~~~~l~~~~~-~i~~l~~-sl~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N-~i~~i~~~-~~~~~~L~~   97 (198)
T d1m9la_          23 TEAEKVELHGMIP-PIEKMDA-TLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRN-LIKKIENL-DAVADTLEE   97 (198)
T ss_dssp             TTCSCEECCBCCT-TCCCCHH-HHHHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEE-EECSCSSH-HHHHHHCCE
T ss_pred             cccceeeeecccC-chhhhhh-HHhcccccceeECcccCCCCcc-cccCCccccChhhccc-cccccccc-ccccccccc
Confidence            3445555554421 1334443 4788899999999999998886 5888999999999998 88888764 366778999


Q ss_pred             EeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccCCCC
Q 037935          594 LYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDDSIL  639 (1085)
Q Consensus       594 L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~  639 (1085)
                      |++++|.+.             .+..+..+++|+.|++++|.+..+
T Consensus        98 L~l~~N~i~-------------~l~~~~~l~~L~~L~L~~N~i~~~  130 (198)
T d1m9la_          98 LWISYNQIA-------------SLSGIEKLVNLRVLYMSNNKITNW  130 (198)
T ss_dssp             EECSEEECC-------------CHHHHHHHHHSSEEEESEEECCCH
T ss_pred             ccccccccc-------------ccccccccccccccccccchhccc
Confidence            999988773             234577778888888888776543

>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=98.97  E-value=1.2e-11  Score=141.14  Aligned_cols=86  Identities=15%  Similarity=0.159  Sum_probs=61.8

Q ss_pred             CcceEEEecCCcccCC--chhhhccccccEEeccCcccccccch----hhhhccccCCEEeccCCCcchhhcccCCcccc
Q 037935          541 KKLRVVDLTRVRLFSL--PSSIGQLTKLRMLDLTDCLQLKFIVP----NILSSFTRLEELYMGSCSIKWEVRKGNSERSN  614 (1085)
Q Consensus       541 ~~Lr~L~Ls~~~i~~l--p~~i~~L~~L~~L~Ls~~~~l~~lp~----~~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~  614 (1085)
                      .+|++||+++++++..  ..-+..+++|++|+|++| .++....    ..+..+++|++|+|++|.+.           +
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~-~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~-----------~   69 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDC-GLTEARCKDISSALRVNPALAELNLRSNELG-----------D   69 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESS-CCCHHHHHHHHHHHHTCTTCCEEECTTCCCH-----------H
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCC-CCCHHHHHHHHHHHhcCCCCCEEECcCCcCC-----------h
Confidence            3689999999999763  455678899999999999 7763221    22478899999999999872           2


Q ss_pred             ccHHHhh-----cCCCCcEEEEEeccCCC
Q 037935          615 ASLDELM-----HLQRLTTLEIDVEDDSI  638 (1085)
Q Consensus       615 ~~~~~l~-----~L~~L~~L~l~~~~~~~  638 (1085)
                      .....+.     ...+|++|++++|.++.
T Consensus        70 ~~~~~l~~~l~~~~~~L~~L~L~~n~it~   98 (460)
T d1z7xw1          70 VGVHCVLQGLQTPSCKIQKLSLQNCCLTG   98 (460)
T ss_dssp             HHHHHHHHTTCSTTCCCCEEECTTSCCBG
T ss_pred             HHHHHHHHHHhcCCCCCCEEECCCCCccc
Confidence            2222222     23478899988887653

>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=98.89  E-value=5.5e-09  Score=109.77  Aligned_cols=177  Identities=15%  Similarity=0.199  Sum_probs=105.0

Q ss_pred             cCCCCccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC-----CcCHHHHH
Q 037935          156 SNKGYEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ-----TPDIKKIQ  230 (1085)
Q Consensus       156 ~~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-----~~~~~~~~  230 (1085)
                      |....+.|+||+++++++.+.    ..++|.|+|++|+|||+|++++.++....     ..|+.+..     ......+.
T Consensus         7 p~~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~~-----~~~i~~~~~~~~~~~~~~~~~   77 (283)
T d2fnaa2           7 PKDNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNLP-----YIYLDLRKFEERNYISYKDFL   77 (283)
T ss_dssp             CCCSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTCC-----EEEEEGGGGTTCSCCCHHHHH
T ss_pred             CCCChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCCC-----eEEEEeccccccccccHHHHH
Confidence            333467899999999998774    34789999999999999999998876532     45555532     22344444


Q ss_pred             HHHHHHhC--------------CCC-------C-----CchHHHHHHHHHHHHH--cCCcEEEEEeCCCCccc-----c-
Q 037935          231 GEIAEKLG--------------LEL-------S-----DEAEYRRASRLYERLK--NENKILVILDNIWKYLD-----L-  276 (1085)
Q Consensus       231 ~~i~~~l~--------------~~~-------~-----~~~~~~~~~~~~~~l~--~~~~~LlvlDdv~~~~~-----~-  276 (1085)
                      ..+.....              ...       .     .......+..+.+.+.  .++++++|+|++.....     + 
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~  157 (283)
T d2fnaa2          78 LELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLL  157 (283)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCH
T ss_pred             HHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHH
Confidence            44433221              000       0     0000111222333332  48899999998753211     0 


Q ss_pred             ----------ccccc------------ccCC--------CCCCcEEEecCCCHHHHHHHHHHhcCC-CCCCCCchHHHHH
Q 037935          277 ----------DTIGI------------PFGN--------DHEGYNFLIGNLSEEEAWRLFKIMNGD-DVENCKFKPTAIN  325 (1085)
Q Consensus       277 ----------~~~~~------------~~~~--------~~~gs~ilv~~l~~~~~~~lf~~~~~~-~~~~~~~~~~~~~  325 (1085)
                                ..+..            .+..        +.....+-++|++.+++.+++...... ....+    ...+
T Consensus       158 ~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~----~~~~  233 (283)
T d2fnaa2         158 PALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFK----DYEV  233 (283)
T ss_dssp             HHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCC----CHHH
T ss_pred             HHHHHHHHhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHH----HHHH
Confidence                      00000            0000        011234566999999999999876521 11111    1479


Q ss_pred             HHHHhCCchHHHHHHHHHHh
Q 037935          326 VAQACGGLPIALTTVARALR  345 (1085)
Q Consensus       326 i~~~~~glPlai~~~~~~l~  345 (1085)
                      |++.++|.|..+..++..+.
T Consensus       234 i~~~~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         234 VYEKIGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             HHHHHCSCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHH
Confidence            99999999999998887665

>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=98.84  E-value=3.6e-09  Score=98.84  Aligned_cols=101  Identities=15%  Similarity=0.192  Sum_probs=79.2

Q ss_pred             EEeeccCcccccccC-CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCCcccCC-chhhhccccccEEeccCc
Q 037935          497 ISLLNSSIHEVSLEF-ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRVRLFSL-PSSIGQLTKLRMLDLTDC  574 (1085)
Q Consensus       497 Lsl~~~~~~~l~~~~-~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~i~~L~~L~~L~Ls~~  574 (1085)
                      +...++.....|..+ .+++|+.|.+.++..  +..++...|.++++|+.|+|++|+|+.+ |..|..+++|++|+|++|
T Consensus        13 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          13 LRCTRDGALDSLHHLPGAENLTELYIENQQH--LQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN   90 (156)
T ss_dssp             EECCSSCCCTTTTTSCSCSCCSEEECCSCSS--CCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS
T ss_pred             EEecCCCCccCcccccCccccCeeecCCCcc--ccccCchhhccccccCcceeeccccCCcccccccccccccceeccCC
Confidence            555666666665554 678888888876654  6778877888888999999999988887 456888889999999998


Q ss_pred             ccccccchhhhhccccCCEEeccCCCc
Q 037935          575 LQLKFIVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       575 ~~l~~lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                       +++.+|.++|..+ +|++|+|++|.+
T Consensus        91 -~l~~l~~~~~~~~-~l~~L~L~~Np~  115 (156)
T d2ifga3          91 -ALESLSWKTVQGL-SLQELVLSGNPL  115 (156)
T ss_dssp             -CCSCCCSTTTCSC-CCCEEECCSSCC
T ss_pred             -CCcccChhhhccc-cccccccCCCcc
Confidence             8888888875544 688888888876

>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=98.60  E-value=3.9e-09  Score=114.36  Aligned_cols=92  Identities=12%  Similarity=0.108  Sum_probs=54.9

Q ss_pred             hcCCCcceEEEecCCcccC-----CchhhhccccccEEeccCccccccc----ch------hhhhccccCCEEeccCCCc
Q 037935          537 FKGMKKLRVVDLTRVRLFS-----LPSSIGQLTKLRMLDLTDCLQLKFI----VP------NILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       537 ~~~l~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~l----p~------~~~~~L~~L~~L~L~~~~~  601 (1085)
                      +.+...|+.|+|++|.+..     +...+...++|+.|+++++ .....    |.      ..+..+++|++|++++|.+
T Consensus        27 L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~-~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i  105 (344)
T d2ca6a1          27 LLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDI-FTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAF  105 (344)
T ss_dssp             HHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSC-CTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCC
T ss_pred             HhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCC-cccccccccchHHHHHHHHHhhCCCccccccccccc
Confidence            5567778888888776643     3345566777888888766 33222    11      1135567788888888776


Q ss_pred             chhhcccCCccccccHHHhhcCCCCcEEEEEeccC
Q 037935          602 KWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDD  636 (1085)
Q Consensus       602 ~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  636 (1085)
                      ...       ........+...++|++|++++|.+
T Consensus       106 ~~~-------~~~~l~~~l~~~~~L~~L~l~~n~l  133 (344)
T d2ca6a1         106 GPT-------AQEPLIDFLSKHTPLEHLYLHNNGL  133 (344)
T ss_dssp             CTT-------THHHHHHHHHHCTTCCEEECCSSCC
T ss_pred             ccc-------cccchhhhhcccccchheecccccc
Confidence            210       0111233455677788888776654

>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=98.59  E-value=3e-08  Score=92.40  Aligned_cols=108  Identities=17%  Similarity=0.162  Sum_probs=71.5

Q ss_pred             CCCCcceeeeccCCCccccccChhhhcCCCcceEEEecCC-cccCCc-hhhhccccccEEeccCcccccccchhhhhccc
Q 037935          512 ECPQLEFLHIDPKITFAELNIPDNFFKGMKKLRVVDLTRV-RLFSLP-SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFT  589 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~Ls~~-~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~  589 (1085)
                      .+....++.+.++.   ...+|.. +..+++|+.|+++++ .++.++ ..|.++++|++|+|++| +++.++++.|..++
T Consensus         6 ~c~~~~~l~c~~~~---~~~~p~~-l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N-~l~~i~~~~f~~l~   80 (156)
T d2ifga3           6 CPHGSSGLRCTRDG---ALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTP   80 (156)
T ss_dssp             CCSSSSCEECCSSC---CCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCS
T ss_pred             CcCCCCeEEecCCC---CccCccc-ccCccccCeeecCCCccccccCchhhccccccCcceeecc-ccCCcccccccccc
Confidence            34445566666655   4455554 566778888888655 477765 45777888888888888 78888777777888


Q ss_pred             cCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEeccC
Q 037935          590 RLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVEDD  636 (1085)
Q Consensus       590 ~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~  636 (1085)
                      +|++|+|++|.+...+.           ..+.. .+|+.|++++|.+
T Consensus        81 ~L~~L~Ls~N~l~~l~~-----------~~~~~-~~l~~L~L~~Np~  115 (156)
T d2ifga3          81 RLSRLNLSFNALESLSW-----------KTVQG-LSLQELVLSGNPL  115 (156)
T ss_dssp             CCCEEECCSSCCSCCCS-----------TTTCS-CCCCEEECCSSCC
T ss_pred             cccceeccCCCCcccCh-----------hhhcc-ccccccccCCCcc
Confidence            88888888887743222           11322 3577777777754

>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=98.57  E-value=2e-06  Score=89.13  Aligned_cols=114  Identities=19%  Similarity=0.265  Sum_probs=83.8

Q ss_pred             CCccccchHHHHHHHHHHhcc------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHH
Q 037935          159 GYEAFESRVSTLKSIQNALTD------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGE  232 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~~------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  232 (1085)
                      .+..++||+.+++++.++|..      ...+.+.|+|++|+||||+|+.+++.......+ ..+|+..............
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~   92 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTA-RFVYINGFIYRNFTAIIGE   92 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCC-EEEEEETTTCCSHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCC-cEEEecchhhhhhhhhhhh
Confidence            345689999999999998852      345789999999999999999999998754333 4567888888889999999


Q ss_pred             HHHHhCCCCCC--chHHHHHHHHHHHHH-cCCcEEEEEeCCCCc
Q 037935          233 IAEKLGLELSD--EAEYRRASRLYERLK-NENKILVILDNIWKY  273 (1085)
Q Consensus       233 i~~~l~~~~~~--~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~  273 (1085)
                      +....+.....  .........+.+... .......++|+++..
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~  136 (276)
T d1fnna2          93 IARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNL  136 (276)
T ss_dssp             HHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGS
T ss_pred             hHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHh
Confidence            99988765432  233333444444443 356778888887764

>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=98.35  E-value=7.8e-08  Score=103.79  Aligned_cols=85  Identities=16%  Similarity=0.182  Sum_probs=59.4

Q ss_pred             CCCCcceeeeccCCCccccc----cChhhhcCCCcceEEEecCCcccCC-----------chhhhccccccEEeccCccc
Q 037935          512 ECPQLEFLHIDPKITFAELN----IPDNFFKGMKKLRVVDLTRVRLFSL-----------PSSIGQLTKLRMLDLTDCLQ  576 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~----l~~~~~~~l~~Lr~L~Ls~~~i~~l-----------p~~i~~L~~L~~L~Ls~~~~  576 (1085)
                      ....++.|++++|.   +..    .-...+...+.|+.|+++++.....           ...+..+++|++|+|++| .
T Consensus        29 ~~~~l~~L~Ls~n~---i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n-~  104 (344)
T d2ca6a1          29 EDDSVKEIVLSGNT---IGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDN-A  104 (344)
T ss_dssp             HCSCCCEEECTTSE---ECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSC-C
T ss_pred             hCCCCCEEECcCCc---CCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccccc-c
Confidence            56788889988874   211    1122356778999999988755432           224566789999999998 6


Q ss_pred             ccc-----cchhhhhccccCCEEeccCCCc
Q 037935          577 LKF-----IVPNILSSFTRLEELYMGSCSI  601 (1085)
Q Consensus       577 l~~-----lp~~~~~~L~~L~~L~L~~~~~  601 (1085)
                      ++.     +... +...++|++|++++|.+
T Consensus       105 i~~~~~~~l~~~-l~~~~~L~~L~l~~n~l  133 (344)
T d2ca6a1         105 FGPTAQEPLIDF-LSKHTPLEHLYLHNNGL  133 (344)
T ss_dssp             CCTTTHHHHHHH-HHHCTTCCEEECCSSCC
T ss_pred             cccccccchhhh-hcccccchheecccccc
Confidence            654     2222 46788999999999986

>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=98.31  E-value=8.1e-07  Score=88.68  Aligned_cols=163  Identities=17%  Similarity=0.114  Sum_probs=98.1

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      -++++|.++.++.+..++.++....+.++|++|+||||+|+.+.+....+..-..+.-++.+.......+...+..-...
T Consensus        14 ~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~~   93 (224)
T d1sxjb2          14 LSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQK   93 (224)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHB
T ss_pred             HHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHHHHHh
Confidence            35689999999999999988877778899999999999999999886643111123444555554444433332221111


Q ss_pred             CCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcE---------------------EEecC
Q 037935          240 ELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYN---------------------FLIGN  296 (1085)
Q Consensus       240 ~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~---------------------ilv~~  296 (1085)
                      ....              ..++.-++|+|+++...  ....+...+.......+                     |-+.+
T Consensus        94 ~~~~--------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~  159 (224)
T d1sxjb2          94 KLHL--------------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSK  159 (224)
T ss_dssp             CCCC--------------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             hccC--------------CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcc
Confidence            1000              02456688889887652  11222111111112222                     22289


Q ss_pred             CCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHH
Q 037935          297 LSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIAL  337 (1085)
Q Consensus       297 l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  337 (1085)
                      ++.++-...+...+.... ..--.+....|++.|+|-+..+
T Consensus       160 ~~~~~i~~~l~~i~~~e~-~~i~~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         160 LSDEDVLKRLLQIIKLED-VKYTNDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             CCHHHHHHHHHHHHHHHT-CCBCHHHHHHHHHHHTTCHHHH
T ss_pred             cchhhhHHHHHHHHHhcc-cCCCHHHHHHHHHHcCCcHHHH
Confidence            999999888887663111 1112567789999999876543

>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=98.29  E-value=9.4e-07  Score=88.52  Aligned_cols=158  Identities=14%  Similarity=0.142  Sum_probs=91.2

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCC
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGL  239 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  239 (1085)
                      -++++|.++.++.+..++..+..+.+-++|++|+||||+|+.+++..........+.-.+.+...+..............
T Consensus        13 ~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~   92 (227)
T d1sxjc2          13 LDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFAST   92 (227)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHHB
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhcccc
Confidence            35689999999999999987777778899999999999999999986543211223323333333333222222111100


Q ss_pred             CCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCccc--ccccccccCCCCCCcE---------------------EEecC
Q 037935          240 ELSDEAEYRRASRLYERLKNENKILVILDNIWKYLD--LDTIGIPFGNDHEGYN---------------------FLIGN  296 (1085)
Q Consensus       240 ~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~--~~~~~~~~~~~~~gs~---------------------ilv~~  296 (1085)
                      .               ....+++-++|+|+++....  -..+...+......++                     +-+.+
T Consensus        93 ~---------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~  157 (227)
T d1sxjc2          93 R---------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQP  157 (227)
T ss_dssp             C---------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             c---------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhcccc
Confidence            0               00124445777788765421  1112211211222222                     22388


Q ss_pred             CCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCc
Q 037935          297 LSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGL  333 (1085)
Q Consensus       297 l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  333 (1085)
                      ++.++-.+.+...+.... -.--.+....|++.++|-
T Consensus       158 ~~~~~i~~~l~~I~~~e~-i~i~~~~l~~i~~~s~Gd  193 (227)
T d1sxjc2         158 LPQEAIERRIANVLVHEK-LKLSPNAEKALIELSNGD  193 (227)
T ss_dssp             CCHHHHHHHHHHHHHTTT-CCBCHHHHHHHHHHHTTC
T ss_pred             cccccccccccccccccc-ccCCHHHHHHHHHHcCCc
Confidence            899888888887663211 111246678888888884

>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=98.16  E-value=5.4e-05  Score=78.37  Aligned_cols=115  Identities=22%  Similarity=0.258  Sum_probs=77.9

Q ss_pred             CCccccchHHHHHHHHHHhc----cC----C-ceEEEEEcCCCCcHHHHHHHHHHHHhhc----cCCCEEEEEEeCCCcC
Q 037935          159 GYEAFESRVSTLKSIQNALT----DV----N-VSIIGVYGMGGIGKTTLVKEFARQAREK----KLFDRVVFSEVSQTPD  225 (1085)
Q Consensus       159 ~~~~~~gr~~~~~~l~~~l~----~~----~-~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~  225 (1085)
                      .++.+.||+.++++|.+++.    .+    + ..++.|+|++|+|||++++.+++.....    .......++++.....
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccc
Confidence            35678999999999988764    11    1 2345678999999999999999876421    1224567888888888


Q ss_pred             HHHHHHHHHHHhCCCCCC--chHHHHHHHHHHHHH-cCCcEEEEEeCCCCc
Q 037935          226 IKKIQGEIAEKLGLELSD--EAEYRRASRLYERLK-NENKILVILDNIWKY  273 (1085)
Q Consensus       226 ~~~~~~~i~~~l~~~~~~--~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~  273 (1085)
                      .......+...++.....  .........+.+... .+...++++|.++..
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l  144 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSM  144 (287)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHH
T ss_pred             hhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEe
Confidence            889998888888764432  222222333333332 367788888887643

>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=98.15  E-value=3.3e-06  Score=84.63  Aligned_cols=159  Identities=12%  Similarity=0.086  Sum_probs=91.1

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCE-EEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDR-VVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      -++++|.++.++++..++..+..+.+.++|++|+||||+|+.+.+..... .+.. .+-++.+...+...+...+.....
T Consensus        23 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~-~~~~~~~e~n~s~~~~~~~~~~~~~~~~~  101 (231)
T d1iqpa2          23 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE-NWRHNFLELNASDERGINVIREKVKEFAR  101 (231)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGG-GHHHHEEEEETTCHHHHHTTHHHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhc-ccCCCeeEEecCcccchhHHHHHHHHHHh
Confidence            45689999999999999998888889999999999999999999876432 1111 222333332211111111111110


Q ss_pred             CCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc--ccccccccccCCCCCCc---------------------EEEec
Q 037935          239 LELSDEAEYRRASRLYERLKNENKILVILDNIWKY--LDLDTIGIPFGNDHEGY---------------------NFLIG  295 (1085)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~--~~~~~~~~~~~~~~~gs---------------------~ilv~  295 (1085)
                      ..               .....++.++++||++..  ..+..+...+.......                     .|-+.
T Consensus       102 ~~---------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~  166 (231)
T d1iqpa2         102 TK---------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFR  166 (231)
T ss_dssp             SC---------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECC
T ss_pred             hh---------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCcccccccc
Confidence            00               011356778888887654  12222221111111111                     22227


Q ss_pred             CCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchH
Q 037935          296 NLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPI  335 (1085)
Q Consensus       296 ~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  335 (1085)
                      +.+.++....++..+.... ..--.+....|++.++|-.-
T Consensus       167 ~~~~~~~~~~l~~~~~~e~-i~i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         167 PLRDEDIAKRLRYIAENEG-LELTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             CCCHHHHHHHHHHHHHTTT-CEECHHHHHHHHHHHTTCHH
T ss_pred             ccchhhHHHHHHHHHHHhC-CCCCHHHHHHHHHHcCCCHH
Confidence            8888888888877763211 11225667889999988543

>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=98.12  E-value=2.3e-05  Score=78.42  Aligned_cols=161  Identities=13%  Similarity=0.206  Sum_probs=94.9

Q ss_pred             CccccchHHHHHHHHHHhccCCc-eEEEEEcCCCCcHHHHHHHHHHHHhhcc--------------------CCCEEEEE
Q 037935          160 YEAFESRVSTLKSIQNALTDVNV-SIIGVYGMGGIGKTTLVKEFARQAREKK--------------------LFDRVVFS  218 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~G~GKTtLa~~v~~~~~~~~--------------------~f~~~~wv  218 (1085)
                      -++++|.+..++.+..++..++. ..+-|+|+.|+||||+|+.+.+......                    +++ ++.+
T Consensus        11 ~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~-~~~~   89 (239)
T d1njfa_          11 FADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVD-LIEI   89 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTT-EEEE
T ss_pred             HHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCe-EEEe
Confidence            35689999999999999886654 4578999999999999999988764321                    111 2233


Q ss_pred             EeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe--
Q 037935          219 EVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI--  294 (1085)
Q Consensus       219 ~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv--  294 (1085)
                      +.+.......+ +.+.+.+.....                .+++.++|+|+++...  .-+.+...+......+++++  
T Consensus        90 ~~~~~~~i~~i-r~~~~~~~~~~~----------------~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~t  152 (239)
T d1njfa_          90 DAASRTKVEDT-RDLLDNVQYAPA----------------RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLAT  152 (239)
T ss_dssp             ETTCSSSHHHH-HHHHHSCCCSCS----------------SSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEE
T ss_pred             cchhcCCHHHH-HHHHHHHHhccc----------------cCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEc
Confidence            33332222221 223322221100                2456688888887652  11222222222222333333  


Q ss_pred             -------------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchH-HHHH
Q 037935          295 -------------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPI-ALTT  339 (1085)
Q Consensus       295 -------------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl-ai~~  339 (1085)
                                         .+++.++-.+.+...+... ...--++....|++.++|-+- |+..
T Consensus       153 n~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e-~~~~~~~~l~~i~~~s~Gd~R~ain~  216 (239)
T d1njfa_         153 TDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEE-HIAHEPRALQLLARAAEGSLRDALSL  216 (239)
T ss_dssp             SCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHH-TCCBCHHHHHHHHHHTTTCHHHHHHH
T ss_pred             CCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhh-ccCCCHHHHHHHHHHcCCCHHHHHHH
Confidence                               8899999888887766211 112225677889999999885 4443

>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=98.12  E-value=1.4e-05  Score=79.75  Aligned_cols=100  Identities=16%  Similarity=0.239  Sum_probs=66.5

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhcc----CCCEEEE-EEeCCCcCHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKK----LFDRVVF-SEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~f~~~~w-v~~~~~~~~~~~~~~i~~  235 (1085)
                      +.++||++++++++..|....-.-+.+||.+|||||+++..++.......    ..+..+| ++++.             
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~-------------   84 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS-------------   84 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------------
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeech-------------
Confidence            45799999999999999866666777999999999999999988754321    1223344 33321             


Q ss_pred             HhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          236 KLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      -+.+......-.+.+..+.+.+.+.++.++++|++...
T Consensus        85 liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l  122 (268)
T d1r6bx2          85 LLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTI  122 (268)
T ss_dssp             --CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTT
T ss_pred             HhccCccchhHHHHHHHHHHHhhccCCceEEecchHHH
Confidence            01111112223344556666666678899999998764

>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=98.08  E-value=2.6e-06  Score=85.88  Aligned_cols=169  Identities=12%  Similarity=0.143  Sum_probs=96.7

Q ss_pred             CccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhcc-CCCEEEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          160 YEAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKK-LFDRVVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-~f~~~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      -++++|++..++.+..++.....+.+.++|++|+||||+|+.++++..... .......++.+.......+...+-....
T Consensus        11 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (237)
T d1sxjd2          11 LDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFAR   90 (237)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhh
Confidence            355889998899999999877777788999999999999999998753211 1222344555555555444433322211


Q ss_pred             CCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEE---------------------ec
Q 037935          239 LELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFL---------------------IG  295 (1085)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~il---------------------v~  295 (1085)
                      ........     .........+.-++|+|+++...  .+..+...+.......+++                     +.
T Consensus        91 ~~~~~~~~-----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f~  165 (237)
T d1sxjd2          91 LTVSKPSK-----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFK  165 (237)
T ss_dssp             SCCCCCCT-----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECC
T ss_pred             hhhhhhhH-----HHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhccc
Confidence            11111000     00111112344468888886542  2222211111111222222                     38


Q ss_pred             CCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCch
Q 037935          296 NLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLP  334 (1085)
Q Consensus       296 ~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  334 (1085)
                      +++.++..+++...+.... ..--.+..+.|++.++|-.
T Consensus       166 ~~~~~~~~~~L~~i~~~e~-i~i~~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         166 ALDASNAIDRLRFISEQEN-VKCDDGVLERILDISAGDL  203 (237)
T ss_dssp             CCCHHHHHHHHHHHHHTTT-CCCCHHHHHHHHHHTSSCH
T ss_pred             cccccccchhhhhhhhhhc-CcCCHHHHHHHHHHcCCCH
Confidence            9999999998887763211 1223567788999987743

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.03  E-value=1.3e-05  Score=75.17  Aligned_cols=100  Identities=16%  Similarity=0.233  Sum_probs=65.0

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhcc----CCCEEEE-EEeCCCcCHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKK----LFDRVVF-SEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~f~~~~w-v~~~~~~~~~~~~~~i~~  235 (1085)
                      +.++|||+++++++..|....-.-+.+||.+|||||+++..++.......    ..+..+| ++++      .    ++ 
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~------~----Li-   90 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG------A----LV-   90 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH------H----HH-
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHH------H----Hh-
Confidence            45789999999999999866666788999999999999999988765321    1233444 3321      1    11 


Q ss_pred             HhCCCCCCchHHHHHHHHHHHHH-cCCcEEEEEeCCCCc
Q 037935          236 KLGLELSDEAEYRRASRLYERLK-NENKILVILDNIWKY  273 (1085)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~~~~l~-~~~~~LlvlDdv~~~  273 (1085)
                        .+......-.+.+..+.+.+. ...+.+|++||+...
T Consensus        91 --Ag~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l  127 (195)
T d1jbka_          91 --AGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTM  127 (195)
T ss_dssp             --TTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGG
T ss_pred             --ccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHH
Confidence              111111122334555666653 356899999998643

>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=97.94  E-value=1.4e-05  Score=81.21  Aligned_cols=47  Identities=15%  Similarity=0.218  Sum_probs=39.0

Q ss_pred             CccccchHHHHHHHHHHhccC-CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          160 YEAFESRVSTLKSIQNALTDV-NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~~-~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      -++++|++...+.+..++... ...-+.|+|++|+||||+|++++++.
T Consensus        10 ~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          10 LNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            356899999888888887643 44557799999999999999999975

>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=97.91  E-value=8e-07  Score=83.17  Aligned_cols=92  Identities=22%  Similarity=0.226  Sum_probs=67.4

Q ss_pred             hhhhcCCCcceEEEecCCcccCCc---hhhhccccccEEeccCcccccccchhhhhccccCCEEeccCCCcchhhcccCC
Q 037935          534 DNFFKGMKKLRVVDLTRVRLFSLP---SSIGQLTKLRMLDLTDCLQLKFIVPNILSSFTRLEELYMGSCSIKWEVRKGNS  610 (1085)
Q Consensus       534 ~~~~~~l~~Lr~L~Ls~~~i~~lp---~~i~~L~~L~~L~Ls~~~~l~~lp~~~~~~L~~L~~L~L~~~~~~~~~~~~~~  610 (1085)
                      ..++.++++|++|+|++|+|+.++   ..+..+++|++|+|++| .++.++.-.+.+..+|++|++++|.+.......  
T Consensus        58 ~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N-~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~--  134 (162)
T d1koha1          58 RIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGLKLEELWLDGNSLSDTFRDQ--  134 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTS-CCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSH--
T ss_pred             HHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccC-ccccchhhhhhhccccceeecCCCCcCcCcccc--
Confidence            455678999999999999998764   56788999999999999 999988744455668999999999884211100  


Q ss_pred             ccccccHHHhhcCCCCcEEE
Q 037935          611 ERSNASLDELMHLQRLTTLE  630 (1085)
Q Consensus       611 ~~~~~~~~~l~~L~~L~~L~  630 (1085)
                        ......-+..+++|+.||
T Consensus       135 --~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         135 --STYISAIRERFPKLLRLD  152 (162)
T ss_dssp             --HHHHHHHHTTSTTCCEET
T ss_pred             --hhHHHHHHHHCCCCCEEC
Confidence              011123356788888775

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=97.74  E-value=5.2e-05  Score=75.48  Aligned_cols=47  Identities=19%  Similarity=0.266  Sum_probs=35.3

Q ss_pred             ccccchHHHHHHHHHHh---cc---------CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          161 EAFESRVSTLKSIQNAL---TD---------VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l---~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++++|-++.+++|.+.+   ..         ...+-|.++|++|+|||++|+.+++...
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~   67 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   67 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcC
Confidence            46788888776665433   21         2235689999999999999999998765

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.73  E-value=0.00057  Score=68.05  Aligned_cols=63  Identities=14%  Similarity=0.195  Sum_probs=46.0

Q ss_pred             ccccchHHHHHHHHHHhc-----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH
Q 037935          161 EAFESRVSTLKSIQNALT-----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  228 (1085)
                      ++++|-+..++++..++.     ....+-+-++|++|+||||+|+.+++.....     ..+++.+.......
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~-----~~~~~~~~~~~~~~   76 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN-----LRVTSGPAIEKPGD   76 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC-----EEEEETTTCCSHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC-----eEeccCCccccchh
Confidence            568999988888877765     2346678899999999999999999987533     34555554444333

>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=97.73  E-value=0.00026  Score=70.61  Aligned_cols=48  Identities=19%  Similarity=0.174  Sum_probs=36.6

Q ss_pred             ccccchHHHHHHHHHHh---cc---------CCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          161 EAFESRVSTLKSIQNAL---TD---------VNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l---~~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ++++|.+..++++.+.+   ..         ...+.+.++|++|+|||++|+.+++....
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~   71 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV   71 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCC
Confidence            46789888887775543   21         22466889999999999999999988763

>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=97.68  E-value=0.00078  Score=66.96  Aligned_cols=64  Identities=19%  Similarity=0.207  Sum_probs=46.6

Q ss_pred             CccccchHHHHHHHHHHhc-----cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH
Q 037935          160 YEAFESRVSTLKSIQNALT-----DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  228 (1085)
                      -++++|.+..++++..++.     ....+-+-++|++|+||||+|+.+++....    + .+.++.+.......
T Consensus         8 ~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~----~-~~~~~~~~~~~~~~   76 (238)
T d1in4a2           8 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT----N-IHVTSGPVLVKQGD   76 (238)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC----C-EEEEETTTCCSHHH
T ss_pred             HHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCC----C-cccccCcccccHHH
Confidence            3568999999999888875     234566889999999999999999998763    2 23344444444433

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.61  E-value=0.00045  Score=66.70  Aligned_cols=149  Identities=10%  Similarity=0.046  Sum_probs=85.3

Q ss_pred             hHHHHHHHHHHhccCCce-EEEEEcCCCCcHHHHHHHHHHHHhhcc-------------------CCCEEEEEEeCCC--
Q 037935          166 RVSTLKSIQNALTDVNVS-IIGVYGMGGIGKTTLVKEFARQAREKK-------------------LFDRVVFSEVSQT--  223 (1085)
Q Consensus       166 r~~~~~~l~~~l~~~~~~-vi~I~G~~G~GKTtLa~~v~~~~~~~~-------------------~f~~~~wv~~~~~--  223 (1085)
                      -+...+++.+.+..+++. .+.++|+.|+||||+|+.+++..-...                   ......++.....  
T Consensus         7 ~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~   86 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKN   86 (207)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCS
T ss_pred             cHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhccc
Confidence            355677888887766654 589999999999999999988653110                   0111222221111  


Q ss_pred             -cCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc--cccccccccCCCCCCcEEEe------
Q 037935          224 -PDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL--DLDTIGIPFGNDHEGYNFLI------  294 (1085)
Q Consensus       224 -~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~--~~~~~~~~~~~~~~gs~ilv------  294 (1085)
                       ....+ .+++.+.+.....                .+++-++|+||++...  ....+...+-....+.++++      
T Consensus        87 ~i~~~~-ir~l~~~~~~~~~----------------~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~  149 (207)
T d1a5ta2          87 TLGVDA-VREVTEKLNEHAR----------------LGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPE  149 (207)
T ss_dssp             SBCHHH-HHHHHHHTTSCCT----------------TSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGG
T ss_pred             ccccch-hhHHhhhhhhccc----------------cCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChh
Confidence             11111 2223332221110                2566688888887652  23333332322223333332      


Q ss_pred             ---------------cCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchHHH
Q 037935          295 ---------------GNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPIAL  337 (1085)
Q Consensus       295 ---------------~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPlai  337 (1085)
                                     .+++.++....+.....-      .++.+..|++.++|.|-.+
T Consensus       150 ~ll~tI~SRc~~i~~~~~~~~~~~~~L~~~~~~------~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         150 RLLATLRSRCRLHYLAPPPEQYAVTWLSREVTM------SQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHCCC------CHHHHHHHHHHTTTCHHHH
T ss_pred             hhhhhhcceeEEEecCCCCHHHHHHHHHHcCCC------CHHHHHHHHHHcCCCHHHH
Confidence                           889999998888766521      2566788999999988654

>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=97.58  E-value=8.8e-05  Score=78.55  Aligned_cols=100  Identities=12%  Similarity=0.206  Sum_probs=59.6

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhc----cCCCEEE-EEEeCCCcCHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREK----KLFDRVV-FSEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~f~~~~-wv~~~~~~~~~~~~~~i~~  235 (1085)
                      +.++|||.+++++++.|....-.-+.+||.+|||||+++..++......    .-.+..+ +++++.          ++.
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~----------l~a   91 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS----------LLA   91 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhh----------hhc
Confidence            4578999999999999986555556789999999999998777754322    1223444 444432          111


Q ss_pred             HhCCCCCCchHHHHHHHHHHHHHcC-CcEEEEEeCCCCc
Q 037935          236 KLGLELSDEAEYRRASRLYERLKNE-NKILVILDNIWKY  273 (1085)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~~~~l~~~-~~~LlvlDdv~~~  273 (1085)
                      .  .... ..-...+..+...+.+. .+++|++|++...
T Consensus        92 g--~~~~-g~~e~r~~~i~~~~~~~~~~~ilfide~h~l  127 (387)
T d1qvra2          92 G--AKYR-GEFEERLKAVIQEVVQSQGEVILFIDELHTV  127 (387)
T ss_dssp             ---------CHHHHHHHHHHHHHTTCSSEEEEECCC---
T ss_pred             c--cCcc-hhHHHHHHHHHHHhccCCCceEEEeccHHHH
Confidence            0  0011 11223345555555443 5799999998754

>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=97.55  E-value=0.00024  Score=71.46  Aligned_cols=153  Identities=13%  Similarity=0.112  Sum_probs=85.7

Q ss_pred             ccccchHHHHHHHHHHhc----c---------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHH
Q 037935          161 EAFESRVSTLKSIQNALT----D---------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIK  227 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  227 (1085)
                      +++.|-|..+++|.+.+.    .         ...+-+-++|++|+|||++|+++.+.....     .+.++.+.     
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~-----~~~i~~~~-----   73 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGPE-----   73 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE-----EEEECHHH-----
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe-----EEEEEchh-----
Confidence            357788888877777542    1         224678899999999999999999986532     22222211     


Q ss_pred             HHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCcc---------ccc----ccccccCCCCC------
Q 037935          228 KIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYL---------DLD----TIGIPFGNDHE------  288 (1085)
Q Consensus       228 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~---------~~~----~~~~~~~~~~~------  288 (1085)
                               +....... ....+..+++.....++++|++||++...         ...    .+.........      
T Consensus        74 ---------l~~~~~g~-~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlv  143 (258)
T d1e32a2          74 ---------IMSKLAGE-SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  143 (258)
T ss_dssp             ---------HTTSCTTH-HHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEE
T ss_pred             ---------hccccccc-HHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccE
Confidence                     11111111 12223344444445788888888886531         000    00000001111      


Q ss_pred             --------------------CcEEEecCCCHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHhCCchH
Q 037935          289 --------------------GYNFLIGNLSEEEAWRLFKIMNGDDVENCKFKPTAINVAQACGGLPI  335 (1085)
Q Consensus       289 --------------------gs~ilv~~l~~~~~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPl  335 (1085)
                                          ..+|-+++.+.++-.++|+.+.......++..  ..+|++++.|.--
T Consensus       144 i~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~--~~~la~~t~G~s~  208 (258)
T d1e32a2         144 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD--LEQVANETHGHVG  208 (258)
T ss_dssp             EEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCC--HHHHHHHCTTCCH
T ss_pred             EEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccc--hhhhhhcccCCCH
Confidence                                12233377788888888988774322222221  4689999988643

>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=97.54  E-value=4.9e-05  Score=76.99  Aligned_cols=165  Identities=11%  Similarity=0.057  Sum_probs=90.4

Q ss_pred             CccccchHHHHHHHHHHhcc-----------------CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          160 YEAFESRVSTLKSIQNALTD-----------------VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       160 ~~~~~gr~~~~~~l~~~l~~-----------------~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      -++++|.+..++++.+++..                 ...+.+.++|++|+||||+|+.+++....     .+++++.+.
T Consensus        13 ~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~-----~~~~~~~~~   87 (253)
T d1sxja2          13 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY-----DILEQNASD   87 (253)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC-----EEEEECTTS
T ss_pred             HHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHh-----hhhcccccc
Confidence            35689999999999888742                 23468999999999999999999997652     255676666


Q ss_pred             CcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCccc-----cccccc----------------
Q 037935          223 TPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKYLD-----LDTIGI----------------  281 (1085)
Q Consensus       223 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~~~-----~~~~~~----------------  281 (1085)
                      ..+...+... ................  ........++..++++|++.....     +..+..                
T Consensus        88 ~~~~~~~~~~-~~~~~~~~~~~~~~~~--~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~ii~i~~~~  164 (253)
T d1sxja2          88 VRSKTLLNAG-VKNALDNMSVVGYFKH--NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNER  164 (253)
T ss_dssp             CCCHHHHHHT-GGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCEEEEESCT
T ss_pred             chhhHHHHHH-HHHHhhcchhhhhhhh--hhhcccccccceEEEeeeccccccchhhhhHHHhhhhcccccccccccccc
Confidence            5555443332 2222111100000000  000001135667777787654311     111000                


Q ss_pred             ---ccCCCCCC-cEEEecCCCHHHHHHHHHHhcCC-CCCCCCchHHHHHHHHHhCCch
Q 037935          282 ---PFGNDHEG-YNFLIGNLSEEEAWRLFKIMNGD-DVENCKFKPTAINVAQACGGLP  334 (1085)
Q Consensus       282 ---~~~~~~~g-s~ilv~~l~~~~~~~lf~~~~~~-~~~~~~~~~~~~~i~~~~~glP  334 (1085)
                         .+..-... -.|-+.+.+.++-.+.++..... ...  --++....|++.++|-.
T Consensus       165 ~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~--i~~~~l~~i~~~s~GDi  220 (253)
T d1sxja2         165 NLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFK--LDPNVIDRLIQTTRGDI  220 (253)
T ss_dssp             TSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--CCTTHHHHHHHHTTTCH
T ss_pred             cccccccccceeeeeeccccchhHHHHHHHHHHHHhCCC--CCHHHHHHHHHhCCCcH
Confidence               00000112 23444888888888888776521 111  11245678888888855

>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=97.43  E-value=0.00019  Score=71.35  Aligned_cols=92  Identities=13%  Similarity=0.188  Sum_probs=55.4

Q ss_pred             cccchHHHHHHHHHHhc----------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          162 AFESRVSTLKSIQNALT----------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~----------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      .++|....++.+++-..          ....+-|-++|++|+|||++|+++++.....  |   +.++.+..        
T Consensus        10 ~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~--~---~~i~~~~~--------   76 (246)
T d1d2na_          10 GIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP--F---IKICSPDK--------   76 (246)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS--E---EEEECGGG--------
T ss_pred             CCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccccc--c---cccccccc--------
Confidence            46676665555544332          1245678899999999999999999987532  2   23333211        


Q ss_pred             HHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCC
Q 037935          232 EIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWK  272 (1085)
Q Consensus       232 ~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~  272 (1085)
                           + ...........+..+++...+..+++|++|+++.
T Consensus        77 -----~-~g~~~~~~~~~i~~if~~A~~~~p~il~iDEid~  111 (246)
T d1d2na_          77 -----M-IGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIER  111 (246)
T ss_dssp             -----C-TTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHH
T ss_pred             -----c-ccccccchhhhhhhhhhhhhhcccceeehhhhhh
Confidence                 0 0011111223344555555567889999999864

>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=97.19  E-value=7.1e-05  Score=69.41  Aligned_cols=80  Identities=21%  Similarity=0.187  Sum_probs=62.3

Q ss_pred             CCCCcceeeeccCCCccccccCh--hhhcCCCcceEEEecCCcccCCch-hhhccccccEEeccCcccccccch------
Q 037935          512 ECPQLEFLHIDPKITFAELNIPD--NFFKGMKKLRVVDLTRVRLFSLPS-SIGQLTKLRMLDLTDCLQLKFIVP------  582 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l~~--~~~~~l~~Lr~L~Ls~~~i~~lp~-~i~~L~~L~~L~Ls~~~~l~~lp~------  582 (1085)
                      .+++|++|++++|.   +..+..  ..+..+++|++|+|++|.|+.++. ..-+..+|+.|++++| .+.....      
T Consensus        63 ~~~~L~~L~Ls~N~---i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~N-pl~~~~~~~~~y~  138 (162)
T d1koha1          63 NIPELLSLNLSNNR---LYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGN-SLSDTFRDQSTYI  138 (162)
T ss_dssp             HCTTCCCCCCCSSC---CCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTS-TTSSSSSSHHHHH
T ss_pred             hCCCCCEeeCCCcc---ccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCC-CcCcCcccchhHH
Confidence            57899999999998   555542  457789999999999999999875 2334567999999999 6765432      


Q ss_pred             -hhhhccccCCEEe
Q 037935          583 -NILSSFTRLEELY  595 (1085)
Q Consensus       583 -~~~~~L~~L~~L~  595 (1085)
                       .++..+++|+.||
T Consensus       139 ~~i~~~~P~L~~LD  152 (162)
T d1koha1         139 SAIRERFPKLLRLD  152 (162)
T ss_dssp             HHHHTTSTTCCEET
T ss_pred             HHHHHHCCCCCEEC
Confidence             3357899999996

>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=97.13  E-value=0.00024  Score=71.66  Aligned_cols=71  Identities=15%  Similarity=0.267  Sum_probs=42.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNEN  261 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~  261 (1085)
                      .+.|-++|++|+|||++|++++......  |     +.++    ...+    .   + .... .....+..++.......
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~~~~--~-----~~~~----~~~l----~---~-~~~~-~~~~~l~~~f~~A~~~~  100 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANECQAN--F-----ISIK----GPEL----L---T-MWFG-ESEANVREIFDKARQAA  100 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHTTCE--E-----EEEC----HHHH----H---T-SCTT-THHHHHHHHHHHHHHTC
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHhCCc--E-----EEEE----HHHh----h---h-cccc-chHHHHHHHHHHHHhcC
Confidence            4678899999999999999999987643  2     2222    1111    1   1 1111 11223444454444577


Q ss_pred             cEEEEEeCCCC
Q 037935          262 KILVILDNIWK  272 (1085)
Q Consensus       262 ~~LlvlDdv~~  272 (1085)
                      +++|++||++.
T Consensus       101 p~il~ideid~  111 (265)
T d1r7ra3         101 PCVLFFDELDS  111 (265)
T ss_dssp             SEEEEESSGGG
T ss_pred             CcceeHHhhhh
Confidence            78888888763

>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=96.76  E-value=0.0037  Score=60.16  Aligned_cols=73  Identities=23%  Similarity=0.347  Sum_probs=45.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENK  262 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~  262 (1085)
                      ..+.|||.+|+|||.|+++++++...+  ...+++++.      .++...+...+...        ......+.+  ..-
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~~~--~~~~~~~~~------~~~~~~~~~~~~~~--------~~~~~~~~~--~~~   98 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSA------DDFAQAMVEHLKKG--------TINEFRNMY--KSV   98 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEH------HHHHHHHHHHHHHT--------CHHHHHHHH--HTC
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhccC--ccceEEech------HHHHHHHHHHHHcc--------chhhHHHHH--hhc
Confidence            447899999999999999999988754  334566544      34444444433211        122233333  244


Q ss_pred             EEEEEeCCCCc
Q 037935          263 ILVILDNIWKY  273 (1085)
Q Consensus       263 ~LlvlDdv~~~  273 (1085)
                      -+|++||++..
T Consensus        99 dll~iDDi~~i  109 (213)
T d1l8qa2          99 DLLLLDDVQFL  109 (213)
T ss_dssp             SEEEEECGGGG
T ss_pred             cchhhhhhhhh
Confidence            57788888654

>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=96.39  E-value=0.0012  Score=61.19  Aligned_cols=117  Identities=12%  Similarity=0.013  Sum_probs=59.4

Q ss_pred             CCCcceeeeccCCCcccccc--ChhhhcCCCcceEEEecCCcccC-----CchhhhccccccEEeccCcccccccchh--
Q 037935          513 CPQLEFLHIDPKITFAELNI--PDNFFKGMKKLRVVDLTRVRLFS-----LPSSIGQLTKLRMLDLTDCLQLKFIVPN--  583 (1085)
Q Consensus       513 ~~~Lr~L~l~~~~~~~~~~l--~~~~~~~l~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~lp~~--  583 (1085)
                      .++|++|+++++.......+  ....+...+.|++|+|++|.+..     +...+...+.|++|+|++| .++.-...  
T Consensus        14 ~~~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_          14 DTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESN-FLTPELLARL   92 (167)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSS-BCCHHHHHHH
T ss_pred             CCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehh-hcchHHHHHH
Confidence            46677777765332111111  11234556677777777776642     3345556677777777777 55532111  


Q ss_pred             --hhhccccCCEEeccCCCcchhhcccCCccccccHHHhhcCCCCcEEEEEec
Q 037935          584 --ILSSFTRLEELYMGSCSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVE  634 (1085)
Q Consensus       584 --~~~~L~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  634 (1085)
                        .+..-+.|++|++++|.......    .........+..-+.|+.|+++.+
T Consensus        93 ~~aL~~n~sL~~L~l~~n~~~~~g~----~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQRQSVLGN----QVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HHHTTTTCCCSEEECCCCSSCCCCH----HHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHhCCcCCEEECCCCcCCCccH----HHHHHHHHHHHhCCCccEeeCcCC
Confidence              13445667777777665421100    000112334455566666666443

>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=96.23  E-value=0.00069  Score=69.94  Aligned_cols=46  Identities=24%  Similarity=0.367  Sum_probs=35.7

Q ss_pred             cccchHHHHHHHHHHhc--------------cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          162 AFESRVSTLKSIQNALT--------------DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~--------------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++|.++.++.+..++.              ....+.+.++|++|+|||.||+++++...
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc
Confidence            46888888887765441              12346778999999999999999999764

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.13  E-value=0.0016  Score=60.50  Aligned_cols=28  Identities=25%  Similarity=0.451  Sum_probs=25.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ++|++|+|..|+|||||++++.+....+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            4799999999999999999999887654

>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=96.05  E-value=0.012  Score=55.50  Aligned_cols=106  Identities=12%  Similarity=0.058  Sum_probs=61.4

Q ss_pred             HHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhh--ccCCCEEEEEEeC-CCcCHHHHHHHHHHHhCCCCCCchH
Q 037935          170 LKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQARE--KKLFDRVVFSEVS-QTPDIKKIQGEIAEKLGLELSDEAE  246 (1085)
Q Consensus       170 ~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~--~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~~~  246 (1085)
                      ++-+..++..+....+.++|.+|+||||+|..+.+....  ..|.|. .++.-. ....+.++- ++.+.+.....    
T Consensus         3 ~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~-~~i~~~~~~I~Id~IR-~i~~~~~~~~~----   76 (198)
T d2gnoa2           3 LETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDIR-TIKDFLNYSPE----   76 (198)
T ss_dssp             HHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHHH-HHHHHHTSCCS----
T ss_pred             HHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCE-EEEeCCcCCCCHHHHH-HHHHHHhhCcc----
Confidence            344555555677899999999999999999999986643  233443 334322 223444442 34444443221    


Q ss_pred             HHHHHHHHHHHHcCCcEEEEEeCCCCc--ccccccccccCCCCCCcEEE
Q 037935          247 YRRASRLYERLKNENKILVILDNIWKY--LDLDTIGIPFGNDHEGYNFL  293 (1085)
Q Consensus       247 ~~~~~~~~~~l~~~~~~LlvlDdv~~~--~~~~~~~~~~~~~~~gs~il  293 (1085)
                                  .+++-++|+|+++..  ..++.+...+-.-..++.++
T Consensus        77 ------------~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fi  113 (198)
T d2gnoa2          77 ------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIV  113 (198)
T ss_dssp             ------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEE
T ss_pred             ------------cCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceee
Confidence                        255568888888765  34444444443323344433

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.04  E-value=0.0026  Score=59.77  Aligned_cols=38  Identities=13%  Similarity=0.017  Sum_probs=29.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEE
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSE  219 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~  219 (1085)
                      +..+|.++|++|+||||+|+.+.+....+ +++...++.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~-~~~~~~~~~   42 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQ-GGRSVSLLL   42 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHH-CSSCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhc-CCCchhhhh
Confidence            34688899999999999999999988654 345555543

>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=96.00  E-value=0.0069  Score=62.18  Aligned_cols=103  Identities=14%  Similarity=0.193  Sum_probs=59.7

Q ss_pred             ccccchHHHHHHHHHHhc---------cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALT---------DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQG  231 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~---------~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  231 (1085)
                      ..++|.+..++.+...+.         +....++.++|+.|+|||.||+.+.+-..     ...+-++.+.-.+...   
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~-----~~~i~~d~s~~~~~~~---   93 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHT---   93 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSSC---
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc-----CCeeEeccccccchhh---
Confidence            347888888888877653         22356889999999999999999998754     2334444442111000   


Q ss_pred             HHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          232 EIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       232 ~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                       +.+-+|.+.... ....-..+...+.+....++++|+++..
T Consensus        94 -~~~l~g~~~gy~-g~~~~~~l~~~~~~~~~~vvl~DeieKa  133 (315)
T d1r6bx3          94 -VSRLIGAPPGYV-GFDQGGLLTDAVIKHPHAVLLLDEIEKA  133 (315)
T ss_dssp             -CSSSCCCCSCSH-HHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             -hhhhcccCCCcc-ccccCChhhHHHHhCccchhhhcccccc
Confidence             000112111111 1111122333444577789999999865

>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=95.97  E-value=0.021  Score=56.25  Aligned_cols=84  Identities=21%  Similarity=0.283  Sum_probs=58.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC-----chHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD-----EAEYRRASRLYER  256 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~~~  256 (1085)
                      -+++-|+|..|+||||+|-.++......+  ..++|++....++.+.     ++++|.+.+.     ....+......+.
T Consensus        60 g~i~e~~G~~~~GKT~l~l~~~~~~q~~g--~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~~  132 (269)
T d1mo6a1          60 GRVIEIYGPESSGKTTVALHAVANAQAAG--GVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIADM  132 (269)
T ss_dssp             SSEEEEECSSSSSHHHHHHHHHHHHHHTT--CEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             ceeEEEecCCCcHHHHHHHHHHHHHhcCC--CEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHHHH
Confidence            47999999999999999988887666543  4689999999998764     5666765432     1222233334444


Q ss_pred             HH-cCCcEEEEEeCCCC
Q 037935          257 LK-NENKILVILDNIWK  272 (1085)
Q Consensus       257 l~-~~~~~LlvlDdv~~  272 (1085)
                      +. .++.-|+|+|.+-.
T Consensus       133 l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         133 LIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHTTCEEEEEEECSTT
T ss_pred             HHhcCCCCEEEEecccc
Confidence            43 46678999998753

>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=95.93  E-value=0.0015  Score=60.47  Aligned_cols=25  Identities=32%  Similarity=0.380  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.|.++|++|+||||+|+.+.+...
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999999864

>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=95.87  E-value=0.002  Score=61.13  Aligned_cols=26  Identities=23%  Similarity=0.363  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+.|+|.|+.|+||||||+.+.+...
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            58899999999999999999998754

>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=95.86  E-value=0.0049  Score=56.77  Aligned_cols=111  Identities=16%  Similarity=0.186  Sum_probs=75.5

Q ss_pred             hhcCCCcceEEEecCC-cccC-----CchhhhccccccEEeccCcccccccc----hhhhhccccCCEEeccCCCcchhh
Q 037935          536 FFKGMKKLRVVDLTRV-RLFS-----LPSSIGQLTKLRMLDLTDCLQLKFIV----PNILSSFTRLEELYMGSCSIKWEV  605 (1085)
Q Consensus       536 ~~~~l~~Lr~L~Ls~~-~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~lp----~~~~~~L~~L~~L~L~~~~~~~~~  605 (1085)
                      +..+.+.|+.|+|+++ .+..     +-..+...++|++|+|++| .++.-.    ...+...+.|++|++++|.+....
T Consensus        10 l~~n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n-~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g   88 (167)
T d1pgva_          10 LREDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANT-AISDSEARGLIELIETSPSLRVLNVESNFLTPEL   88 (167)
T ss_dssp             HHTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTS-CCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHH
T ss_pred             HHhCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeecccc-ccchhHHHHHhhhhhhcccccceeeehhhcchHH
Confidence            3456789999999975 4543     3346678899999999999 775311    122467789999999999883211


Q ss_pred             cccCCccccccHHHhhcCCCCcEEEEEeccCCCCCCcc---------cccccceeeEE
Q 037935          606 RKGNSERSNASLDELMHLQRLTTLEIDVEDDSILPDGL---------FTKKLERFDIS  654 (1085)
Q Consensus       606 ~~~~~~~~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~---------~l~~L~~L~l~  654 (1085)
                             .......+...+.|++|+++++....+....         .-+.|+.|+++
T Consensus        89 -------~~~l~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~  139 (167)
T d1pgva_          89 -------LARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGIS  139 (167)
T ss_dssp             -------HHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECC
T ss_pred             -------HHHHHHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCc
Confidence                   1123445677788999999988776554321         34566666653

>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=95.75  E-value=0.0028  Score=57.55  Aligned_cols=23  Identities=39%  Similarity=0.559  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      ++|.|+|++|+||||+|+++..+
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999988664

>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=95.74  E-value=0.018  Score=56.82  Aligned_cols=84  Identities=24%  Similarity=0.286  Sum_probs=58.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC-----chHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD-----EAEYRRASRLYER  256 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~~~  256 (1085)
                      -+++-|+|.+|+||||+|-.+.......+  ..++|++....++..     +++.+|.+.+.     ....+..-.+.+.
T Consensus        57 g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~  129 (268)
T d1xp8a1          57 GRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  129 (268)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             ceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHHHH
Confidence            47999999999999999998888766443  348999999999884     67778876432     1122223334444


Q ss_pred             HH-cCCcEEEEEeCCCC
Q 037935          257 LK-NENKILVILDNIWK  272 (1085)
Q Consensus       257 l~-~~~~~LlvlDdv~~  272 (1085)
                      +. .+..-|+|+|-+-.
T Consensus       130 l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         130 LVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHTTTCCSEEEEECTTT
T ss_pred             HHhcCCCcEEEEecccc
Confidence            43 35566899998754

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=95.68  E-value=0.021  Score=53.86  Aligned_cols=60  Identities=20%  Similarity=0.299  Sum_probs=45.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC-CCcCHHHHHHHHHHHhCCCC
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS-QTPDIKKIQGEIAEKLGLEL  241 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~  241 (1085)
                      ++.+||.++|+.|+||||.+..++.....++  ..+..|++- ......+-++..++.++.+.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   64 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLG--KKVMFCAGDTFRAAGGTQLSEWGKRLSIPV   64 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTT--CCEEEECCCCSSTTHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEEeccccccchhhHhhcccccCceE
Confidence            4568999999999999988877777665432  347777764 35567777888888888764

>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=95.68  E-value=0.003  Score=58.88  Aligned_cols=24  Identities=33%  Similarity=0.483  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ++|.|.|++|+||||+|+.+....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            689999999999999999998764

>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=95.42  E-value=0.011  Score=56.23  Aligned_cols=31  Identities=29%  Similarity=0.547  Sum_probs=26.5

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ..+.-+|+|.|.+|+||||||+.+.+.....
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~   49 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQTLREQ   49 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhccc
Confidence            4455689999999999999999999887754

>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=95.40  E-value=0.0039  Score=57.89  Aligned_cols=25  Identities=44%  Similarity=0.525  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..|.|.|++|+||||+|+.+.+...
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4577999999999999999998764

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=95.39  E-value=0.04  Score=51.79  Aligned_cols=89  Identities=18%  Similarity=0.153  Sum_probs=53.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCH--HHHHHHHHHHhCCCCCC----chHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDI--KKIQGEIAEKLGLELSD----EAEYRRASRL  253 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~----~~~~~~~~~~  253 (1085)
                      +...||.++|+.|+||||-+..++...+.++   ..+.+-..+.+.+  .+-++..++.++.+...    .+....+...
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g---~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~   83 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQG---KSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDA   83 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTTT---CCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC---CcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHH
Confidence            4468999999999999988877777665332   2344444455554  55666778888876422    2222333333


Q ss_pred             HHHHHcCCcEEEEEeCCC
Q 037935          254 YERLKNENKILVILDNIW  271 (1085)
Q Consensus       254 ~~~l~~~~~~LlvlDdv~  271 (1085)
                      .+..+....=++++|=.-
T Consensus        84 ~~~a~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          84 IQAAKARNIDVLIADTAG  101 (211)
T ss_dssp             HHHHHHTTCSEEEECCCC
T ss_pred             HHHHHHcCCCEEEeccCC
Confidence            433332333466677643

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=95.39  E-value=0.033  Score=52.48  Aligned_cols=61  Identities=21%  Similarity=0.312  Sum_probs=37.9

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC-CCcCHHHHHHHHHHHhCCCC
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS-QTPDIKKIQGEIAEKLGLEL  241 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~  241 (1085)
                      ++...||.+||+.|+||||.+..++...+.+ .. .+..|++- ......+-++..++.++.+.
T Consensus         9 ~k~p~vi~lvGptGvGKTTTiAKLA~~~~~~-g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~~   70 (211)
T d1j8yf2           9 DKIPYVIMLVGVQGTGKATTAGKLAYFYKKK-GF-KVGLVGADVYRPAALEQLQQLGQQIGVPV   70 (211)
T ss_dssp             SSSSEEEEEECSCCC----HHHHHHHHHHHT-TC-CEEEEECCCSSHHHHHHHHHHHHHHTCCE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHC-CC-ceEEEEeeccccchhHHHHHhccccCcce
Confidence            3457899999999999998877776666543 22 46667663 23344555667777777764

>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=95.37  E-value=0.0054  Score=57.78  Aligned_cols=27  Identities=26%  Similarity=0.383  Sum_probs=24.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      +.|.|+|++|+|||||++++......+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            578999999999999999999987654

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.34  E-value=0.0063  Score=55.99  Aligned_cols=27  Identities=30%  Similarity=0.412  Sum_probs=24.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ++++|+|..|+|||||+.++....+.+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            689999999999999999999988765

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=95.33  E-value=0.0044  Score=56.75  Aligned_cols=24  Identities=33%  Similarity=0.472  Sum_probs=21.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      |.|+||+|+||||+|+.+++....
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDL   26 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            778899999999999999999853

>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=95.32  E-value=0.035  Score=52.30  Aligned_cols=59  Identities=24%  Similarity=0.309  Sum_probs=40.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC-CCcCHHHHHHHHHHHhCCCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS-QTPDIKKIQGEIAEKLGLEL  241 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~  241 (1085)
                      +.+||.++|+.|+||||.+..++.....+ .. .+..+++- ......+-++...+.++.+.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~-g~-kV~lit~Dt~R~gA~eQL~~~a~~l~v~~   68 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGK-GR-RPLLVAADTQRPAAREQLRLLGEKVGVPV   68 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHT-TC-CEEEEECCSSCHHHHHHHHHHHHHHTCCE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHC-CC-cEEEEecccccchHHHHHHHHHHhcCCcc
Confidence            45899999999999998887777766643 22 45556552 22334556667778887754

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.32  E-value=0.004  Score=57.38  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=21.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      |.++|++|+||||+|+.+++....
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~   27 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGV   27 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            556799999999999999998863

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=95.29  E-value=0.0053  Score=58.31  Aligned_cols=28  Identities=25%  Similarity=0.277  Sum_probs=24.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ....+|.|+|++|+||||+|+.+++...
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4568999999999999999999998764

>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=95.22  E-value=0.005  Score=63.15  Aligned_cols=102  Identities=17%  Similarity=0.308  Sum_probs=55.9

Q ss_pred             cccchHHHHHHHHHHhc-------c--CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcC---HHHH
Q 037935          162 AFESRVSTLKSIQNALT-------D--VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPD---IKKI  229 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~-------~--~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~---~~~~  229 (1085)
                      .++|.+..++.+...+.       +  ....++.++|+.|+|||.+|+.+.+..-..  -...+-++.+.-.+   ...+
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~--~~~~~~~~~~~~~~~~~~~~L  101 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHAVSRL  101 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS--GGGEEEECTTTCCSSGGGGGC
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCC--CcceEEEeccccccchhhhhh
Confidence            36788888887766553       1  234588899999999999999999876211  11122233332211   1111


Q ss_pred             HHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCcEEEEEeCCCCc
Q 037935          230 QGEIAEKLGLELSDEAEYRRASRLYERLKNENKILVILDNIWKY  273 (1085)
Q Consensus       230 ~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDdv~~~  273 (1085)
                      ...-.-..|.        ..-..+.+.+.+....+++||+++..
T Consensus       102 ~g~~~gyvG~--------~~~~~l~~~~~~~p~~Vvl~DEieK~  137 (315)
T d1qvra3         102 IGAPPGYVGY--------EEGGQLTEAVRRRPYSVILFDEIEKA  137 (315)
T ss_dssp             ----------------------CHHHHHHHCSSEEEEESSGGGS
T ss_pred             cCCCCCCcCc--------ccCChHHHHHHhCCCcEEEEehHhhc
Confidence            1110000110        01123445555577899999999865

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.20  E-value=0.0055  Score=57.80  Aligned_cols=27  Identities=26%  Similarity=0.389  Sum_probs=24.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ++|+|.|+.|+||||+++.+.+....+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            689999999999999999999987644

>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=95.15  E-value=0.0056  Score=58.18  Aligned_cols=28  Identities=21%  Similarity=0.241  Sum_probs=24.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ..+|.++|++|+||||+|+.+.......
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3588899999999999999999987654

>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=95.09  E-value=0.0099  Score=54.64  Aligned_cols=114  Identities=15%  Similarity=0.123  Sum_probs=62.1

Q ss_pred             CCCCcceeeeccCCCcccccc--ChhhhcCCCcceEEEecCCcccC-----CchhhhccccccEEeccCcccccc-----
Q 037935          512 ECPQLEFLHIDPKITFAELNI--PDNFFKGMKKLRVVDLTRVRLFS-----LPSSIGQLTKLRMLDLTDCLQLKF-----  579 (1085)
Q Consensus       512 ~~~~Lr~L~l~~~~~~~~~~l--~~~~~~~l~~Lr~L~Ls~~~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~-----  579 (1085)
                      ..+.|+.|.+.+........+  ....+...++|+.|++++|.+..     +-..+...+.++.|++++| .+..     
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~-~~~~~g~~~   93 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN-FISGSGILA   93 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCHHHHHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccc-cccchhHHH
Confidence            346777777765332111111  11234567788888888887653     3345566778888888877 5432     


Q ss_pred             cchhhhhccccCCEEeccC--CCcchhhcccCCccccccHHHhhcCCCCcEEEEEec
Q 037935          580 IVPNILSSFTRLEELYMGS--CSIKWEVRKGNSERSNASLDELMHLQRLTTLEIDVE  634 (1085)
Q Consensus       580 lp~~~~~~L~~L~~L~L~~--~~~~~~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~~  634 (1085)
                      +-.. +...++|+.++|+.  |.+...       ........+...++|+.|+++.+
T Consensus        94 l~~~-l~~~~~L~~l~L~l~~n~i~~~-------~~~~La~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_          94 LVEA-LQSNTSLIELRIDNQSQPLGNN-------VEMEIANMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HHHG-GGGCSSCCEEECCCCSSCCCHH-------HHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHHH-HHhCccccEEeeccCCCcCcHH-------HHHHHHHHHHhCCCcCEEeCcCC
Confidence            2222 35667777665543  333100       01123344566777777777544

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=95.06  E-value=0.0052  Score=56.87  Aligned_cols=26  Identities=35%  Similarity=0.339  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +.|.++|++|+||||+|+.+++....
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~   28 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGY   28 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34678899999999999999998863

>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=95.05  E-value=0.0076  Score=55.76  Aligned_cols=28  Identities=29%  Similarity=0.426  Sum_probs=24.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...+++.|.|++|+||||+|+.+.+...
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3568999999999999999999998774

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=95.03  E-value=0.048  Score=51.43  Aligned_cols=60  Identities=22%  Similarity=0.243  Sum_probs=42.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC-CCcCHHHHHHHHHHHhCCCC
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS-QTPDIKKIQGEIAEKLGLEL  241 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~  241 (1085)
                      ....||.++|+.|+||||-+..++.....++  ..+..|++- ......+-++..++.++.+.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   69 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEG--KSVVLAAADTFRAAAIEQLKIWGERVGATV   69 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEECTTCHHHHHHHHHHHHHHTCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CceEEEeecccccchhHHHHHHhhhcCccc
Confidence            4567999999999999988777777665432  357767764 33345566777778887654

>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=95.01  E-value=0.044  Score=53.87  Aligned_cols=82  Identities=22%  Similarity=0.364  Sum_probs=55.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCC-----chHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSD-----EAEYRRASRLYERL  257 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~~~l  257 (1085)
                      +++-|+|.+|+||||+|-++......++  ..++|++....++..     .++.+|.+.+.     ....+......+.+
T Consensus        55 ~itei~G~~gsGKTtl~l~~~~~~q~~g--~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l  127 (263)
T d1u94a1          55 RIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDAL  127 (263)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             eEEEEecCCCcHHHHHHHHHHHHHHcCC--CEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHHHHH
Confidence            6999999999999999999888776543  358999999888864     36677765432     11222222333333


Q ss_pred             H-cCCcEEEEEeCCC
Q 037935          258 K-NENKILVILDNIW  271 (1085)
Q Consensus       258 ~-~~~~~LlvlDdv~  271 (1085)
                      . .+..-|+|+|-+.
T Consensus       128 ~~~~~~~liViDSi~  142 (263)
T d1u94a1         128 ARSGAVDVIVVDSVA  142 (263)
T ss_dssp             HHHTCCSEEEEECGG
T ss_pred             HhcCCCCEEEEECcc
Confidence            3 3455588899874

>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=94.97  E-value=0.0074  Score=57.35  Aligned_cols=28  Identities=32%  Similarity=0.374  Sum_probs=25.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +..+||.|.|++|+||||+|+.+++...
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~g   33 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDYS   33 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4678999999999999999999988764

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.78  E-value=0.08  Score=51.80  Aligned_cols=98  Identities=21%  Similarity=0.329  Sum_probs=62.5

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCC----------
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLE----------  240 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~----------  240 (1085)
                      .++.+. =..-..++|.|.+|+|||+|+..+.++... .+=+.++++-+.+.. ...++.+++.+.--..          
T Consensus        58 aID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~~-~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvv  136 (276)
T d2jdid3          58 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVAL  136 (276)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEE
T ss_pred             eeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHHh-hCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEE
Confidence            455554 123356999999999999999999887542 234677888887654 5677777776642110          


Q ss_pred             ---CCCchHH------HHHHHHHHHHH--cCCcEEEEEeCCC
Q 037935          241 ---LSDEAEY------RRASRLYERLK--NENKILVILDNIW  271 (1085)
Q Consensus       241 ---~~~~~~~------~~~~~~~~~l~--~~~~~LlvlDdv~  271 (1085)
                         ..+++..      .....+.+++.  +++.+|+++||+.
T Consensus       137 v~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dslt  178 (276)
T d2jdid3         137 VYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIF  178 (276)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchh
Confidence               0111111      12234445555  4899999999974

>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=94.75  E-value=0.0078  Score=56.02  Aligned_cols=26  Identities=19%  Similarity=0.250  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++|.|.|.+|+||||+|+.+.+...
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            47899999999999999999998764

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=94.75  E-value=0.038  Score=55.72  Aligned_cols=71  Identities=14%  Similarity=0.233  Sum_probs=43.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHcCCc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLGLELSDEAEYRRASRLYERLKNENK  262 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~  262 (1085)
                      .++.++|++|+|||.+|+.++.....+..|-.   +..+.-.+              ...... ...+..+++..+  +.
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~---~~~~~~~~--------------~~~G~~-e~~~~~~f~~a~--~~  183 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKYAT---VRFGEPLS--------------GYNTDF-NVFVDDIARAML--QH  183 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCCEE---EEBSCSST--------------TCBCCH-HHHHHHHHHHHH--HC
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCCeEE---EEhhHhhh--------------cccchH-HHHHHHHHHHHh--hc
Confidence            56667899999999999999998764433421   33332211              111122 333455555554  35


Q ss_pred             EEEEEeCCCCc
Q 037935          263 ILVILDNIWKY  273 (1085)
Q Consensus       263 ~LlvlDdv~~~  273 (1085)
                      ++|++|+++..
T Consensus       184 ~ilf~DEid~~  194 (321)
T d1w44a_         184 RVIVIDSLKNV  194 (321)
T ss_dssp             SEEEEECCTTT
T ss_pred             cEEEeehhhhh
Confidence            69999998654

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=94.60  E-value=0.049  Score=53.37  Aligned_cols=40  Identities=33%  Similarity=0.370  Sum_probs=32.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      .-.++.|+|.+|+|||++|.++..+...  +...++|+++..
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~~--~~~~~~~is~e~   64 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENACA--NKERAILFAYEE   64 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHT--TTCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHH--hccccceeeccC
Confidence            3479999999999999999999988653  356688888754

>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=94.52  E-value=0.011  Score=54.78  Aligned_cols=27  Identities=26%  Similarity=0.286  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..-.|.|.|++|+||||+|+.+.+...
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            345688999999999999999998753

>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=94.47  E-value=0.01  Score=57.10  Aligned_cols=26  Identities=27%  Similarity=0.370  Sum_probs=23.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .+|.++|.+|+||||+|+++++....
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            57899999999999999999987764

>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=94.34  E-value=0.01  Score=55.04  Aligned_cols=26  Identities=27%  Similarity=0.387  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      +-++|.|.|++|+||||+|+.+.+..
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999997643

>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=94.32  E-value=0.013  Score=54.57  Aligned_cols=24  Identities=42%  Similarity=0.584  Sum_probs=22.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      |+|+|+.|+|||||++.+......
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCC
Confidence            789999999999999999997764

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=94.27  E-value=0.014  Score=55.07  Aligned_cols=27  Identities=26%  Similarity=0.385  Sum_probs=24.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ++|.|.|+.|+||||+++.+.+....+
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            789999999999999999999988643

>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=94.24  E-value=0.021  Score=57.39  Aligned_cols=27  Identities=22%  Similarity=0.271  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+.|.++|++|+||||+|+.++....
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            456788999999999999999999875

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.07  E-value=0.025  Score=57.04  Aligned_cols=51  Identities=24%  Similarity=0.422  Sum_probs=37.9

Q ss_pred             HHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          170 LKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       170 ~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      +..+.+.+...+.+||.+.|-||+||||+|-.+......++ + .+.-|+.-.
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G-~-rVllvD~Dp   58 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMG-F-DVHLTTSDP   58 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTT-C-CEEEEESCC
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC-C-cEEEEeCCC
Confidence            44566666678889999999999999999998888776543 2 355566543

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=94.02  E-value=0.014  Score=56.62  Aligned_cols=26  Identities=35%  Similarity=0.515  Sum_probs=24.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+||+|.|++|+||||+|+.+.++..
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46999999999999999999999986

>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=93.88  E-value=0.017  Score=57.90  Aligned_cols=37  Identities=22%  Similarity=0.435  Sum_probs=29.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS  221 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  221 (1085)
                      +.|+|+|-||+||||+|-.+......++ +. ++-|++-
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G-~r-VllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMG-KT-IMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTT-CC-EEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCC-Cc-EEEEecC
Confidence            7899999999999999999998887543 33 5556664

>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=93.87  E-value=0.015  Score=53.55  Aligned_cols=26  Identities=27%  Similarity=0.457  Sum_probs=22.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      ....+|.++|++|+||||+|+.....
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45679999999999999999987653

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=93.83  E-value=0.037  Score=54.63  Aligned_cols=97  Identities=16%  Similarity=0.167  Sum_probs=54.6

Q ss_pred             HHHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEe-CCCcCHHHHHHHHHHHhCC----CCCCch
Q 037935          172 SIQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEV-SQTPDIKKIQGEIAEKLGL----ELSDEA  245 (1085)
Q Consensus       172 ~l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~-~~~~~~~~~~~~i~~~l~~----~~~~~~  245 (1085)
                      ++++.+. =..-..++|+|..|+|||+|+..+.+..... +-++++.+.+ ....  +++ .++.+....    ...+.+
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~-~~~~v~~~~~iger~--~ev-~~~~~~~~~~vv~~t~d~~  107 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN-HPDCVLMVLLIDERP--EEV-TEMQRLVKGEVVASTFDEP  107 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHHH-CTTSEEEEEEEEECH--HHH-HHHHHHCSSEEEEEETTSC
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhhc-CCCeEEEEEeeceeH--HHH-HhHHhhcceEEEeccCCCc
Confidence            4677766 2344689999999999999999999877643 2344443333 3222  121 222222211    011111


Q ss_pred             H------HHHHHHHHHHHH-cCCcEEEEEeCCCC
Q 037935          246 E------YRRASRLYERLK-NENKILVILDNIWK  272 (1085)
Q Consensus       246 ~------~~~~~~~~~~l~-~~~~~LlvlDdv~~  272 (1085)
                      .      ......+.+++. +++.+|+++||+..
T Consensus       108 ~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr  141 (289)
T d1xpua3         108 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  141 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHhccCceeecCcHHH
Confidence            1      112233444443 58999999999753

>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=93.77  E-value=0.019  Score=54.23  Aligned_cols=25  Identities=24%  Similarity=0.255  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+|.|.|++|+||||+|+.+++...
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999998764

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=93.75  E-value=0.039  Score=52.36  Aligned_cols=29  Identities=28%  Similarity=0.292  Sum_probs=25.3

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..+..+|-+.|++|+||||+|+.+.+...
T Consensus        21 ~~kg~vIwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          21 NQRGLTIWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45668999999999999999999988664

>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=93.72  E-value=0.046  Score=55.73  Aligned_cols=65  Identities=23%  Similarity=0.254  Sum_probs=35.1

Q ss_pred             HHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHH
Q 037935          171 KSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAE  235 (1085)
Q Consensus       171 ~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  235 (1085)
                      .++++.+.  .++..+|+|+|.+|+|||||...+......+++=-.++=++-+.+++-..++.+-.+
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgdr~r  107 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTR  107 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC--------------
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccchhH
Confidence            34454443  467899999999999999999999887765432122343444555555556555443

>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=93.71  E-value=0.03  Score=51.14  Aligned_cols=113  Identities=17%  Similarity=0.133  Sum_probs=74.0

Q ss_pred             hhhhcCCCcceEEEecCC-cccC-----CchhhhccccccEEeccCcccccccch----hhhhccccCCEEeccCCCcch
Q 037935          534 DNFFKGMKKLRVVDLTRV-RLFS-----LPSSIGQLTKLRMLDLTDCLQLKFIVP----NILSSFTRLEELYMGSCSIKW  603 (1085)
Q Consensus       534 ~~~~~~l~~Lr~L~Ls~~-~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~lp~----~~~~~L~~L~~L~L~~~~~~~  603 (1085)
                      ..+..+.+.|+.|+|+++ .++.     +-..+...++|++|++++| .++.-..    ..+....+++.+++++|.+..
T Consensus        10 ~~~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n-~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~   88 (166)
T d1io0a_          10 KRIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNFISG   88 (166)
T ss_dssp             HHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSCCCH
T ss_pred             HHHHhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCC-cccHHHHHHHHHHHhhcccchhhhhccccccc
Confidence            345567899999999984 4543     3446678899999999999 7654211    224678999999999998732


Q ss_pred             hhcccCCccccccHHHhhcCCCCcEEEEEe--ccCCC-----CCCcc-cccccceeeEE
Q 037935          604 EVRKGNSERSNASLDELMHLQRLTTLEIDV--EDDSI-----LPDGL-FTKKLERFDIS  654 (1085)
Q Consensus       604 ~~~~~~~~~~~~~~~~l~~L~~L~~L~l~~--~~~~~-----~~~~~-~l~~L~~L~l~  654 (1085)
                      ..       .......+...++|+.++++.  +.+..     +...+ ..++|+.|++.
T Consensus        89 ~g-------~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~  140 (166)
T d1io0a_          89 SG-------ILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYH  140 (166)
T ss_dssp             HH-------HHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECC
T ss_pred             hh-------HHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCc
Confidence            11       122345677888999877764  33321     11111 45677777764

>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=93.47  E-value=0.061  Score=54.74  Aligned_cols=56  Identities=18%  Similarity=0.258  Sum_probs=37.4

Q ss_pred             HHHHHHHhc--cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcC
Q 037935          170 LKSIQNALT--DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPD  225 (1085)
Q Consensus       170 ~~~l~~~l~--~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  225 (1085)
                      ..++++.+.  .++..+|+|.|.+|+|||||..++......+++=-.++=++.+.+++
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~   94 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRT   94 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSS
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHHH
Confidence            444555543  46789999999999999999999988665433222344444455543

>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=93.44  E-value=0.024  Score=53.22  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++++| |+|++|+||||+|+.+++...
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHHT
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHhC
Confidence            45566 789999999999999998764

>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=93.41  E-value=0.021  Score=54.89  Aligned_cols=27  Identities=22%  Similarity=0.334  Sum_probs=23.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      .-||+|.|..|+||||+|+.+.+....
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            358999999999999999999987653

>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=93.36  E-value=0.022  Score=55.16  Aligned_cols=24  Identities=29%  Similarity=0.364  Sum_probs=22.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +|+|-|++|+||||+|+.+..+..
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            688999999999999999999886

>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=93.12  E-value=0.025  Score=52.73  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=21.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      |.|.|++|+||||+|+.+++...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            77999999999999999998764

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.10  E-value=0.025  Score=52.65  Aligned_cols=25  Identities=20%  Similarity=0.416  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++|.|+|++|+|||||++.+.++..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            6889999999999999999987653

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=93.10  E-value=0.12  Score=51.70  Aligned_cols=28  Identities=21%  Similarity=0.215  Sum_probs=24.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ...-+|+|.|..|+||||+|+.+.....
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~  105 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHh
Confidence            3457999999999999999999998775

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=92.99  E-value=0.023  Score=58.97  Aligned_cols=45  Identities=22%  Similarity=0.262  Sum_probs=34.2

Q ss_pred             ccccchHHHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          161 EAFESRVSTLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       161 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      ..++|.+..++.+.-.....+..-|-++|.+|+||||+|+.+..-
T Consensus         7 ~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHh
Confidence            467999987776654443333456889999999999999999763

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.98  E-value=0.1  Score=51.04  Aligned_cols=88  Identities=17%  Similarity=0.254  Sum_probs=51.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhcc----CCCEEEEEEeCCCcCHHHHHHHHHHHhCCCC-------------CCc
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKK----LFDRVVFSEVSQTPDIKKIQGEIAEKLGLEL-------------SDE  244 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~-------------~~~  244 (1085)
                      -+++-|+|.+|+||||+|.++........    .-..++|++....+....... ....++...             ...
T Consensus        34 G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  112 (251)
T d1szpa2          34 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVS-IAQRFGLDPDDALNNVAYARAYNAD  112 (251)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGGHH-HHHHTCCCHHHHGGGEEEEECCSTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHHHH-HHHhcCCchhhhhcceEEEeccchh
Confidence            46999999999999999998876543221    124688888877765433322 222332211             011


Q ss_pred             hHHHHHHHHHHHHHcCCcEEEEEeCC
Q 037935          245 AEYRRASRLYERLKNENKILVILDNI  270 (1085)
Q Consensus       245 ~~~~~~~~~~~~l~~~~~~LlvlDdv  270 (1085)
                      ...................++++|.+
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~ds~  138 (251)
T d1szpa2         113 HQLRLLDAAAQMMSESRFSLIVVDSV  138 (251)
T ss_dssp             THHHHHHHTHHHHHHSCEEEEEEETG
T ss_pred             HHHHHHHHHHHHhhccccceeeehhh
Confidence            12222333444444567778888876

>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=92.94  E-value=0.024  Score=53.20  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|+|+|++|+|||||++.+.+...
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            377999999999999999988765

>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=92.79  E-value=0.027  Score=53.14  Aligned_cols=27  Identities=30%  Similarity=0.300  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.++|.|.|++|+||||+|+.+.+...
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~g   33 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKYG   33 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHTC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            458999999999999999999988653

>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=92.75  E-value=0.033  Score=51.87  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            367999999999999999999874

>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=92.72  E-value=0.031  Score=52.28  Aligned_cols=25  Identities=20%  Similarity=0.312  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      -.|.|.|++|+||||+|+.+.+...
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~g   31 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHFE   31 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHBC
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHHC
Confidence            3566889999999999999998653

>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=92.72  E-value=0.031  Score=51.99  Aligned_cols=24  Identities=25%  Similarity=0.277  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            367889999999999999998874

>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=92.58  E-value=0.036  Score=56.12  Aligned_cols=40  Identities=25%  Similarity=0.432  Sum_probs=30.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCC
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQT  223 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  223 (1085)
                      .+.|+|.|-||+||||+|..+......++ + .++-|++-..
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~~G-~-rVLlID~DpQ   41 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAEMG-K-KVMIVGCDPK   41 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHTT-C-CEEEEEECSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHHCC-C-CEEEEecCCC
Confidence            46789999999999999999888776442 3 3666777443

>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=92.57  E-value=0.031  Score=52.42  Aligned_cols=24  Identities=17%  Similarity=0.153  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|.|.|++|+||||+|+.+.+...
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            577999999999999999988774

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.42  E-value=0.036  Score=51.15  Aligned_cols=25  Identities=12%  Similarity=0.353  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.|.|+|++|+|||||++.+..+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~   28 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCC
Confidence            6789999999999999999987643

>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=92.41  E-value=0.079  Score=53.69  Aligned_cols=48  Identities=21%  Similarity=0.289  Sum_probs=35.1

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHH
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKK  228 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  228 (1085)
                      +...++|.+.|-||+||||+|..+......+++  .+..|++-...++..
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~--rVLlvD~Dp~~~l~~   52 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLAEQGK--RVLLVSTDPASNVGQ   52 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEECCTTCCHHH
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHHHCCC--CEEEEeCCCCCCHHH
Confidence            345688999999999999999998887765432  366677655444433

>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=92.37  E-value=0.03  Score=52.29  Aligned_cols=25  Identities=32%  Similarity=0.420  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +-|.|+|++|+|||||++.+.++..
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCC
Confidence            3478999999999999999988754

>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=92.03  E-value=0.044  Score=50.81  Aligned_cols=23  Identities=22%  Similarity=0.301  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Q 037935          185 IGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      |.|.|++|+||||+|+.+.+...
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            44779999999999999998764

>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=91.88  E-value=0.041  Score=50.97  Aligned_cols=24  Identities=21%  Similarity=0.077  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            367899999999999999998764

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=91.54  E-value=0.055  Score=50.70  Aligned_cols=23  Identities=35%  Similarity=0.465  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFA  203 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~  203 (1085)
                      +.-+|+|.|..|+||||+|+.+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            34689999999999999999773

>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=91.53  E-value=0.086  Score=51.08  Aligned_cols=39  Identities=28%  Similarity=0.382  Sum_probs=31.1

Q ss_pred             ceEEEEE-cCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCC
Q 037935          182 VSIIGVY-GMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       182 ~~vi~I~-G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  222 (1085)
                      .|||+|+ |-||+||||+|..+......++  ..+++|++..
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la~~g--~~VlliD~D~   40 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALAQLG--HDVTIVDADI   40 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHHHTT--CCEEEEECCC
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHHhCC--CCEEEEeCCC
Confidence            3789998 7999999999999998877542  3577888753

>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=91.38  E-value=0.067  Score=52.22  Aligned_cols=46  Identities=13%  Similarity=0.265  Sum_probs=34.7

Q ss_pred             cccchHHHHHHHHHHhcc--CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          162 AFESRVSTLKSIQNALTD--VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       162 ~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .|||....++++.+.+..  ..-.-|.|.|..|+|||++|+.++....
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~   48 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSD   48 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcC
Confidence            378888888888777651  2223467899999999999999987543

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=91.36  E-value=0.058  Score=50.95  Aligned_cols=25  Identities=20%  Similarity=0.384  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ++|.|+|++|+|||||.+.+.....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            6789999999999999999988743

>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=91.14  E-value=0.18  Score=49.37  Aligned_cols=48  Identities=27%  Similarity=0.326  Sum_probs=36.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhc----cCCCEEEEEEeCCCcCHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREK----KLFDRVVFSEVSQTPDIKKI  229 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~  229 (1085)
                      -+++.|+|.+|+||||+|.++..+...+    ......+|+......+....
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            3799999999999999999998765422    12356888888777765444

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=91.07  E-value=0.069  Score=52.27  Aligned_cols=25  Identities=44%  Similarity=0.638  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ||+|+|+.|+|||||..++.+....
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~   26 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLED   26 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Confidence            7899999999999999999876653

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=90.88  E-value=0.063  Score=48.36  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      |.|+|.+|+|||||...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6699999999999999987654

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=90.85  E-value=0.061  Score=51.68  Aligned_cols=26  Identities=27%  Similarity=0.345  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|+.|+|||||++.++--.
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34699999999999999999997643

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=90.70  E-value=0.2  Score=49.00  Aligned_cols=87  Identities=16%  Similarity=0.182  Sum_probs=51.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCc-CHHHHHHHHHHHhCCC--------CCCc-----hHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTP-DIKKIQGEIAEKLGLE--------LSDE-----AEYR  248 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~--------~~~~-----~~~~  248 (1085)
                      ..++|+|.+|+|||+|+........  .+-+.++++-+.... ...++.+++.+.-...        .++.     -...
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~~--~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~  145 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQQ--GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPY  145 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCC--TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHH
T ss_pred             ceEeeccCCCCChHHHHHHHHhhhc--ccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHH
Confidence            4588999999999999987655433  334677788776654 3444444443321000        0110     1112


Q ss_pred             HHHHHHHHHH-cCCcEEEEEeCCC
Q 037935          249 RASRLYERLK-NENKILVILDNIW  271 (1085)
Q Consensus       249 ~~~~~~~~l~-~~~~~LlvlDdv~  271 (1085)
                      ....+.++++ ++++.|+++||+.
T Consensus       146 ~a~tiAEyfrd~G~~Vlll~Dslt  169 (276)
T d1fx0a3         146 TGAALAEYFMYRERHTLIIYDDLS  169 (276)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHcCCceeEEeeccH
Confidence            2333444444 5899999999974

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.58  E-value=0.41  Score=47.06  Aligned_cols=80  Identities=14%  Similarity=0.073  Sum_probs=44.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhhccCC-CEEEEEEeCCCcCHHHHHHHHHHHhCCC-------CCCchHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAREKKLF-DRVVFSEVSQTPDIKKIQGEIAEKLGLE-------LSDEAEYRRASR  252 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~~i~~~l~~~-------~~~~~~~~~~~~  252 (1085)
                      ..-+|+|-|..|+||||||..+......+..+ ..++-++.-.=+-..+-...+.+.....       ....-+...+..
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~~  105 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQE  105 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHHH
Confidence            34599999999999999999988766443212 2344455433222222234444443211       122234455666


Q ss_pred             HHHHHHcC
Q 037935          253 LYERLKNE  260 (1085)
Q Consensus       253 ~~~~l~~~  260 (1085)
                      .++.++++
T Consensus       106 ~l~~l~~~  113 (286)
T d1odfa_         106 VLNTIFNN  113 (286)
T ss_dssp             HHHHHTC-
T ss_pred             HHHHHHhh
Confidence            77777543

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=90.51  E-value=0.058  Score=51.50  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-.+++|+|..|+|||||.+.+.--
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCC
Confidence            4479999999999999999988654

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.50  E-value=0.068  Score=51.01  Aligned_cols=27  Identities=26%  Similarity=0.354  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-.+++|+|+.|+|||||.+.++--.+
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~~   51 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLET   51 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            447999999999999999999876443

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=90.47  E-value=0.049  Score=53.78  Aligned_cols=28  Identities=32%  Similarity=0.488  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +..||+|.|.+|+||||+|+.+.+..+.
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~   30 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRR   30 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            4579999999999999999998886654

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=90.14  E-value=0.076  Score=50.88  Aligned_cols=27  Identities=26%  Similarity=0.356  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-.+++|+|+.|+|||||.+.+.--.+
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            446999999999999999999876443

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=90.03  E-value=0.055  Score=50.83  Aligned_cols=27  Identities=33%  Similarity=0.538  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-.+++|+|+.|+|||||.+.++.-.+
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcccc
Confidence            346899999999999999999976443

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=90.03  E-value=0.074  Score=51.35  Aligned_cols=26  Identities=38%  Similarity=0.543  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-..++|+|..|.|||||++.+..-.
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            34789999999999999999997644

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=90.02  E-value=0.063  Score=51.54  Aligned_cols=27  Identities=37%  Similarity=0.527  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-.+++|+|..|+|||||++.++--.+
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl~~   56 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLLER   56 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCcc
Confidence            347999999999999999999976443

>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=90.01  E-value=0.15  Score=48.30  Aligned_cols=31  Identities=29%  Similarity=0.452  Sum_probs=25.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhccCCCEE
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQAREKKLFDRV  215 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~  215 (1085)
                      .|+|-|.-|+||||+++.+.+....++ +..+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~g-~~v~   32 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAAG-RSVA   32 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTT-CCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC-CCEE
Confidence            588999999999999999998876543 4443

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=89.97  E-value=0.079  Score=48.16  Aligned_cols=21  Identities=33%  Similarity=0.548  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |+|+|.+|+|||||.+.+..+
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            779999999999999998764

>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=89.97  E-value=0.66  Score=45.39  Aligned_cols=99  Identities=14%  Similarity=0.167  Sum_probs=54.9

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHHHHhhcc-CC-----CEEEEEEeCCCc-CHHHHHHHHHHHhCCC----
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVKEFARQAREKK-LF-----DRVVFSEVSQTP-DIKKIQGEIAEKLGLE----  240 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-~f-----~~~~wv~~~~~~-~~~~~~~~i~~~l~~~----  240 (1085)
                      .++.+. =..-..++|.|.+|+|||+++..+........ .-     ..++++-+.... ...++.+.+...-...    
T Consensus        58 aID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvv  137 (285)
T d2jdia3          58 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIV  137 (285)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEE
T ss_pred             EEecccCccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEE
Confidence            455554 12345788999999999999988776543211 11     135666666554 3455555554432111    


Q ss_pred             ----CCCchHHH-----HHHHHHHHHH-cCCcEEEEEeCCC
Q 037935          241 ----LSDEAEYR-----RASRLYERLK-NENKILVILDNIW  271 (1085)
Q Consensus       241 ----~~~~~~~~-----~~~~~~~~l~-~~~~~LlvlDdv~  271 (1085)
                          .++.....     ....+.++++ ++|++|+++||+.
T Consensus       138 v~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dslt  178 (285)
T d2jdia3         138 VSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLS  178 (285)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChH
Confidence                11111111     1122333333 5899999999974

>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=89.96  E-value=0.11  Score=49.25  Aligned_cols=27  Identities=19%  Similarity=0.295  Sum_probs=24.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ..|+|-|+-|+||||+++.+.+....+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~   30 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAA   30 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            578999999999999999999988765

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=89.92  E-value=0.071  Score=52.00  Aligned_cols=26  Identities=23%  Similarity=0.332  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            44799999999999999999996543

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=89.85  E-value=0.17  Score=52.25  Aligned_cols=29  Identities=21%  Similarity=0.037  Sum_probs=25.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      ..-+.+.++|++|+|||++|+.+++....
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~~~  180 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELCGG  180 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            44578999999999999999999998864

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=89.77  E-value=0.086  Score=49.47  Aligned_cols=26  Identities=15%  Similarity=0.419  Sum_probs=22.7

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHH
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      +++++.|+|+|.+|+|||||...+..
T Consensus        20 ~~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          20 EGGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHhcC
Confidence            34667899999999999999999975

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=89.76  E-value=0.084  Score=51.05  Aligned_cols=25  Identities=36%  Similarity=0.405  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4579999999999999999998653

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=89.73  E-value=0.086  Score=50.41  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+++|+|+.|+|||||.+.++--.+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~   49 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCC
Confidence            4889999999999999999987543

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=89.69  E-value=0.061  Score=50.64  Aligned_cols=27  Identities=26%  Similarity=0.306  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .+.-+|+|-|..|+||||+++.+.+..
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            344589999999999999999987644

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=89.63  E-value=0.12  Score=47.89  Aligned_cols=32  Identities=22%  Similarity=0.279  Sum_probs=23.1

Q ss_pred             HHHHhc-cCCceEEEEEcCCCCcHHHHHHHHHH
Q 037935          173 IQNALT-DVNVSIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       173 l~~~l~-~~~~~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      +++++. .++..-|+++|.+|+|||||..++..
T Consensus         3 ~~~~~~~~~k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_           3 VLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             HHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             hHHhccccCCCCEEEEECCCCCCHHHHHHHHhC
Confidence            344443 33445677999999999999988744

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=89.61  E-value=0.082  Score=51.62  Aligned_cols=24  Identities=25%  Similarity=0.445  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      .-.+++|+|..|+|||||++.+.-
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHc
Confidence            447999999999999999999975

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.43  E-value=0.093  Score=48.09  Aligned_cols=21  Identities=29%  Similarity=0.547  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |.|+|.+|+|||||+..+.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            679999999999999998764

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.40  E-value=0.094  Score=51.01  Aligned_cols=28  Identities=18%  Similarity=0.233  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      ..-.+++|+|..|+|||||++.+..-.+
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            3457999999999999999999976443

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=89.40  E-value=0.15  Score=52.79  Aligned_cols=26  Identities=31%  Similarity=0.381  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ..+.+-.+|+.|||||-||+.++...
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            34668899999999999999998764

>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=89.37  E-value=0.26  Score=43.46  Aligned_cols=30  Identities=23%  Similarity=0.289  Sum_probs=26.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      ...-+|.+.|.=|+||||++|.+.+...++
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            344689999999999999999999988764

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=89.33  E-value=0.074  Score=50.57  Aligned_cols=26  Identities=23%  Similarity=0.245  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|+.|+|||||.+.+.--.
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            44699999999999999999998744

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.30  E-value=0.097  Score=47.44  Aligned_cols=21  Identities=24%  Similarity=0.699  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |+++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988763

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.22  E-value=0.099  Score=47.49  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+|+|.+|+|||+|+..+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999998764

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.22  E-value=0.098  Score=47.44  Aligned_cols=22  Identities=36%  Similarity=0.419  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.++|.+|+|||||+..+.++
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999998875

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=89.21  E-value=0.15  Score=46.77  Aligned_cols=34  Identities=21%  Similarity=0.338  Sum_probs=25.0

Q ss_pred             HHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          171 KSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       171 ~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .++..++..... .|.|+|.+|+|||||..++...
T Consensus         5 ~~~~~~~~~k~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQEH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSCE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCeE-EEEEECCCCCCHHHHHHHHhcC
Confidence            445555544444 5679999999999999987654

>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=89.20  E-value=0.3  Score=46.12  Aligned_cols=36  Identities=25%  Similarity=0.323  Sum_probs=27.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEE
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSE  219 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~  219 (1085)
                      +.|+|-|..|+||||+++.+.+..... .+..+.+..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~-g~~~~~~~~   38 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQL-GIRDMVFTR   38 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhC-CCCeEEEec
Confidence            578899999999999999999987654 244444443

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.12  E-value=0.092  Score=52.07  Aligned_cols=26  Identities=23%  Similarity=0.364  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|+.|+|||||++.+.--.
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            45789999999999999999997644

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.98  E-value=0.39  Score=46.84  Aligned_cols=49  Identities=18%  Similarity=0.243  Sum_probs=37.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh----ccCCCEEEEEEeCCCcCHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE----KKLFDRVVFSEVSQTPDIKKI  229 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~~~~~~  229 (1085)
                      .-+++.|+|.+|+|||++|.++......    ...+..+.|+.....+.....
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRL   88 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHH
Confidence            3479999999999999999999876432    234567889888777665433

>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=88.77  E-value=0.15  Score=49.51  Aligned_cols=37  Identities=27%  Similarity=0.446  Sum_probs=29.0

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeC
Q 037935          183 SIIGVY-GMGGIGKTTLVKEFARQAREKKLFDRVVFSEVS  221 (1085)
Q Consensus       183 ~vi~I~-G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  221 (1085)
                      +||+|+ +-||+||||+|..+......++ . .++-|+..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~g-~-~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDRG-R-KVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTT-C-CEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCC-C-CEEEEeCC
Confidence            789999 6789999999999998877542 3 46667764

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.72  E-value=0.11  Score=47.14  Aligned_cols=21  Identities=29%  Similarity=0.532  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |+|+|.+|+|||+|++.+.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.70  E-value=0.11  Score=47.16  Aligned_cols=22  Identities=32%  Similarity=0.576  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.|+|.+|+|||+|+..+..+
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3689999999999999988763

>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=88.60  E-value=0.13  Score=50.12  Aligned_cols=27  Identities=22%  Similarity=0.309  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      +.+.|+|=|.-|+||||+++.+.+...
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHh
Confidence            357899999999999999999998764

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.57  E-value=0.12  Score=47.06  Aligned_cols=22  Identities=23%  Similarity=0.587  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      |+|+|.+|+|||||.+.+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987643

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=88.51  E-value=0.12  Score=48.91  Aligned_cols=19  Identities=37%  Similarity=0.604  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEF  202 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v  202 (1085)
                      +|+|+|+.|+||||+|+.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999865

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.49  E-value=0.12  Score=47.00  Aligned_cols=22  Identities=36%  Similarity=0.673  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.++|.+|+|||+|..++.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998764

>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=88.44  E-value=0.58  Score=44.94  Aligned_cols=40  Identities=25%  Similarity=0.206  Sum_probs=27.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH-HhhccCCCEEEEEEeCC
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ-AREKKLFDRVVFSEVSQ  222 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~-~~~~~~f~~~~wv~~~~  222 (1085)
                      .-+++.|+|.+|+|||++|.++... .....  ..++|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~--~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGIIEFD--EPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHHC--CCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhcC--CCcccccccC
Confidence            3479999999999999999776543 33221  2366666543

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=88.41  E-value=0.12  Score=47.04  Aligned_cols=21  Identities=29%  Similarity=0.526  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |.++|.+|+|||||...+.++
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988764

>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=88.22  E-value=0.31  Score=46.16  Aligned_cols=28  Identities=21%  Similarity=0.274  Sum_probs=24.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHhh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQARE  208 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~  208 (1085)
                      +-+.|+|-|.-|+||||+++.+.+..+.
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~   29 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQP   29 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            3478999999999999999999988764

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.20  E-value=0.13  Score=46.95  Aligned_cols=23  Identities=26%  Similarity=0.507  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36899999999999999988643

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.11  E-value=0.11  Score=47.46  Aligned_cols=21  Identities=43%  Similarity=0.977  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |+|+|.+|+|||||...+..+
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999988764

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.01  E-value=0.13  Score=46.71  Aligned_cols=22  Identities=32%  Similarity=0.774  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      |.++|.+|+|||+|.+.+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5789999999999999988743

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.00  E-value=0.13  Score=47.04  Aligned_cols=22  Identities=41%  Similarity=0.678  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.|+|.+|+|||||.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998864

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.94  E-value=0.074  Score=51.93  Aligned_cols=26  Identities=23%  Similarity=0.325  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .+.|+|-|+-|+||||+|+.+.+...
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            57899999999999999999887653

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.89  E-value=0.14  Score=46.54  Aligned_cols=22  Identities=36%  Similarity=0.714  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      |.++|.+|+|||+|...+....
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6799999999999999987653

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.88  E-value=0.13  Score=47.09  Aligned_cols=22  Identities=36%  Similarity=0.644  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.|+|.+|+|||+|...+.++
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4679999999999999988764

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.76  E-value=0.12  Score=47.05  Aligned_cols=21  Identities=29%  Similarity=0.555  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      -|+|+|.+|+|||+|++.+.+
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhC
Confidence            378999999999999998765

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=87.73  E-value=0.13  Score=48.52  Aligned_cols=20  Identities=45%  Similarity=0.630  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEF  202 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v  202 (1085)
                      -+|+|+|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999876

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=87.69  E-value=0.13  Score=46.61  Aligned_cols=21  Identities=33%  Similarity=0.575  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      -|.|+|.+|+|||||...+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            367999999999999998754

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.60  E-value=0.14  Score=46.81  Aligned_cols=22  Identities=27%  Similarity=0.608  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+|+|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999988763

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=87.58  E-value=0.091  Score=50.37  Aligned_cols=26  Identities=35%  Similarity=0.492  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-.+++|+|+.|+|||||.+.+.--.
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            34799999999999999999997743

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.58  E-value=0.14  Score=46.76  Aligned_cols=22  Identities=36%  Similarity=0.640  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.|+|.+|+|||+|...+..+
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999988764

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.55  E-value=0.14  Score=46.43  Aligned_cols=22  Identities=32%  Similarity=0.546  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+++|.+|+|||||...+.+.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999988764

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.47  E-value=0.15  Score=46.71  Aligned_cols=22  Identities=32%  Similarity=0.661  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+|+|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988763

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.37  E-value=0.14  Score=46.36  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-|+|+|..|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45789999999999999988763

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.28  E-value=0.15  Score=46.25  Aligned_cols=21  Identities=33%  Similarity=0.681  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |+++|.+|+|||||...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998874

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=87.25  E-value=0.17  Score=46.47  Aligned_cols=24  Identities=21%  Similarity=0.455  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .+.|+|+|.+|+|||||...+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999998864

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.20  E-value=0.16  Score=46.25  Aligned_cols=22  Identities=23%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      |+|+|..|+|||+|...+....
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6689999999999999987653

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.05  E-value=0.15  Score=46.56  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+++|.+|+|||||+..+..+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988764

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=87.02  E-value=0.17  Score=46.14  Aligned_cols=21  Identities=24%  Similarity=0.502  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      .|+|+|.+|+|||||..++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999864

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.00  E-value=0.16  Score=46.85  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.|+|.+|+|||+|..++.++
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998764

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=86.95  E-value=0.18  Score=47.01  Aligned_cols=22  Identities=32%  Similarity=0.472  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      |.++|.+|+|||+|.+++..+.
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            6799999999999999876654

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=86.94  E-value=0.16  Score=48.99  Aligned_cols=27  Identities=33%  Similarity=0.463  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-.+++|+|+.|.|||||.+.+.--.+
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            346999999999999999999976543

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.90  E-value=0.16  Score=46.64  Aligned_cols=22  Identities=27%  Similarity=0.368  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.|+|.+|+|||+|...+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678999999999999888764

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=86.80  E-value=0.16  Score=46.58  Aligned_cols=24  Identities=29%  Similarity=0.540  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .+.|+|+|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            578999999999999999999863

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=86.69  E-value=0.16  Score=48.72  Aligned_cols=27  Identities=30%  Similarity=0.475  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-.+++|+|+.|+|||||.+.+.--..
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            447999999999999999999876543

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.59  E-value=0.61  Score=44.28  Aligned_cols=48  Identities=17%  Similarity=0.171  Sum_probs=33.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhcc----CCCEEEEEEeCCCcCHHHH
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKK----LFDRVVFSEVSQTPDIKKI  229 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~  229 (1085)
                      -.++.|.|.+|+|||++|.++..+.....    .+....++..........+
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   74 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHH
Confidence            36999999999999999999887654322    2234566666655554433

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.56  E-value=0.18  Score=45.85  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+|+|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999988764

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.55  E-value=0.17  Score=46.91  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      -|.|+|.+|+|||||+..+.+
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            377999999999999998875

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=86.52  E-value=0.15  Score=49.66  Aligned_cols=27  Identities=22%  Similarity=0.337  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .-.+++|+|+.|.|||||++.+.--.+
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            346999999999999999999976543

>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=86.48  E-value=0.23  Score=47.43  Aligned_cols=28  Identities=21%  Similarity=0.177  Sum_probs=24.4

Q ss_pred             eEEEEEcCC-CCcHHHHHHHHHHHHhhcc
Q 037935          183 SIIGVYGMG-GIGKTTLVKEFARQAREKK  210 (1085)
Q Consensus       183 ~vi~I~G~~-G~GKTtLa~~v~~~~~~~~  210 (1085)
                      +.+.|.|-| ||||||++-.+......++
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G   30 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAG   30 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCC
Confidence            578899998 9999999999999887653

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=86.47  E-value=0.15  Score=46.64  Aligned_cols=22  Identities=41%  Similarity=0.558  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      --|+|+|.+|+|||||...+..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3577999999999999998854

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.46  E-value=0.19  Score=47.57  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      +.|+|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999764

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.36  E-value=0.2  Score=45.02  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+++|.+|+|||||...+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999987663

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.34  E-value=0.27  Score=46.29  Aligned_cols=33  Identities=21%  Similarity=0.503  Sum_probs=24.9

Q ss_pred             HHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          170 LKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       170 ~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      ++.+.++|.+   +..+++|.+|||||||..++..+
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcch
Confidence            3445665532   57789999999999999988644

>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=86.26  E-value=0.38  Score=46.79  Aligned_cols=55  Identities=18%  Similarity=0.190  Sum_probs=36.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHHHhhcc--------------CCCEEEEEEeCCCcCHHHHHHHHHHHh
Q 037935          182 VSIIGVYGMGGIGKTTLVKEFARQAREKK--------------LFDRVVFSEVSQTPDIKKIQGEIAEKL  237 (1085)
Q Consensus       182 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~--------------~f~~~~wv~~~~~~~~~~~~~~i~~~l  237 (1085)
                      -.++.|+|.+|+|||++|.+++.+....+              .-..+.|++........ ..+.+...+
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~-~~~~~~~~~  102 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE-RIMQMAEHA  102 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH-HHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHH-HHHHHHhhc
Confidence            37999999999999999999987654321              11246788776555533 333444444

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.18  E-value=0.18  Score=46.65  Aligned_cols=22  Identities=36%  Similarity=0.527  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.|+|.+|+|||+|...+.++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            4789999999999999988764

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=86.16  E-value=0.19  Score=46.41  Aligned_cols=21  Identities=29%  Similarity=0.703  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |+++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988763

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=86.05  E-value=0.2  Score=45.44  Aligned_cols=23  Identities=30%  Similarity=0.569  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      --|.|+|.+|+|||||+..+.++
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45789999999999999998764

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.02  E-value=0.18  Score=47.00  Aligned_cols=22  Identities=27%  Similarity=0.539  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+|+|.+|+|||||+..+...
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            3789999999999999998764

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=85.93  E-value=0.23  Score=48.26  Aligned_cols=24  Identities=21%  Similarity=0.171  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      ++|+|.|..|+||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            689999999999999999987753

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.82  E-value=0.19  Score=45.73  Aligned_cols=21  Identities=38%  Similarity=0.575  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      -|.++|.+|+|||+|+..+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            477999999999999998764

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.72  E-value=0.21  Score=47.08  Aligned_cols=23  Identities=22%  Similarity=0.231  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      +-|+|+|.+|+|||||..++...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999998764

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=85.64  E-value=0.13  Score=49.90  Aligned_cols=26  Identities=31%  Similarity=0.427  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      .-..++|+|..|.|||||++.+..-.
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            44799999999999999999886533

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.56  E-value=0.2  Score=45.95  Aligned_cols=21  Identities=43%  Similarity=0.561  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |.++|..|+|||+|++.+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999988774

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.49  E-value=0.22  Score=45.20  Aligned_cols=22  Identities=36%  Similarity=0.668  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQA  206 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~~  206 (1085)
                      |.++|.+|+|||+|...+.++.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5688999999999999988743

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.41  E-value=0.22  Score=45.58  Aligned_cols=21  Identities=33%  Similarity=0.664  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |.++|.+|+|||||...+.++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.39  E-value=0.22  Score=45.42  Aligned_cols=22  Identities=27%  Similarity=0.659  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.|+|.+|+|||||+..+.++
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999888763

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=85.26  E-value=0.15  Score=46.85  Aligned_cols=20  Identities=30%  Similarity=0.665  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~  204 (1085)
                      |+|+|.+|+|||||...+..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999864

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=85.22  E-value=0.22  Score=47.45  Aligned_cols=25  Identities=28%  Similarity=0.486  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .++|+.|.|.-|.|||||.+++.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5789999999999999999988764

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=85.20  E-value=0.16  Score=48.64  Aligned_cols=24  Identities=33%  Similarity=0.497  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 037935          181 NVSIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       181 ~~~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      .-.+++|+|..|.|||||.+.+.-
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            347999999999999999998875

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=85.00  E-value=0.24  Score=44.62  Aligned_cols=22  Identities=32%  Similarity=0.359  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+++|.+|+|||||...+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3568999999999999988653

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.87  E-value=0.23  Score=46.20  Aligned_cols=21  Identities=33%  Similarity=0.534  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |+++|.+|+|||+|...+.++
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999888764

>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=84.86  E-value=0.9  Score=44.81  Aligned_cols=53  Identities=19%  Similarity=0.184  Sum_probs=36.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhccCCCEEEEEEeCCCcCHHHHHHHHHHHhC
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREKKLFDRVVFSEVSQTPDIKKIQGEIAEKLG  238 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  238 (1085)
                      .++.|.|.+|+||||++.++..+...+..+. +++++.  +.+..++...++....
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~-v~~~s~--E~~~~~~~~r~~~~~~   88 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGKK-VGLAML--EESVEETAEDLIGLHN   88 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCCC-EEEEES--SSCHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhcccc-eeEeee--ccchhhHHhHHHHHhh
Confidence            5788999999999999999887654333333 444444  4566777766665544

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.81  E-value=0.21  Score=46.71  Aligned_cols=19  Identities=37%  Similarity=0.585  Sum_probs=17.2

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEF  202 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v  202 (1085)
                      -|.|+|.+|+|||||...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3679999999999999988

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.76  E-value=0.25  Score=45.14  Aligned_cols=22  Identities=32%  Similarity=0.564  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+++|.+|+|||||...+.+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988764

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=84.69  E-value=0.28  Score=44.65  Aligned_cols=26  Identities=23%  Similarity=0.387  Sum_probs=20.7

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHH
Q 037935          179 DVNVSIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       179 ~~~~~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      ...++ |.++|.+|+|||||...+.+.
T Consensus        10 ~k~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          10 NKEMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             TCCEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             CCeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            34555 669999999999999988653

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.67  E-value=0.24  Score=46.25  Aligned_cols=21  Identities=29%  Similarity=0.488  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037935          185 IGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       185 i~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      |.++|.+|+|||+|...+...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999998554

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.41  E-value=0.13  Score=46.85  Aligned_cols=22  Identities=41%  Similarity=0.540  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+|+|.+|+|||+|..++.++
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999887664

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=83.56  E-value=0.21  Score=46.08  Aligned_cols=21  Identities=29%  Similarity=0.564  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      -|+|+|.+|+|||||..++..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=83.08  E-value=0.28  Score=45.14  Aligned_cols=21  Identities=29%  Similarity=0.420  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      -|+|+|.+|+|||||..++..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999875

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=82.92  E-value=0.3  Score=43.74  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+|+|.+|+|||||..++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999988743

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=82.75  E-value=0.76  Score=47.09  Aligned_cols=63  Identities=17%  Similarity=0.055  Sum_probs=38.4

Q ss_pred             HHHHHHHHHhccCCceEEEEEcCCCCcHHHHHHHHHHHHhhc-cCCCEEEEEEeCCCcCHHHHHHHH
Q 037935          168 STLKSIQNALTDVNVSIIGVYGMGGIGKTTLVKEFARQAREK-KLFDRVVFSEVSQTPDIKKIQGEI  233 (1085)
Q Consensus       168 ~~~~~l~~~l~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~~~~~~~~~i  233 (1085)
                      .....+...+.   -+++.|.|.+|.||||++..+....... ..-...+++..+.......+.+.+
T Consensus       152 ~Q~~A~~~al~---~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         152 WQKVAAAVALT---RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             HHHHHHHHHHT---BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc---CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            44555555553   3689999999999999987766544322 112335666666544444444443

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.72  E-value=0.19  Score=45.79  Aligned_cols=22  Identities=27%  Similarity=0.501  Sum_probs=8.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|.|+|.+|+|||||...+..+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999877653

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=82.65  E-value=0.22  Score=45.83  Aligned_cols=21  Identities=33%  Similarity=0.525  Sum_probs=17.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFA  203 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~  203 (1085)
                      --|.++|.+|+|||||...+.
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTC
T ss_pred             EEEEEECCCCCCHHHHHHHHh
Confidence            345699999999999998874

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=82.17  E-value=0.39  Score=45.71  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      .-|.++|.+|+|||||.+.+...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999988544

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=81.88  E-value=0.25  Score=45.56  Aligned_cols=25  Identities=12%  Similarity=0.178  Sum_probs=21.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHH
Q 037935          180 VNVSIIGVYGMGGIGKTTLVKEFAR  204 (1085)
Q Consensus       180 ~~~~vi~I~G~~G~GKTtLa~~v~~  204 (1085)
                      ++...|+|+|.+++|||||..++..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            4567899999999999999987743

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=81.82  E-value=0.36  Score=44.47  Aligned_cols=22  Identities=23%  Similarity=0.465  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037935          184 IIGVYGMGGIGKTTLVKEFARQ  205 (1085)
Q Consensus       184 vi~I~G~~G~GKTtLa~~v~~~  205 (1085)
                      -|+|+|..|+|||||..++...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999988764

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=80.97  E-value=0.34  Score=51.33  Aligned_cols=27  Identities=30%  Similarity=0.450  Sum_probs=23.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHhhc
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAREK  209 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~~~  209 (1085)
                      +=|-++|+.|+|||.||+.++....+-
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l~VP   76 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLANAP   76 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            458899999999999999999877543

>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=80.60  E-value=0.52  Score=46.58  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHh
Q 037935          183 SIIGVYGMGGIGKTTLVKEFARQAR  207 (1085)
Q Consensus       183 ~vi~I~G~~G~GKTtLa~~v~~~~~  207 (1085)
                      .++.|+|.+|+||||+|..++....
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            5788999999999999998887654