Citrus Sinensis ID: 000945

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050------1060------1070------1080------1090------1100------1110------1120------1130------1140------1150------1160------1170------1180------1190------1200------1210--
Protein Sequence
MPHFIFSATAKVLGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIEDEEKEKKKCLKGLCPNLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLYKGCWEGDLNTTIQQLQKNELPLLLPIASSSSSLAAPTTGNQVPLNLSGNRKTQSFSLQPPLRTTSPTFSSGKPAADNNPSLSLSSCSTRTKQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSIGPANEHDNEEGERNIEESKNNADETQKQV
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccEEEccccccccEEcccccccccccHHHHHHHHHHHHcccccEEEEEEcccccHHHHHHHHHHHHHcccccccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccccccccccccccccccccEEEEccccccccccHHHHccccEEEEccccccccccccccccccccHHHHHHcccccHHHHHcccccccccccHHHHHccccccccEEEccccccccccccHHHHHHHHHHHcccccccccccHHHHHHHHcccccHHHHHHHHHHHHHHHcccccccccccccccHHHHccccEEEEEccccEEEEEcccccEEccccccccEEEEcccccccccccccccccccccccEEEEccccccccccccccccccccccEEEEcccccccHHHHccccccccccccccEEcccccEEEcccccccccccccccccHHHHcccccccccccccccHHcccccccccccccccccccccEEEEEcccccccccccccccccccccEEEEEEccccccccccccccccccccEEEEEEcccccEEcccccccccccccccccccEEEEccccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccEEEEEccccccccHHHHHccccccEEEEEcccccEEcccHHHHHHHcccccccEEEEcccccccEEEccccccccccccccEEEEEcccccccccccccccccccEEEEEcccccccccccccccccccccEEEEcccccccEEEcccccccccccccccccEEEcccccccccccccccccccccccEEEEEccccccccccccccccccEEEEEEcccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHEEccccHHHHHHHHHHccccccEEEEEEccccccEEEEEccccHHHHHHHHHHHccccEEEEccccccccHHHccHHHHHcccHHHHHHcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEHHHHHHccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHcccccEEccccccccccccccccccccccHHHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHHHHHHcccccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHccEEEEEccHHHHccHHHHccccccccccccHcHHHHHcccccEEEEcccccccccccHHHHHHHHHHccccccHcHHHHHHHcccHHHHHHHHHHHHHHcccccccccccccccccHHHcHHHHcEEEEEEccccccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHEEEEEcccccEEEEEcccccccccccccccccEEcccccHHHccccccccccccccEEEEEcccccccccccHHHHHHHHcccEEEEcccHHHHHHHHHccccHHccccccEEEcccccEEEEcccHcHcHcccccccccccEEEEccccHHHccccccccHHHHHHHHHHHHccccccccEEEEcccccccccccccccccccccEEEEEccccccHccccHHHHHHHHcccEEEEcccHcHHHHEcccccccccccEEccccEEEEEcccHHHHHHcccccccccccccEEEEEcccccEEccHHHHHHHHHHHcccccccccccccHHcHcccccHccHccccccccccccccHHHHHcccEEEEEccccccccccHHHHHHcccEEEEcccccEEEEcccccHHHHHHcccccEEEEcccccHHHHccccccccccccHccEEEEcccccccccccccccccccEEEEEccccccHHcccHHHHHHHHHHcEEEEcccHcHHEEEccccccccccEEcccccEEEHcccccccEccccccccccccccEEEEEcccccEEcccccccccccEEEEEEccccccccccccHHHHHHHHHcccccccccccccHHcccccccccccccccccEEEEEEEEcccEEEEccccccccccccccccccEEEccccccHHHHHEHccccHHHHHHHHHHHHHHHHHHHEEccccccEEEEEEccccHHHHHHHHHHHHHHHEEEcccccccccccccccccEccccccHHHccc
Coil and Loop (DISEMBL)
MPHFIFSATAKVLGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIEDEEKEKKKCLkglcpnlmnryQLSKKAAWEVKAIAGLleegkfdevsfctkpegILLMCSEGYEAFESRKSILNDALdalsnpnvnviglcglggigkTTLAKIVFYQAKKLKLCDEVVFVEvsqtpdvkriqgdiadQLGLYICEGSESERAMVLCGLLkkgkkilvLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLfdlsgcsklkvippnllsglsrledlymgnTSVKWEFeglnvgrsnaSLQELKLLSHLTTLEIQICDamilpkglfskKLERYKIFigdewdwsgnyknkrVLKLKLYTSNVDEVIMQLKGIEElyldevpgiknVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSfsfvrglpqlqtlnvincknmkeiftvgrendvdchevdkiefsqlhsltlkflpqlTSFYSQVKTSAASQTRLKElsthtlpreviledecdtlmpffnekvvfpnletlELCAISTEKIWCNQLAAVYSQNLTRLIVHGCeklkylfpssmirnfvqLEHLEICYcsslesivgkesgeeatttfvfpKVTFLKLwnlselktfypgthtskwpmlkklevygcdkvkiFTSRFLRFQeinegqfdiptqQALFLVEKVTSKLEELKLSGKDIAMICQsqfpkhifrnlknlevvndesenfRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLinlvpssasfknltTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISkeedvaedEIVFSKLKWVSLERLEnltsfcsgnytlkfpsledlfviecpkmkifshrvlstprlrevrqnwglykgcwegdLNTTIQQLQKnelplllpiassssslaapttgnqvplnlsgnrktqsfslqpplrttsptfssgkpaadnnpslslsscstRTKQKAVLKLEIHGEKARQKAFSIVSKFTGVlsilfdpkdkkmivigdidaVPVVRKLRKQLCATELvsigpanehdneegernieesknnadetqkqv
Flexible Loop (DISEMBL)
MPHFIFSATAKVLGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVeagkliedeekEKKKCLKGLCPNLMNRYQLSKKAAWEVKAIAGLleegkfdevsFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEvsqtpdvkriqgdiADQLGLYICEGSESERAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFigdewdwsgnykNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSfsfvrglpqlqTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAasqtrlkelsthtlprevILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTfypgthtskwpmlKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLvtsstakslVCLTKLRIDGCRMLTEIiskeedvaedeIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKifshrvlstprlREVRQNWGLYKGCWEGDLNTTIQQLQKNELPLLLPIASSSSSLAAPTTGNQVPLNLSGNRKTQSFSLQPPLRTTSPTfssgkpaadnnpslslsscsTRTKQKAVLKLEIHGEKARQKAFSIVSKFTGVLSIlfdpkdkkmiviGDIDAVPVVRKLRKQLCATElvsigpanehdneegernieesknnadetqkqv
Low Complexity Region (SEG)
MPHFIFSATAKVLGQLVGAIPRQLRNYKSNFddlkkkteklkltledlHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIedeekekkkCLKGLCPNLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMvlcgllkkgkkilvlDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLYKGCWEGDLNTTIQQLQKNElplllpiassssslaapTTGNQVPLNLSGNRKTQSFSLQPPLRTTSPTFSSGKPAADNNPSLSLSSCSTRTKQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSIGPANEHDNEEGERNIEESKNNADETQKQV
Disordered region (IsUnstruct)
***FIFSATAKVLGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIED****KKKCLKGLCPNLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKT*******LKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLYKGCWEGDLNTTIQQLQKNELPLLLP*********************************************************************VLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSI*****************************
Disordered Region (DISOPRED)
MPHFIFSATAKVLGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIEDEEKEKKKCLKGLCPNLMNRYQLSKKAAW***************************************RKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE*SESERAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRE*******VDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILED*************VFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEI****EMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISK*ED**EDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLYKGCWEGDLNTTIQQLQKNELPLLL****************QVPLNLSGNRKTQSFSLQPPL***************************RTKQKAVLKLEIHG**A**KAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELV*******************************
Disordered Region (DISEMBL)
MPHFIFSATAKVLGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIEDEEKEKKKCLKGLCPNLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQ**********LKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLYKGCWEGDLNTTIQQLQKNELPLLLPIASSSSSLAAPTTGNQVPLNLSGNRKTQSFSLQPPLRTTSPTFSSGKPAADNNPSLSLSSCSTRTKQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSIGPAN*************************
Disordered Region (DISPRO)
MPHFIFSATAKVLGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIEDEEKEKKKCLKGLCPNLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLYKGCWEGDLNTTIQQLQKNELPLLLPIASSSSSLAAPTTGNQVPLNLSGNRKTQSFSLQPPLRTTSPTFSSGKPAADNNPSLSLSSCSTRTKQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSIGP***************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPHFIFSATAKVLGQLVGAIPRQxxxxxxxxxxxxxxxxxxxxxLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIEDEEKEKKKCLKGLCPNLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLYKGCWEGDLNTTIQQLQKNELPLLLPIASSSSSLAAPTTGNQVPLNLSGNRKTQSFSLQPPLRTTSPTFSSGKPAADNNPSLSLSSCSTRTKQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSIGPANEHDxxxxxxxxxxxxxxxxxxxxxV
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	1212	2.2.26 [Sep-21-2011]
O22727	967	Probable disease resistan	yes	no	0.194	0.244	0.285	3e-17
P60838	894	Probable disease resistan	no	no	0.191	0.259	0.308	5e-16
O64789	925	Probable disease resistan	no	no	0.194	0.255	0.281	7e-16
Q9FLB4	874	Putative disease resistan	no	no	0.194	0.270	0.284	1e-15
Q940K0	889	Probable disease resistan	no	no	0.203	0.277	0.267	2e-14
Q9T048	985	Disease resistance protei	no	no	0.222	0.274	0.251	7e-14
O81825	919	Probable disease resistan	no	no	0.247	0.326	0.267	1e-13
O64973	889	Disease resistance protei	no	no	0.205	0.280	0.279	1e-12
O82484	892	Putative disease resistan	no	no	0.196	0.266	0.293	8e-12
Q9LMP6	851	Probable disease resistan	no	no	0.227	0.324	0.257	2e-11

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

 Score = 91.7 bits (226), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 71/249 (28%), Positives = 132/249 (53%), Gaps = 13/249 (5%)

Query: 24  LRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKL 83
           +RN + N   L+++ E L+ T  ++   V   +   ++  ++V+ WL   N+  +E   L
Sbjct: 28  IRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKDL 87

Query: 84  IEDEEKEKKK-CLKGLCPNLM-NRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGIL 141
           +     E +K CL GLC   + + Y+  K+    ++ +  L  EG FDEVS   +P    
Sbjct: 88  LSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVS---QPPPRS 144

Query: 142 LMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQ-AKKLKLC 200
            +     +    ++ +L  A + L    V ++GL G+GG+GKTTL K +  + A+     
Sbjct: 145 EVEERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTF 204

Query: 201 DEVVFVEVSQTPDVKRIQGDIADQLGLYICEG-----SESERAMVLCGLLKKGKKILVLD 255
           D V+++ VSQ   + ++Q DIA++  L++C+      +ES++A  +  +LK  + +L+LD
Sbjct: 205 DIVIWIVVSQGAKLSKLQEDIAEK--LHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLD 262

Query: 256 NIWTSLDLD 264
           +IW  +DL+
Sbjct: 263 DIWEKVDLE 271

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 = 87.8 bits (216), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 75/243 (30%), Positives = 125/243 (51%), Gaps = 11/243 (4%)

Query: 30  NFDDLKKKTEKLKLTLEDLHLWVDAAK--ENGEEIEQSVEKWLISANTTVVEAGKLIEDE 87
           N   +KK  E LK   +D+   VD  +     E + Q V+ WL + +T   +  +L+   
Sbjct: 35  NVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQ-VQGWLTNVSTVENKFNELLTTN 93

Query: 88  EKEKKK-CLKGLCP-NLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCS 145
           + E ++ CL G C  N+   Y   K+    +K I  L  +G FD V+  T    I  M  
Sbjct: 94  DAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLATPIARIEEMPI 153

Query: 146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTL-AKIVFYQAKKLKLCDEVV 204
           +       ++++L      L+     ++GL G+GG+GKTTL  +I    ++K      V+
Sbjct: 154 Q--PTIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVI 211

Query: 205 FVEVSQTPDVKRIQGDIADQLGLYICEG---SESERAMVLCGLLKKGKKILVLDNIWTSL 261
           +V VS++PD+ RIQGDI  +L L   E    +E++RA+ +  +L K K +L+LD+IW  +
Sbjct: 212 WVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLDDIWEKV 271

Query: 262 DLD 264
           +L+
Sbjct: 272 NLE 274

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 = 87.4 bits (215), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 70/249 (28%), Positives = 131/249 (52%), Gaps = 13/249 (5%)

Query: 24  LRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKL 83
           +R  + N   L+++ E L+ T  ++   V   +   ++  ++V+ WL   N+  +E   L
Sbjct: 29  IRTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKDL 88

Query: 84  IEDEEKEKKK-CLKGLCPNLM-NRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGIL 141
           +     E +K CL GLC   + + Y+  KK    ++ +  L  EG FDEVS   +P    
Sbjct: 89  LSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEGNFDEVS---QPPPRS 145

Query: 142 LMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL-KLC 200
            +     +    ++ +L  A + L    V ++GL G+GG+GKTTL K +  +  ++    
Sbjct: 146 EVEERPTQPTIGQEEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTF 205

Query: 201 DEVVFVEVSQTPDVKRIQGDIADQLGLYICEG-----SESERAMVLCGLLKKGKKILVLD 255
           D V+++ VSQ   + ++Q DIA++  L++C+      +ES++A  +  +LK  + +L+LD
Sbjct: 206 DIVIWIVVSQGAKLSKLQEDIAEK--LHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLD 263

Query: 256 NIWTSLDLD 264
           +IW  +DL+
Sbjct: 264 DIWEKVDLE 272

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 86.7 bits (213), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 71/250 (28%), Positives = 126/250 (50%), Gaps = 14/250 (5%)

Query: 23  QLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGK 82
           + RN   +   LKK   +L+   +DL   +   ++ G  +   V++WL    + V EA  
Sbjct: 28  RFRNLVDHVAALKKTVRQLEARRDDLLKRIKVQEDRGLNLLDEVQQWLSEVESRVCEAHD 87

Query: 83  LI--EDEEKEKKKCLKGLCPNLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGI 140
           ++   DEE +   C +         Y  SK    +++ +  LL +G FDEV+     +G 
Sbjct: 88  ILSQSDEEIDNLCCGQYCSKRCKYSYDYSKSVINKLQDVENLLSKGVFDEVA----QKGP 143

Query: 141 LLMCSEG--YEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL- 197
           +    E   ++    +++I+    +++    V ++G+ G+GG+GKTTL   +  + + + 
Sbjct: 144 IPKVEERLFHQEIVGQEAIVESTWNSMMEVGVGLLGIYGMGGVGKTTLLSQINNKFRTVS 203

Query: 198 KLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEG----SESERAMVLCGLLKKGKKILV 253
              D  ++V VS+ P VKRIQ DI  +L LY  EG    +E+E A  +   L+  K +L+
Sbjct: 204 NDFDIAIWVVVSKNPTVKRIQEDIGKRLDLY-NEGWEQKTENEIASTIKRSLENKKYMLL 262

Query: 254 LDNIWTSLDL 263
           LD++WT +DL
Sbjct: 263 LDDMWTKVDL 272

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 70/262 (26%), Positives = 134/262 (51%), Gaps = 15/262 (5%)

Query: 11  KVLGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWL 70
           ++   L+G     +R  + N   L+++ E L+    ++   V   +   +   ++V+ WL
Sbjct: 16  RIFNCLIGK--SYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVWL 73

Query: 71  ISANTTVVEAGKLIEDEEKEKKK-CLKGLCPNLM-NRYQLSKKAAWEVKAIAGLLEEGKF 128
              N+  +E   L+     E +K CL GLC   + + Y+  KK    ++ +  L  EG F
Sbjct: 74  DRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNF 133

Query: 129 DEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAK 188
           DEVS   +P     +     +    ++ +L  A + L    V ++GL G+GG+GKTTL K
Sbjct: 134 DEVS---QPPPRSEVEERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFK 190

Query: 189 IVFYQAKKL-KLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEG-----SESERAMVLC 242
            +  +  ++    D V+++ VS+   + ++Q DIA++  L++C+      +ES++A  + 
Sbjct: 191 KIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEK--LHLCDDLWKNKNESDKATDIH 248

Query: 243 GLLKKGKKILVLDNIWTSLDLD 264
            +LK  + +L+LD+IW  +DL+
Sbjct: 249 RVLKGKRFVLMLDDIWEKVDLE 270

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 80.5 bits (197), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 74/294 (25%), Positives = 144/294 (48%), Gaps = 24/294 (8%)

Query: 260 SLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLY 319
           SL+   KLE+L L  ++I + P  + +L + R  DLS    L+ IP  ++S LS LE L 
Sbjct: 592 SLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSLETLD 651

Query: 320 MGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMIL--PKGLFSKKLERYKI 377
           M ++  +W  +G    +  A+++E+  L  L  L I++  +  L   +  + K+L+++++
Sbjct: 652 MTSSHYRWSVQG-ETQKGQATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIKRLKKFQL 710

Query: 378 FIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDL--DIE 435
            +G  +     +  +R+    L  S V  +   L     L L+   GI+ ++  L  D +
Sbjct: 711 VVGSRYILRTRHDKRRLTISHLNVSQVS-IGWLLAYTTSLALNHCQGIEAMMKKLVSDNK 769

Query: 436 GFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLE--SLVLHNLIHLEKICLGQLRAESF 493
           GF  LK L ++N      I+++ +WV   +    +  S +L  L +LE++ L ++  E+F
Sbjct: 770 GFKNLKSLTIEN-----VIINTNSWVEMVSTNTSKQSSDILDLLPNLEELHLRRVDLETF 824

Query: 494 YK-----------LKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEI 536
            +           LKII++  C KL+ +        +P L+ + +  C +++ +
Sbjct: 825 SELQTHLGLKLETLKIIEITMCRKLRTLLDKRNFLTIPNLEEIEISYCDSLQNL 878

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 = 79.7 bits (195), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 84/314 (26%), Positives = 141/314 (44%), Gaps = 14/314 (4%)

Query: 266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSV 325
           KL+ L L +S I +LP  +  L+ LR   +S   +L+ IP   +  LS LE L M  ++ 
Sbjct: 565 KLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSIPAGTILQLSSLEVLDMAGSAY 624

Query: 326 KWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGL--FSKKLERYKIFIGDEW 383
            W  +G       A+L E+  L HL  L I++ D +         +K+L +++       
Sbjct: 625 SWGIKG-EEREGQATLDEVTCLPHLQFLAIKLLDVLSFSYEFDSLTKRLTKFQFLFSPIR 683

Query: 384 DWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIE---GFLQL 440
             S     +  L +     +   +   L+ +  L L+   G+  +  +L  +    F+ +
Sbjct: 684 SVSPPGTGEGCLAISDVNVSNASIGWLLQHVTSLDLNYCEGLNGMFENLVTKSKSSFVAM 743

Query: 441 KHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKIC-LGQLRAESFYKLKII 499
           K L +   P +   + S    + + F  LE L L N ++LE I  L         KLK++
Sbjct: 744 KALSIHYFPSL--SLASGCESQLDLFPNLEELSLDN-VNLESIGELNGFLGMRLQKLKLL 800

Query: 500 KVRNCDKLKNIFSFSFVRG-LPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQL 558
           +V  C +LK +FS   + G LP LQ + V++C  ++E+F         C E       +L
Sbjct: 801 QVSGCRQLKRLFSDQILAGTLPNLQEIKVVSCLRLEELFNFSSVPVDFCAES---LLPKL 857

Query: 559 HSLTLKFLPQLTSF 572
             + LK+LPQL S 
Sbjct: 858 TVIKLKYLPQLRSL 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 = 76.6 bits (187), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 72/258 (27%), Positives = 126/258 (48%), Gaps = 9/258 (3%)

Query: 13  LGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQS-VEKWLI 71
             QL+      + N   N   L+K    LK    D+   ++  +  G +   S V+ WL 
Sbjct: 18  FSQLLCVRGSYIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLT 77

Query: 72  SANTTVVEAGKLIEDEEKEKKK-CLKGLCP-NLMNRYQLSKKAAWEVKAIAGLLEEGKFD 129
           S      +   L+   E E ++ CL G C  +L   Y+  K+    +K +  L  +G FD
Sbjct: 78  SVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFD 137

Query: 130 EVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKI 189
            VS  T    +  +  +       ++ +L  A + L      ++GL G+GG+GKTTL   
Sbjct: 138 VVSEATPFADVDEIPFQ--PTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTK 195

Query: 190 VFYQAKKLK-LCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSE---SERAMVLCGLL 245
           +  +  K+    D V++V VS++  V++IQ DIA+++GL   E SE   ++ A+ +  +L
Sbjct: 196 INNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVL 255

Query: 246 KKGKKILVLDNIWTSLDL 263
           ++ K +L+LD+IW  ++L
Sbjct: 256 RRRKFVLLLDDIWEKVNL 273

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|O82484|DRL23_ARATH Putative disease resistance protein At4g10780 OS=Arabidopsis thaliana GN=At4g10780 PE=2 SV=1

 Score = 73.9 bits (180), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 74/252 (29%), Positives = 114/252 (45%), Gaps = 14/252 (5%)

Query: 24  LRNY----KSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVE 79
           L NY    K N   L+K  E L  T +D+   V   +  G E  Q V+ WL        +
Sbjct: 25  LGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKGLERLQQVQVWLKRVEIIRNQ 84

Query: 80  AGKLIEDEEKEKKK-CLKGLCP-NLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKP 137
              L+     E ++ C    C  NL + Y   ++    +K +  L   G F+ V+    P
Sbjct: 85  FYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNGFFEIVA---AP 141

Query: 138 EGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL 197
              L M          R++I   A + L +  V  +GL G+GG+GKTTL   +       
Sbjct: 142 APKLEM-RPIQPTIMGRETIFQRAWNRLMDDGVGTMGLYGMGGVGKTTLLTQIHNTLHDT 200

Query: 198 K-LCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGS---ESERAMVLCGLLKKGKKILV 253
           K   D V++V VS    + +IQ DI ++LG    E +   ES++A+ +   L K + +L+
Sbjct: 201 KNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKKRFVLL 260

Query: 254 LDNIWTSLDLDK 265
           LD+IW  +DL K
Sbjct: 261 LDDIWKKVDLTK 272

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LMP6|DRL3_ARATH Probable disease resistance protein At1g15890 OS=Arabidopsis thaliana GN=At1g15890 PE=3 SV=2

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 76/295 (25%), Positives = 140/295 (47%), Gaps = 19/295 (6%)

Query: 25  RNY----KSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEA 80
           RNY    ++N + L+   ++L+   +DL   V   ++ G +    V+ WL        + 
Sbjct: 26  RNYILKMEANLEALQNTMQELEERRDDLLRRVVIEEDKGLQRLAQVQGWLSRVKDVCSQV 85

Query: 81  GKLIEDEEKEKKK-CLKGLCP-NLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVS---FCT 135
             L++ +  + ++ CL G C  N ++          ++K + GLL +G F+ V+      
Sbjct: 86  NDLLKAKSIQTERLCLCGYCSKNFISGRNYGINVLKKLKHVEGLLAKGVFEVVAEKIPAP 145

Query: 136 KPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTL-AKIVFYQA 194
           K E   +  + G +A   R      A ++L       +GL G+GG+GKTTL A I     
Sbjct: 146 KVEKKHIQTTVGLDAMVGR------AWNSLMKDERRTLGLYGMGGVGKTTLLASINNKFL 199

Query: 195 KKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC--EGSESERAMVLCGLLKKGKKIL 252
           + +   D V++V VS+    + IQ  I  +LGL+    + +E E+A  +C +L   K +L
Sbjct: 200 EGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGLHRGWKQVTEKEKASYICNILNVKKFVL 259

Query: 253 VLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPN 307
           +LD++W+ +DL+ K+ +  L   N  ++          R  ++ G  K+  +PP+
Sbjct: 260 LLDDLWSEVDLE-KIGVPPLTRENGSKIVFTTRSKDVCRDMEVDGEMKVDCLPPD 313

Probable 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	1212
359488108	1436	PREDICTED: disease resistance protein At	0.620	0.523	0.390	1e-128
296087872	1152	unnamed protein product [Vitis vinifera]	0.556	0.585	0.417	1e-126
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.570	0.525	0.402	1e-121
224110992	2359	cc-nbs-lrr resistance protein [Populus t	0.589	0.303	0.379	1e-120
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.548	0.496	0.376	1e-118
147787802	1517	hypothetical protein VITISV_005047 [Viti	0.622	0.497	0.359	1e-117
224143316	1337	cc-nbs-lrr resistance protein [Populus t	0.572	0.519	0.390	1e-115
255563252	1603	Disease resistance protein RPS5, putativ	0.556	0.420	0.401	1e-113
359488027	1520	PREDICTED: disease resistance protein At	0.612	0.488	0.362	1e-110
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.593	0.536	0.376	1e-110

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

 Score =  466 bits (1200), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 321/821 (39%), Positives = 461/821 (56%), Gaps = 69/821 (8%)

Query: 265  KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
            KKLEILSL  S+IE+LP E+AQLT LRLFDL G  KLKVIPP+++S LS+LEDL M N+ 
Sbjct: 601  KKLEILSLTYSDIEKLPREIAQLTHLRLFDLKGSYKLKVIPPDVISSLSQLEDLCMENSF 660

Query: 325  VKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWD 384
             +WE E    G+SNA L ELK LSHLT+L+IQI DA +LPK +    L RY+IF+GD W 
Sbjct: 661  TQWEGE----GKSNACLAELKHLSHLTSLDIQIPDAKLLPKDIVFDTLVRYRIFVGDVWS 716

Query: 385  WSGNYKNKRVLKLKLYTSN---VDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLK 441
            W G  +  + L+L  + ++   VD +I  LK  E+L+L E+ G  NVL  LD EGFL+LK
Sbjct: 717  WGGISEANKTLQLNKFDTSLHLVDGIIKLLKRTEDLHLRELCGGTNVLSKLDGEGFLKLK 776

Query: 442  HLHVQNNPFILFIVDSMAWV-RYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIK 500
            HL+V+++P I +IV+SM     + AF ++E+L L+ LI+L+++C GQ  A SF  L+ ++
Sbjct: 777  HLNVESSPEIQYIVNSMDLTPSHGAFPVMETLSLNQLINLQEVCRGQFPAGSFGCLRKVE 836

Query: 501  VRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHS 560
            V +CD LK +FS S  RGL +L+   V  CK+M E+ + GR+ ++    V+   F +L S
Sbjct: 837  VEDCDGLKFLFSLSVARGLSRLEETKVTRCKSMVEMVSQGRK-EIKEDAVNVPLFPELRS 895

Query: 561  LTLKFLPQLTSF-YSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPN 619
            LTL+ LP+L++F + +    +   + +   ST  L +  I + +       F+   +  N
Sbjct: 896  LTLEDLPKLSNFCFEENPVLSKPASTIVGPSTPPLNQPEIRDGQL-----LFS---LGGN 947

Query: 620  LETLEL-CAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLF---------------PS 663
            L +L L   +S  K++   L     QNL  L V  C+KL+ +F               P 
Sbjct: 948  LRSLNLKKCMSLLKLFPPSLL----QNLQELTVENCDKLEQVFDLEELNVDDGHVGLLPK 1003

Query: 664  SMIRNFVQLEHL-EICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFY-PG 721
                  + L  L  IC C S  +              +FPK+ ++ L  L  L +F  PG
Sbjct: 1004 LGKLRLIDLPKLRHICNCGSSRNHFPSSMASAPVGNIIFPKLFYISLGFLPNLTSFVSPG 1063

Query: 722  THT------------------SKWPMLKKLEVYGCDKVKIFTSRFLRFQEIN-EGQFDIP 762
             H+                   +WP+L++L V  C K+ +F      FQ+ + EG  D+P
Sbjct: 1064 YHSLQRLHHADLDTPFPVLFDERWPLLEELRVSECYKLDVFAFETPTFQQRHGEGNLDMP 1123

Query: 763  TQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIG--F 820
                 FL       LEEL+L       I   QFP   F  L+ L V +       I    
Sbjct: 1124 L---FFLPHVAFPNLEELRLGDNRDTEIWPEQFPVDSFPRLRVLHVHDYRDILVVIPSFM 1180

Query: 821  LERFHNLEKLEL-RWSSYKEIFSNEEIVE--HAEMLTQVKSLKLWELSDLMYIWKQDSKL 877
            L+R HNLE L++   SS KE+F  E + E   A+ L +++ ++L +L  L  +WK++S+ 
Sbjct: 1181 LQRLHNLEVLKVGSCSSVKEVFQLEGLDEENQAKRLGRLREIELHDLPGLTRLWKENSEP 1240

Query: 878  DSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKL 937
                ++LESLEVW C +LINLVPSS SF+NL TL++  C  L +L++ S AKSLV L  L
Sbjct: 1241 GLDLQSLESLEVWNCGSLINLVPSSVSFQNLATLDVQSCGSLRSLISPSVAKSLVKLKTL 1300

Query: 938  RIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVI 997
            +I    M+ E+++ E   A DEI F KL+ + L  L NLTSF SG Y   FPSLE + V 
Sbjct: 1301 KIGRSDMMEEVVANEGGEATDEITFYKLQHMELLYLPNLTSFSSGGYIFSFPSLEQMLVK 1360

Query: 998  ECPKMKIFSHRVLSTPRLREVRQNWGLYKGCWEGDLNTTIQ 1038
            ECPKMK+FS  +++ PRL+ ++   G  +  W+ DLNT I 
Sbjct: 1361 ECPKMKMFSPSLVTPPRLKRIK--VGDEEWPWQDDLNTAIH 1399

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  459 bits (1180), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 307/736 (41%), Positives = 433/736 (58%), Gaps = 62/736 (8%)

Query: 265  KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
            KKLE  S + SNIE+LP E+AQLT LRLFDL  CSKL+ IPPN++S LS+LE+L M N+ 
Sbjct: 416  KKLEFFSFMGSNIEKLPREIAQLTHLRLFDLRDCSKLREIPPNVISSLSKLENLCMENSF 475

Query: 325  VKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWD 384
              WE E    G+SNAS+ E K L +LTTL+IQI DA +L   +  +KL RY+IFIGD W 
Sbjct: 476  TLWEVE----GKSNASIAEFKYLPYLTTLDIQIPDAELLLTDVLFEKLIRYRIFIGDVWS 531

Query: 385  WSGNYKNKRVLKL-KLYTS--NVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLK 441
            W  N    + LKL KL TS    D + + LKG ++L+L E+ G  NV   LD EGFLQLK
Sbjct: 532  WDKNCPTTKTLKLNKLDTSLRLADGISLLLKGAKDLHLRELSGAANVFPKLDREGFLQLK 591

Query: 442  HLHVQNNPFILFIVDSMAWVRYN-AFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIK 500
             LHV+ +P +  I++SM  +    AF +LESL L+ LI+L+++C GQL   SF  L+I+K
Sbjct: 592  CLHVERSPEMQHIMNSMDPILSPCAFPVLESLFLNQLINLQEVCHGQLLVGSFSYLRIVK 651

Query: 501  VRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHS 560
            V  CD LK +FS S  RGL +L+ + +  CKNM ++   G+E+  D   VD I F++L  
Sbjct: 652  VEYCDGLKFLFSMSMARGLSRLEKIEITRCKNMYKMVAQGKEDGDDA--VDAILFAELRY 709

Query: 561  LTLKFLPQLTSFYSQVKTSAASQTRLKE-------------------------------L 589
            LTL+ LP+L +F  + KT  ++  R                                  L
Sbjct: 710  LTLQHLPKLRNFCLEGKTMPSTTKRSPTTNVRFNGICSEGELDNQTSVFNQLVCHSSIIL 769

Query: 590  STHTLPR----EVILEDECDTLMPFFN-------EKVVFPNLETLELCAI-STEKIWCNQ 637
            S + L R    + +   +C +L   F+       E V    L  L L  +   ++IW  +
Sbjct: 770  SNYMLKRLQSLQFLKAVDCSSLEEVFDMEGINVKEAVAVTQLSKLILQFLPKVKQIWNKE 829

Query: 638  LAAVYS-QNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT 696
               + + QNL  +++  C+ LK LFP+S++R+ VQL+ L++  C  +E IV K++G +  
Sbjct: 830  PRGILTFQNLKSVMIDQCQSLKNLFPASLVRDLVQLQELQVWSC-GIEVIVAKDNGVKTA 888

Query: 697  TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINE 756
              FVFPKVT L+L +L +L++FYPG HTS+WP+LK+L+V+ C +V +F      FQ+I+ 
Sbjct: 889  AKFVFPKVTSLRLSHLHQLRSFYPGAHTSQWPLLKELKVHECPEVDLFAFETPTFQQIHH 948

Query: 757  -GQFDIPTQQALFLVEKVT-SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVV--NDE 812
             G  D+   Q LFLV++V    LEEL L   +   I Q QFP + F  L+ L V    D 
Sbjct: 949  MGNLDMLIHQPLFLVQQVAFPNLEELTLDYNNATEIWQEQFPVNSFCRLRVLNVCEYGDI 1008

Query: 813  SENFRIGFLERFHNLEKLEL-RWSSYKEIFSNEEIVE--HAEMLTQVKSLKLWELSDLMY 869
                    L+R HNLEKL + R SS KEIF  E   E   A+ML +++ + L +L  L +
Sbjct: 1009 LVVIPSFMLQRLHNLEKLNVKRCSSVKEIFQLEGHDEENQAKMLGRLREIWLRDLPGLTH 1068

Query: 870  IWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAK 929
            +WK++SK     ++LESLEVW C++LINL P S SF+NL TL++W C  L +L++   AK
Sbjct: 1069 LWKENSKPGLDLQSLESLEVWNCDSLINLAPCSVSFQNLDTLDVWSCGSLKSLISPLVAK 1128

Query: 930  SLVCLTKLRIDGCRML 945
            SLV L KL+I G  M+
Sbjct: 1129 SLVKLKKLKIGGSHMM 1144

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  443 bits (1139), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 302/750 (40%), Positives = 430/750 (57%), Gaps = 59/750 (7%)

Query: 266  KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSV 325
            KL++LSL+ SNI +LP E+ ++T+L+L DLS C +L+VI PN LS L+RLEDLYMGN+ V
Sbjct: 588  KLKVLSLMSSNIVRLPREIGKVTRLQLLDLSNCERLEVISPNALSSLTRLEDLYMGNSFV 647

Query: 326  KWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFS--KKLERYKIFIGDEW 383
            KWE EG +  R+NA L ELK LS+L+TL +QI DA  +PK LFS  + LER++IFIGD W
Sbjct: 648  KWETEGSSSQRNNACLSELKHLSNLSTLHMQITDADNMPKDLFSSFQNLERFRIFIGDGW 707

Query: 384  DWSGNYKNKRVLKLKLYTS-NVDE-VIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLK 441
            DWS      R LKLKL T   ++E V   LK  EEL+L E+ G+K++L DLD EGF QL+
Sbjct: 708  DWSVKDATSRTLKLKLNTVIQLEEGVNTLLKITEELHLQELNGVKSILNDLDGEGFPQLR 767

Query: 442  HLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKV 501
            HLHVQN P + +I++S+      AFL L+SL L NL +LEKIC GQL AES   L+I+KV
Sbjct: 768  HLHVQNCPGVQYIINSIRMGPRTAFLNLDSLFLENLDNLEKICHGQLMAESLGNLRILKV 827

Query: 502  RNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSL 561
             +C +LKN+FS S  R L +L+ + +I+CK M+E+     END    E   IEF+QL  L
Sbjct: 828  ESCHRLKNLFSVSMARRLVRLEEITIIDCKIMEEVVAEESENDAADGE-PIIEFTQLRRL 886

Query: 562  TLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLE 621
            TL+ LPQ TSF+S V+ S+ SQ R K L++    +E++  +E  T M  FN K++FPNLE
Sbjct: 887  TLQCLPQFTSFHSNVEESSDSQRRQKLLASEARSKEIVAGNELGTSMSLFNTKILFPNLE 946

Query: 622  TLELCAISTEKIWCNQ--LAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICY 679
             L+L +I  EKIW +Q  + +   +NL  + V  C  L YL  SSM+ +  QL+ LEIC 
Sbjct: 947  DLKLSSIKVEKIWHDQPSVQSPCVKNLASIAVENCRNLNYLLTSSMVESLAQLKKLEICN 1006

Query: 680  CSSLESIVGKES-GE-EATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYG 737
            C S+E IV  E  GE +  +  +FPK+  L L  L +L T +  ++  +   LK L V  
Sbjct: 1007 CKSMEEIVVPEDIGEGKMMSKMLFPKLLILSLIRLPKL-TRFCTSNLLECHSLKVLTVGN 1065

Query: 738  CDKVKIFTSRFLRFQEINEGQFDIP-------TQQALFLVEKVTSKLEELKLSGKD-IAM 789
            C ++K F S             D+P       T+ ALF  +     LEE  ++  D + +
Sbjct: 1066 CPELKEFISI--------PSSADVPAMSKPDNTKSALFDDKVAFPDLEEFLIAEMDNLKV 1117

Query: 790  ICQSQFPKHIFRNLKNLEV--VNDESENFRIGFLERFHNLEKLEL-RWSSYKEIFSNEEI 846
            I  S+     F  LK L V  V +    F    L RFHNLE L +    S +EIF  +E+
Sbjct: 1118 IWHSELHSDSFCKLKTLHVVLVKNLLNIFPSSMLRRFHNLENLTIGACDSVEEIFDLQEL 1177

Query: 847  VEHAEML----TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSS 902
            +   + L    +Q++ ++L  L  L ++W +D +                          
Sbjct: 1178 INVEQRLAVTASQLRVVRLTNLPHLKHVWNRDPQ------------------------GI 1213

Query: 903  ASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAED-EIV 961
             SF NL  + +  C  L +L  +S A +L+ L +  I  C +  EI++K+E + E  E +
Sbjct: 1214 LSFHNLCIVHVRGCLGLRSLFPASVALNLLQLEEFLIVNCGV-EEIVAKDEGLEEGPEFL 1272

Query: 962  FSKLKWVSLERLENLTSFCSGNYTLKFPSL 991
            F K+ ++ L  +  L  F  G +T ++P L
Sbjct: 1273 FPKVTYLHLVEVPELKRFYPGIHTSEWPRL 1302

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224110992|ref|XP_002332999.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834484|gb|EEE72961.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  441 bits (1133), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 308/811 (37%), Positives = 443/811 (54%), Gaps = 96/811 (11%)

Query: 253  VLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGL 312
             LD+I    DL K+LEILS   SNI+QLP E+AQLT+LRL DLS C +L+VIPP++ S L
Sbjct: 574  TLDDISAIGDL-KRLEILSFFQSNIKQLPREIAQLTKLRLLDLSDCFELEVIPPDVFSKL 632

Query: 313  SRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKL 372
            S LE+LYM N+  +W+ EG N    NASL EL+ LSHLT  EI I D+ +LP G+  ++L
Sbjct: 633  SMLEELYMRNSFHQWDAEGKN----NASLAELENLSHLTNAEIHIQDSQVLPYGIIFERL 688

Query: 373  ERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDE----VIMQLKGIEELYLDEVPGIKNV 428
            ++Y++ IGD+WDW G Y+  R  KLKL T  +D     + M L   E+LYL E+ G+ N+
Sbjct: 689  KKYRVCIGDDWDWDGAYEMLRTAKLKLNTK-IDHRNYGIRMLLNRTEDLYLFEIEGV-NI 746

Query: 429  LYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQL 488
            + +LD EGF  LKHL ++N+  I +I+ +M  V  NAF +LESL+L++L  L+KIC G L
Sbjct: 747  IQELDREGFPHLKHLQLRNSFEIQYIISTMEMVSSNAFPILESLILYDLSSLKKICHGAL 806

Query: 489  RAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFT-----VGREN 543
            R ESF KL+II V +C+KL N+FSF   RGL QLQ + +  C  M+E+       +G +N
Sbjct: 807  RVESFAKLRIIAVEHCNKLTNLFSFFVARGLSQLQKIKIAFCMKMEEVVAEESDELGDQN 866

Query: 544  DVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDE 603
            +V    VD I+F+QL+SL+L++LP L +FYS+VK S+ S+T+ K   T     E+I EDE
Sbjct: 867  EV----VDVIQFTQLYSLSLQYLPHLMNFYSKVKPSSLSRTQPKPSITEARSEEIISEDE 922

Query: 604  CDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLA--AVYSQNLTRLIVHGCEKLKYLF 661
              T    FNEK++FPNLE L L AI+ +K+W +Q    +V  QNL RL+V+ C  LKYLF
Sbjct: 923  LRTPTQLFNEKILFPNLEDLNLYAINIDKLWNDQHPSISVSIQNLQRLVVNQCGSLKYLF 982

Query: 662  PSSMIRNFVQLEHLEICYCSSLESIVGKES-GEEATTTFVFPKVTFLKLWNLSELKTFYP 720
            PSS++   VQL+HL I  C S+E I+      EE TT+ VFPK+ F++L +L +L+ F  
Sbjct: 983  PSSLVNILVQLKHLSITNCMSVEEIIAIGGLKEEETTSTVFPKLEFMELSDLPKLRRFCI 1042

Query: 721  GTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEE- 779
            G+ + + P+LK++ +  C + K F + F     IN+G               + S   E 
Sbjct: 1043 GS-SIECPLLKRMRICACPEFKTFAADF-SCANINDGNELEEVNSEENNNNVIQSLFGEK 1100

Query: 780  ----LKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDES------ENFRIG---------- 819
                L+LS +   M    +F   IF +L  +E+ + ++       N   G          
Sbjct: 1101 CLNSLRLSNQGGLM---QKFVSVIFPSLAEIEISHIDNLEKIWHNNLAAGSFCELRSIKI 1157

Query: 820  -------------FLERFHNLEKLELRWSSYKE-IF-----SNEEIVEHAEMLTQVKSLK 860
                          +  F  LE LE+ +    E IF     S +EI      + Q++ L 
Sbjct: 1158 RGCKKIVNIFPSVLIRSFMRLEVLEIGFCDLLEAIFDLKGPSVDEI--QPSSVVQLRDLS 1215

Query: 861  LWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLM 920
            L  L  L +IW +D +                            F NL  +  + C  L 
Sbjct: 1216 LNSLPKLKHIWNKDPQ------------------------GKHKFHNLQIVRAFSCGVLK 1251

Query: 921  NLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDV-AEDEIVFSKLKWVSLERLENLTSF 979
            NL   S A+ L  L KL I  C  + +I++KEE   A    +F +L  + L  +    +F
Sbjct: 1252 NLFPFSIARVLRQLEKLEIVHCG-VEQIVAKEEGGEAFPYFMFPRLTSLDLIEIRKFRNF 1310

Query: 980  CSGNYTLKFPSLEDLFVIECPKMKIFSHRVL 1010
              G +T + P L+ L V  C  +K F  + L
Sbjct: 1311 YPGKHTWECPRLKSLAVSGCGNIKYFDSKFL 1341

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488288|ref|XP_003633735.1| PREDICTED: LOW QUALITY PROTEIN: probable disease resistance protein At1g61310-like [Vitis vinifera]

 Score =  434 bits (1116), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 300/797 (37%), Positives = 428/797 (53%), Gaps = 132/797 (16%)

Query: 265  KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
            KKLEILSL+DS+IEQLP E++QLT LRL DL G SKLKVIPP+++S LS+LEDL M N+ 
Sbjct: 585  KKLEILSLMDSDIEQLPRELSQLTHLRLLDLKGSSKLKVIPPDVISSLSQLEDLCMENSY 644

Query: 325  VKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWD 384
             +WE E    G+SNA L ELK LS+LTTL+IQI DA + PK +    L +Y+IF+GD W 
Sbjct: 645  TQWEVE----GKSNAYLAELKHLSYLTTLDIQIPDAKLFPKDVVFDNLMKYRIFVGDVWS 700

Query: 385  WSGNYKNKRVLKLKLYTSN---VDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLK 441
            W  N +  + LKL  + ++   V+ +   L+  E+L+L ++ G  N+L  LD + FL+LK
Sbjct: 701  WEENCETNKTLKLNEFDTSLHLVEGISKLLRXTEDLHLHDLRGTTNILSKLDRQCFLKLK 760

Query: 442  HLHVQNNPFILFIVDSMAWV-RYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIK 500
            HL+V+++P I  I++SM     ++AF ++E+L L  LI+L+++C GQ  + SF  L+ ++
Sbjct: 761  HLNVESSPEIRSIMNSMDLTPSHHAFPVMETLFLRQLINLQEVCHGQFPSGSFGFLRKVE 820

Query: 501  VRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIE-FSQLH 559
            V +CD LK +FS S  RGL +L+ + +  CK+M EI   GR+   D  +   +  F +L 
Sbjct: 821  VEDCDSLKFLFSLSMARGLSRLKEITMTRCKSMGEIVPQGRKEIKDGDDAVNVPLFPELR 880

Query: 560  SLTLKFLPQLTSFYSQ--------VKTSAASQTRLKELSTHTLPREVILEDECDTLMPFF 611
             LTL+ LP+L +F  +        V T A   T L                        F
Sbjct: 881  YLTLQDLPKLINFCFEENLMLSKPVSTIAGRSTSL------------------------F 916

Query: 612  NEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQ 671
            N+                  ++W  QL+  +  NL  L++  C  L  +FPSS+ ++   
Sbjct: 917  NQA-----------------EVWNGQLSLSFG-NLRSLMMQNCMSLLKVFPSSLFQSLQN 958

Query: 672  LEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLK 731
            LE L++  C+ LE I                       ++L  L     G H    P L+
Sbjct: 959  LEVLKVENCNQLEEI-----------------------FDLEGLNV--DGGHVGLLPKLE 993

Query: 732  KLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMIC 791
            ++ + GC                      IP              LEEL L G  I  I 
Sbjct: 994  EMCLTGC----------------------IP--------------LEELILDGSRIIEIW 1017

Query: 792  QSQFPKHIFRNLKNLEVVNDESENFRI----GFLERFHNLEKLELR-WSSYKEIFSNEEI 846
            Q QFP   F  L+ L +   E  +  +      L+R H LEKL +R   S KE+   E +
Sbjct: 1018 QEQFPVESFCRLRVLSIC--EYRDILVVIPSSMLQRLHTLEKLTVRSCGSVKEVVQLEGL 1075

Query: 847  VE---HAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSA 903
            V+   H   L +++ L+L +L +L Y+WK++S +    +NLE L++W C+NL+NLVPSS 
Sbjct: 1076 VDEENHFRALARLRELELNDLPELKYLWKENSNVGPHFQNLEILKIWDCDNLMNLVPSSV 1135

Query: 904  SFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFS 963
            SF NL +L++ YC  L+NL+    AKSLV     +I    M+ E+++ E + A DEI F 
Sbjct: 1136 SFHNLASLDISYCCSLINLLPPLIAKSLVQHKIFKIGRSDMMKEVVANEGENAGDEITFC 1195

Query: 964  KLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWG 1023
            KL+ + L  L NLTSFCSG Y+L FP LE + V ECPKMKIFS  +L TPRL  V    G
Sbjct: 1196 KLEEIELCVLPNLTSFCSGVYSLSFPVLERVVVEECPKMKIFSQGLLVTPRLDRVE--VG 1253

Query: 1024 LYKGCWEGDLNTTIQQL 1040
              K  W+ DLNTTI  L
Sbjct: 1254 NNKEHWKDDLNTTIHLL 1270

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 =  430 bits (1105), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 320/891 (35%), Positives = 464/891 (52%), Gaps = 136/891 (15%)

Query: 265  KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
            KKLEILSL+DS++EQLP E+AQLT LR+ DLSG SKLKVIP +++S LS+LE+L M N+ 
Sbjct: 554  KKLEILSLMDSDMEQLPREIAQLTHLRMLDLSGSSKLKVIPSDVISSLSQLENLCMANSF 613

Query: 325  VKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWD 384
             +WE E    G+SNA L ELK LSHLT+L+IQI DA +LPK +    L RY+IF+GD W 
Sbjct: 614  TQWEGE----GKSNACLAELKHLSHLTSLDIQIPDAKLLPKDIVFDTLVRYRIFVGDVWS 669

Query: 385  WSGNYKNKRVLKLKLYTSN---VDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLK 441
            W G ++    LKL  + ++   VD +   LK  E+L+L E+ G  +VL  L+ EGFL+LK
Sbjct: 670  WGGIFEANNTLKLNKFDTSLHLVDGISKLLKRTEDLHLSELCGFTHVLSKLNREGFLKLK 729

Query: 442  HLHVQNNPFILFIVDSMAWVR-YNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIK 500
            HL+V+++P I +I +SM     +  F ++E+L L+ LI+L+++C GQ  A SF  L+ ++
Sbjct: 730  HLNVESSPEIQYIANSMDLTSTHGVFPVMETLSLNQLINLQEVCHGQFPAGSFGCLRKVE 789

Query: 501  VRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHS 560
            V +CD LK +FS S  RGL +L  + V  CK+M E+ + GR+ ++    V+   F +L  
Sbjct: 790  VEDCDGLKFLFSLSVARGLSRLVEIKVTRCKSMVEMVSQGRK-EIKEDTVNVPLFPELRH 848

Query: 561  LTLKFLPQLTSF-YSQVKTSAASQTRLKELSTHTLPREVILEDE---------------- 603
            LTL+ LP+L++F + +    +   + +   ST  L +  I +D+                
Sbjct: 849  LTLQDLPKLSNFCFEENPVHSMPPSTIVGPSTPPLNQPEIRDDQRLLSLGGNLRSLKLKN 908

Query: 604  CDTLMPFFN------------------EKVVFPNLETLELCAI-STEKIWCNQLAAVYSQ 644
            C +L+  F                   E+V FP+LE L +  + + +KIW +QL      
Sbjct: 909  CKSLVKLFPPSLLQNLQVLTVENCDKLEQVAFPSLEFLNIVGLDNVKKIWHSQLPQDSFS 968

Query: 645  NLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESG-----EEATTTF 699
             L R+ V  C +L  +FPSSM+     L  L+   CSSLE +   E       E  T T 
Sbjct: 969  KLKRVKVATCGELLNIFPSSMLNRLQSLRFLKAEDCSSLEEVFDVEGTNVNVKEGVTVTQ 1028

Query: 700  V-------FPKVTFLKLWN-------------------LSELKTFYPGTHTSKWPMLKKL 733
            +        PKV   K+WN                      LK  +P +       L++L
Sbjct: 1029 LSQLILRSLPKVE--KIWNEDPHGILNFQNLQSITIDECQSLKNLFPASLVRDLVQLQEL 1086

Query: 734  EVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVT----SKLEELKLSGKDIAM 789
             V  C             +EI      + T QA F+  KVT    S L +L+        
Sbjct: 1087 HVLCCG-----------IEEIVAKDNGVDT-QATFVFPKVTSLELSYLHQLRSFYPGAHP 1134

Query: 790  ICQSQFPKHIFRNLKNLEVVNDESENFRIGFLE-------------RFHNLEKLELR--- 833
                   +   R    + V   E+  FR    E              F NLE+L L    
Sbjct: 1135 SWWPSLKQLTVRECYKVNVFAFENPTFRQRHHEGNLDMPLSLLQPVEFPNLEELTLDHNK 1194

Query: 834  ----WS------------------SYKEIFSNEEI--VEHAEMLTQVKSLKLWELSDLMY 869
                W                    +KE+F  E +     A+ L +++ + L +L +L +
Sbjct: 1195 DTEIWPEQFPVDSFPRLRVLDDVIQFKEVFQLEGLDNENQAKRLGRLREIWLCDLPELTH 1254

Query: 870  IWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAK 929
            +WK++SK      +L+SLEV  C  LINLVPSSASF+NL TL++  C  L +L++ S AK
Sbjct: 1255 LWKENSKPGLDLLSLKSLEVRNCVRLINLVPSSASFQNLATLDVQSCGSLRSLISPSVAK 1314

Query: 930  SLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFP 989
            SLV L  L+I G  M+ E+++ EE  A DEI F KL+ ++L+ L NLTSF SG Y   FP
Sbjct: 1315 SLVKLKTLKIGGSHMMEEVVANEEGEAADEIAFCKLQHMALKCLSNLTSFSSGGYIFSFP 1374

Query: 990  SLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLYKGCWEGDLNTTIQQL 1040
            SLE + + +CPKMKIFS  +++TPRL  ++   G  +  W+ DLNTTI  L
Sbjct: 1375 SLEHMVLKKCPKMKIFSPGLVTTPRLERIKV--GDDEWHWQDDLNTTIHNL 1423

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  424 bits (1091), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 303/776 (39%), Positives = 439/776 (56%), Gaps = 82/776 (10%)

Query: 265  KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
            KKL++LSL+ S+I  LP E+ +LT+L L DLS C +L+VI PN+LS L+RLE+LYMGN+ 
Sbjct: 587  KKLKVLSLMGSDIVCLPREIGKLTRLLLLDLSNCERLEVISPNVLSSLTRLEELYMGNSF 646

Query: 325  VKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLF--SKKLERYKIFIGDE 382
            +KWE EG +  R++A L ELKLL++L TL++QI DA  +PK LF   +KLER++IFIGD 
Sbjct: 647  LKWEAEGPSSERNSACLSELKLLANLITLDMQITDADHMPKDLFLCFQKLERFRIFIGDG 706

Query: 383  WDWSGNYKNKRVLKLKLYT--SNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQL 440
            WDWS  Y   R LKLKL T     + V   LK  EEL+L E+ G+K++L DLD EGF QL
Sbjct: 707  WDWSVKYATSRTLKLKLNTVIQLEERVNTLLKITEELHLQELNGVKSILNDLDEEGFCQL 766

Query: 441  KHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIK 500
            K LHVQN P + +I++SM      AFL L+SL L NL +LEKIC GQL AES   L+I+K
Sbjct: 767  KDLHVQNCPGVQYIINSMRMGPRTAFLNLDSLFLENLDNLEKICHGQLMAESLGNLRILK 826

Query: 501  VRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHS 560
            V +C +LKN+FS S  R + +L+ + +I+CK M+E+  V  E++ D  + + IEF+QL  
Sbjct: 827  VESCHRLKNLFSVSIARRVVRLEEITIIDCKIMEEV--VAEESENDTADGEPIEFTQLRR 884

Query: 561  LTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNL 620
            LTL+ LPQ TSF+        S  R K L++    +E++  +E  T M  FN K++FP L
Sbjct: 885  LTLQCLPQFTSFH--------SNRRQKLLASDVRSKEIVAGNELGTSMSLFNTKILFPKL 936

Query: 621  ETLELCAISTEKIWCNQLAAVYS--QNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEIC 678
            E L L +I  EKIW +Q A      +NL  ++V  C  L YL  SSM+ +  QL+ LEIC
Sbjct: 937  EDLMLSSIKVEKIWHDQHAVQPPCVKNLASIVVESCSNLNYLLTSSMVESLAQLKSLEIC 996

Query: 679  YCSSLESIVGKESGEEA--TTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVY 736
             C S+E IV  E   E    +  +FPK+  L L  L +L T +  ++  +   LK L + 
Sbjct: 997  NCKSMEEIVVPEGIGEGKMMSKMLFPKLHILSLIRLPKL-TRFCTSNLLECHSLKVLTLG 1055

Query: 737  GCDKVKIFTSRFLRFQEINEGQFDIP-------TQQALF--------LVEKVTSKLEELK 781
             C ++K F S             D+P       T+ ALF        LV  V+ +++ LK
Sbjct: 1056 KCPELKEFISI--------PSSADVPAMSKPDNTKSALFDDKVAFPNLVVFVSFEMDNLK 1107

Query: 782  LSGKDIAMICQSQFPKHIFRNLKNLEVVNDES--ENFRIGFLERFHNLEKLELR-WSSYK 838
                   +I  ++     F  LK L V + ++    F    L RFHNLE L +    S +
Sbjct: 1108 -------VIWHNELHPDSFCRLKILHVGHGKNLLNIFPSSMLGRFHNLENLVINDCDSVE 1160

Query: 839  EIFSNEEIVEHAEML----TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCEN 894
            EIF  + ++   + L    +Q++ ++L  L  L ++W +D +                  
Sbjct: 1161 EIFDLQALINVEQRLAVTASQLRVVRLTNLPHLKHVWNRDPQ------------------ 1202

Query: 895  LINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEED 954
                     SF NL T+ +  C  L +L  +S A++L+ L +LRID C +  EI++K+E 
Sbjct: 1203 ------GIVSFHNLCTVHVQGCLGLRSLFPASIAQNLLQLEELRIDKCGV-EEIVAKDEG 1255

Query: 955  VAED-EIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRV 1009
            + E  E VF K+ ++ L  L  L  F  G +T ++P L+ L V +C K++IF   +
Sbjct: 1256 LEEGPEFVFPKVTFLQLRELPELKRFYPGIHTSEWPRLKTLRVYDCEKIEIFPSEI 1311

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  415 bits (1067), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 297/740 (40%), Positives = 418/740 (56%), Gaps = 66/740 (8%)

Query: 267  LEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVK 326
            L ILS   S+I +LP E+ QLT+L+  DLS C KLKVIP  ++S L++LE+LYM N+   
Sbjct: 597  LTILSFKHSDIVELPREIRQLTKLKFLDLSHCLKLKVIPAKIISELTQLEELYMNNSFDL 656

Query: 327  WEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWS 386
            W+ +G+N  R NASL EL+ L +LTTLEI + DA ILPK LF +KLER++IFIGD W  +
Sbjct: 657  WDVQGINNQR-NASLAELECLPYLTTLEICVLDAKILPKDLFFRKLERFRIFIGDVWSGT 715

Query: 387  GNYKNKRVLKLKLYTSNVD---EVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHL 443
            G+Y   R LKLKL TS++     + + L+  E+LYL EV GIK+VLYDLD +GF QLKHL
Sbjct: 716  GDYGTSRTLKLKLNTSSIHLEHGLSILLEVTEDLYLAEVKGIKSVLYDLDSQGFTQLKHL 775

Query: 444  HVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRN 503
             VQN+P I +I+D       NAF +LESL L NL+ LEKIC G+L   SF KL+ + V  
Sbjct: 776  DVQNDPEIQYIIDPNRRSPCNAFPILESLYLDNLMSLEKICCGKLTTGSFSKLRSLTVVK 835

Query: 504  CDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTL 563
            CD+LKN+FSFS +R L QLQ + V++C N++EI   G E D D ++ + ++ +QL SLTL
Sbjct: 836  CDRLKNLFSFSMMRCLLQLQQMKVVDCANLEEIVACGSE-DTD-NDYEAVKLTQLCSLTL 893

Query: 564  KFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETL 623
            K LP   SF S+ K S  S    K+L+T T  +E+  + E    +P FNE   FPNLE L
Sbjct: 894  KRLPMFKSFCSKKKVSPISLRVQKQLTTDTGLKEIAPKGELGDPLPLFNEMFCFPNLENL 953

Query: 624  ELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSL 683
            EL +I+ EKI  +QL+A+ S NL  LIV  C  LKYLF SS+++N + L+ LE+  C S+
Sbjct: 954  ELSSIACEKICDDQLSAI-SSNLMSLIVERCWNLKYLFTSSLVKNLLLLKRLEVFDCMSV 1012

Query: 684  ESIVGKES--GEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKV 741
            E I+  E    EE     +FP++ FLKL NL  +  F  G +  ++  L+KL +  C  +
Sbjct: 1013 EGIIVAEELVEEERNRKKLFPELDFLKLKNLPHITRFCDG-YPVEFSSLRKLLIENCPAL 1071

Query: 742  KIFTSR-----FLRFQE---INEGQFDIPTQQALFLVEKVTSKLEELKLSGKD-IAMICQ 792
             +F S+      +  +E   +N  +      Q LF  +     LEE++LS  D +  I  
Sbjct: 1072 NMFVSKSPSADMIESREAKGMNSEKNHHTETQPLFNEKVAFPSLEEIELSYIDNLRRIWH 1131

Query: 793  SQFPKHIFRNLKNLEVVNDESENFRIGF----LERFHNLEKLELRWSSYKEIFSNEEIVE 848
            +Q     F  LK + +  +  +  R  F    LERF  LEKL L      + ++ EEI E
Sbjct: 1132 NQLDAGSFCKLKIMRI--NGCKKLRTIFPSYLLERFQCLEKLSL-----SDCYALEEIYE 1184

Query: 849  ---------HAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLV 899
                     H    + ++ L +  L  L  I  +D +                       
Sbjct: 1185 LQGLNFKEKHLLATSGLRELYIRSLPQLKSILSKDPQ----------------------- 1221

Query: 900  PSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDE 959
              + +F NL  +++ YC  + NL  +S A  L+ L KL I+ C  + EI +KE+   E  
Sbjct: 1222 -GNFTFLNLRLVDISYCS-MKNLFPASVATGLLQLEKLVINHCFWMEEIFAKEKG-GETA 1278

Query: 960  IVFSKLKWVSLERLENLTSF 979
              F  L+  SLE L +L +F
Sbjct: 1279 PSFVFLQLTSLE-LSDLPNF 1297

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  406 bits (1043), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 339/936 (36%), Positives = 456/936 (48%), Gaps = 194/936 (20%)

Query: 265  KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
            KKLE  S + SNIE+LP E+AQLT LRLFDL  CSKL+ IPPN++S LS+LE+L M N+ 
Sbjct: 596  KKLEFFSFMGSNIEKLPREIAQLTHLRLFDLRDCSKLREIPPNVISSLSKLENLCMENSF 655

Query: 325  VKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWD 384
              WE E    G+SNAS+ E K L +LTTL+IQI DA +L   +  +KL RY+IFIGD W 
Sbjct: 656  TLWEVE----GKSNASIAEFKYLPYLTTLDIQIPDAELLLTDVLFEKLIRYRIFIGDVWS 711

Query: 385  WSGNYKNKRVLKL-KLYTS--NVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLK 441
            W  N    + LKL KL TS    D + + LKG ++L+L E+ G  NV   LD EGFLQLK
Sbjct: 712  WDKNCPTTKTLKLNKLDTSLRLADGISLLLKGAKDLHLRELSGAANVFPKLDREGFLQLK 771

Query: 442  HLHVQNNPFILFIVDSMAWVRYN-AFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIK 500
             LHV+ +P +  I++SM  +    AF +LESL L+ LI+L+++C GQL   SF  L+I+K
Sbjct: 772  CLHVERSPEMQHIMNSMDPILSPCAFPVLESLFLNQLINLQEVCHGQLLVGSFSYLRIVK 831

Query: 501  VRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHS 560
            V  CD LK +FS S  RGL +L+ + +  CKNM ++   G+E+  D   VD I F++L  
Sbjct: 832  VEYCDGLKFLFSMSMARGLSRLEKIEITRCKNMYKMVAQGKEDGDDA--VDAILFAELRY 889

Query: 561  LTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNE------- 613
            LTL+ LP+L +F  + KT  ++  R    +T+     +  E E D     FN+       
Sbjct: 890  LTLQHLPKLRNFCLEGKTMPSTTKR--SPTTNVRFNGICSEGELDNQTSVFNQLEGWHGQ 947

Query: 614  --------------------KVVFP-------NLE----------------------TLE 624
                                KV+ P       NLE                      +LE
Sbjct: 948  LLLSFCNLQSLKIKNCASLLKVLPPSLLQNLQNLEVLIVENYDIPVAVLFNEKAALPSLE 1007

Query: 625  LCAIS----TEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYC 680
            L  IS     +KIW NQL       L  + V  C +L  +FPSSM++    L+ L+   C
Sbjct: 1008 LLNISGLDNVKKIWHNQLPQDSFTKLKDVKVASCGQLLNIFPSSMLKRLQSLQFLKAVDC 1067

Query: 681  SSLESIVGKES---GEEATTTFV-------FPKVTFLKLWN------------------- 711
            SSLE +   E     E    T +        PKV   ++WN                   
Sbjct: 1068 SSLEEVFDMEGINVKEAVAVTQLSKLILQFLPKVK--QIWNKEPRGILTFQNLKSVMIDQ 1125

Query: 712  LSELKTFYPGTHTSKWPMLKKLEVYGC--------DKVKIFTSRF-------LRFQ---- 752
               LK  +P +       L++L+V+ C        D      ++F       LR      
Sbjct: 1126 CQSLKNLFPASLVRDLVQLQELQVWSCGIEVIVAKDNGVKTAAKFVFPKVTSLRLSHLHQ 1185

Query: 753  -------------------------EINEGQFDIPT--------------QQALFLVEKV 773
                                     E++   F+ PT               Q LFLV++V
Sbjct: 1186 LRSFYPGAHTSQWPLLKELKVHECPEVDLFAFETPTFQQIHHMGNLDMLIHQPLFLVQQV 1245

Query: 774  T-SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVV--NDESENFRIGFLERFHNLEKL 830
                LEEL L   +   I Q QFP + F  L+ L V    D         L+R HNLEKL
Sbjct: 1246 AFPNLEELTLDYNNATEIWQEQFPVNSFCRLRVLNVCEYGDILVVIPSFMLQRLHNLEKL 1305

Query: 831  EL-RWSSYKEIFSNEEIVE--HAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESL 887
             + R SS KEIF  E   E   A+ML +++ + L +L  L ++WK++SK     ++LESL
Sbjct: 1306 NVKRCSSVKEIFQLEGHDEENQAKMLGRLREIWLRDLPGLTHLWKENSKPGLDLQSLESL 1365

Query: 888  EVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTE 947
            EVW C++LINL P S SF+NL TL++W C  L      S +  LV               
Sbjct: 1366 EVWNCDSLINLAPCSVSFQNLDTLDVWSCGSL----KKSLSNGLV--------------- 1406

Query: 948  IISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSH 1007
            ++  E     DEIVF KL+ + L  L NLTSF SG     FPSLE + V ECPKMKIFS 
Sbjct: 1407 VVENEGGEGADEIVFCKLQHMVLLCLPNLTSFSSGGSIFSFPSLEHMVVEECPKMKIFSS 1466

Query: 1008 RVLSTPRLREVR---QNWGLYKGCWEGDLNTTIQQL 1040
              ++TPRL  V      W      W+ DLNTTI  L
Sbjct: 1467 GPITTPRLERVEVADDEWH-----WQDDLNTTIHNL 1497

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 =  405 bits (1040), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 302/802 (37%), Positives = 440/802 (54%), Gaps = 83/802 (10%)

Query: 265  KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
            KKL++LSL+ S+I  LP E+ +LT+L L DLS C +L+VI PN+LS L+RLE+LYMGN+ 
Sbjct: 587  KKLKVLSLISSDIVCLPREIGKLTRLLLLDLSNCERLEVISPNVLSSLTRLEELYMGNSF 646

Query: 325  VKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDA--MILPKGLFSKKLERYKIFIGDE 382
            VKWE EG +  R+NA L ELK LS+L TL +QI DA  M+       +KLER++IFIGD 
Sbjct: 647  VKWETEGSSSQRNNACLSELKRLSNLITLHMQITDADNMLKDLSFLFQKLERFRIFIGDG 706

Query: 383  WDWSGNYKNKRVLKLKLYTS-NVDE-VIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQL 440
            WDWS  Y   R LKLKL T   ++E V   LK  EEL+L E+ G+K++L DLD E F +L
Sbjct: 707  WDWSVKYATSRTLKLKLNTVIQLEEWVNTLLKSTEELHLQELKGVKSILNDLDGEDFPRL 766

Query: 441  KHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIK 500
            KHLHVQN P + +I++S+      AFL L+SL L NL +LEKIC GQL AES  KL+I+K
Sbjct: 767  KHLHVQNCPGVQYIINSIRMGPRTAFLNLDSLFLENLDNLEKICHGQLMAESLGKLRILK 826

Query: 501  VRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHS 560
            V +C +LKN+FS S  R L +L+ + +I+CK M+E+  V  E++ D  + + IEF+QL  
Sbjct: 827  VESCHRLKNLFSVSMARRLVRLEEITIIDCKIMEEV--VAEESENDTADGEPIEFAQLRR 884

Query: 561  LTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNL 620
            LTL+ LPQ TSF+        S  R K L++    +E++  +E  T M  FN K++FPNL
Sbjct: 885  LTLQCLPQFTSFH--------SNRRQKLLASDVRSKEIVAGNELGTSMSLFNTKILFPNL 936

Query: 621  ETLELCAISTEKIWCNQLAAVYS--QNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEIC 678
            E L+L +I  EKIW +Q A      +NL  ++V  C  L YL  SSM+ +  QLE LEIC
Sbjct: 937  EDLKLSSIKVEKIWHDQPAVQPPCVKNLASMVVESCSNLNYLLTSSMVESLAQLERLEIC 996

Query: 679  YCSSLESIVGKES-GE-EATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVY 736
             C S+E IV  E  GE +  +  +FPK+  L+L  L +L T +  ++  +   LK L V 
Sbjct: 997  NCESMEEIVVPEGIGEGKMMSKMLFPKLHLLELSGLPKL-TRFCTSNLLECHSLKVLMVG 1055

Query: 737  GCDKVKIFTSRFLRFQEINEGQFDIP-------TQQALFLVEKVTSKLEELKLSGKD-IA 788
             C ++K F S             D+P       T+ A F  +     LE   +   D + 
Sbjct: 1056 NCPELKEFISI--------PSSADVPVMSKPDNTKSAFFDDKVAFPDLEVFLIFEMDNLK 1107

Query: 789  MICQSQFPKHIFRNLKNLEVVNDES--ENFRIGFLERFHNLEKLELR-WSSYKEIFSNEE 845
             I  ++     F  LK L V + ++    F    L R HNLE L +    S +EIF  + 
Sbjct: 1108 AIWHNELHSDSFCELKILHVGHGKNLLNIFPSSMLGRLHNLENLIINDCDSVEEIFDLQV 1167

Query: 846  IV----EHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS 901
            ++      A+  TQ++ ++L  L  L ++W +D +                         
Sbjct: 1168 LINVEQRLADTATQLRVVRLRNLPHLKHVWNRDPQ------------------------G 1203

Query: 902  SASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAED--- 958
              SF NL T+ +  C  L +L  +S A +L+ L +L I+ C +  EI++K+E + E    
Sbjct: 1204 ILSFHNLCTVHVRGCPGLRSLFPASIALNLLQLEELLIENCGV-EEIVAKDEGLEEGPSS 1262

Query: 959  -EIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLRE 1017
                F K+ ++ L  +  L  F  G +  ++P L+  +V  C K++IF   +  +     
Sbjct: 1263 FRFSFPKVTYLHLVEVPELKRFYPGVHVSEWPRLKKFWVYHCKKIEIFPSEIKCS----- 1317

Query: 1018 VRQNWGLYKGCWEGDLNTTIQQ 1039
                   ++ CWE  ++   QQ
Sbjct: 1318 -------HEPCWEDHVDIEGQQ 1332

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	1212
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.250	0.330	0.278	5.2e-24
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.222	0.274	0.255	5.3e-19
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.161	0.218	0.267	1.8e-18
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.166	0.225	0.284	5.9e-17
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.161	0.202	0.272	1.5e-16
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.170	0.236	0.257	5e-16
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.169	0.229	0.262	7.5e-15
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.161	0.221	0.259	4.7e-14
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.160	0.219	0.254	1.8e-13
TAIR|locus:2025421	177	AT1G01490 [Arabidopsis thalian	0.075	0.519	0.442	3e-13

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

 Score = 232 (86.7 bits), Expect = 5.2e-24, Sum P(3) = 5.2e-24
 Identities = 89/320 (27%), Positives = 146/320 (45%)

Query:   260 SLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLY 319
             SL+   KL+ L L +S I +LP  +  L+ LR   +S   +L+ IP   +  LS LE L 
Sbjct:   559 SLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSIPAGTILQLSSLEVLD 618

Query:   320 MGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFS--KKLERYKI 377
             M  ++  W  +G       A+L E+  L HL  L I++ D +       S  K+L +++ 
Sbjct:   619 MAGSAYSWGIKG-EEREGQATLDEVTCLPHLQFLAIKLLDVLSFSYEFDSLTKRLTKFQF 677

Query:   378 FIGDEWDWSGNYKNKRVLKLK-LYTSN--VDEVIMQLKGIEELYLDEVPGIKNVLYDLDI 434
                     S     +  L +  +  SN  +  ++  +  ++  Y + + G+   L     
Sbjct:   678 LFSPIRSVSPPGTGEGCLAISDVNVSNASIGWLLQHVTSLDLNYCEGLNGMFENLVTKSK 737

Query:   435 EGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKIC-LGQLRAESF 493
               F+ +K L +   P +     S    + + F  LE L L N ++LE I  L        
Sbjct:   738 SSFVAMKALSIHYFPSLSLA--SGCESQLDLFPNLEELSLDN-VNLESIGELNGFLGMRL 794

Query:   494 YKLKIIKVRNCDKLKNIFSFSFVRG-LPQLQTLNVINCKNMKEIFTVGRENDVD-CHEVD 551
              KLK+++V  C +LK +FS   + G LP LQ + V++C  ++E+F       VD C E  
Sbjct:   795 QKLKLLQVSGCRQLKRLFSDQILAGTLPNLQEIKVVSCLRLEELFNFSSV-PVDFCAES- 852

Query:   552 KIEFSQLHSLTLKFLPQLTS 571
                  +L  + LK+LPQL S
Sbjct:   853 --LLPKLTVIKLKYLPQLRS 870

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 216 (81.1 bits), Expect = 5.3e-19, Sum P(2) = 5.3e-19
 Identities = 75/294 (25%), Positives = 142/294 (48%)

Query:   260 SLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLY 319
             SL+   KLE+L L  ++I + P  + +L + R  DLS    L+ IP  ++S LS LE L 
Sbjct:   592 SLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSLETLD 651

Query:   320 MGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMIL--PKGLFSKKLERYKI 377
             M ++  +W  +G    +  A+++E+  L  L  L I++  +  L   +  + K+L+++++
Sbjct:   652 MTSSHYRWSVQG-ETQKGQATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIKRLKKFQL 710

Query:   378 FIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDL--DIE 435
              +G  +     +  +R+    L  S V  +   L     L L+   GI+ ++  L  D +
Sbjct:   711 VVGSRYILRTRHDKRRLTISHLNVSQVS-IGWLLAYTTSLALNHCQGIEAMMKKLVSDNK 769

Query:   436 GFLQLKHLHVQNNPFILFIVDSMAWVRY---NAFLLLESLV--LHNL--IHLEKICL--- 485
             GF  LK L ++N      I+++ +WV     N       ++  L NL  +HL ++ L   
Sbjct:   770 GFKNLKSLTIEN-----VIINTNSWVEMVSTNTSKQSSDILDLLPNLEELHLRRVDLETF 824

Query:   486 GQLRAESFYKL---KIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEI 536
              +L+     KL   KII++  C KL+ +        +P L+ + +  C +++ +
Sbjct:   825 SELQTHLGLKLETLKIIEITMCRKLRTLLDKRNFLTIPNLEEIEISYCDSLQNL 878

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

 Score = 184 (69.8 bits), Expect = 1.8e-18, Sum P(3) = 1.8e-18
 Identities = 56/209 (26%), Positives = 101/209 (48%)

Query:    64 QSVEKWLISANTTVVEAGKLIXXX-XXXXXXCLKGLCPNLM-NRYQLSKKAAWEVKAIAG 121
             ++V+ WL   N+  +E   L+          CL GLC   + + Y+  KK    ++ +  
Sbjct:    67 EAVQVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKK 126

Query:   122 LLEEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGI 181
             L  EG FDEVS   +P     +     +    ++ +L  A + L    V ++GL G+GG+
Sbjct:   127 LNSEGNFDEVS---QPPPRSEVEERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGV 183

Query:   182 GKTTLAKIVFYQAKKLK-LCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEG-----SES 235
             GKTTL K +  +  ++    D V+++ VS+   + ++Q DIA++L  ++C+      +ES
Sbjct:   184 GKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKL--HLCDDLWKNKNES 241

Query:   236 ERAMXXXXXXXXXXXXXXXDNIWTSLDLD 264
             ++A                D+IW  +DL+
Sbjct:   242 DKATDIHRVLKGKRFVLMLDDIWEKVDLE 270

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 189 (71.6 bits), Expect = 5.9e-17, Sum P(2) = 5.9e-17
 Identities = 60/211 (28%), Positives = 99/211 (46%)

Query:    60 EEIEQSVEKWLISANTTVVEAGKLIXXXXXXXXX-CLKGLCP-NLMNRYQLSKKAAWEVK 117
             E + Q V+ WL + +T   +  +L+          CL G C  N+   Y   K+    +K
Sbjct:    67 ERLSQ-VQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLK 125

Query:   118 AIAGLLEEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCG 177
              I  L  +G FD V+  T    I  M  +       ++++L      L+     ++GL G
Sbjct:   126 EIESLSSQGDFDTVTLATPIARIEEMPIQ--PTIVGQETMLERVWTRLTEDGDEIVGLYG 183

Query:   178 LGGIGKTTL-AKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEG---S 233
             +GG+GKTTL  +I    ++K      V++V VS++PD+ RIQGDI  +L L   E    +
Sbjct:   184 MGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVN 243

Query:   234 ESERAMXXXXXXXXXXXXXXXDNIWTSLDLD 264
             E++RA+               D+IW  ++L+
Sbjct:   244 ENQRALDIYNVLGKQKFVLLLDDIWEKVNLE 274

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 187 (70.9 bits), Expect = 1.5e-16, Sum P(2) = 1.5e-16
 Identities = 57/209 (27%), Positives = 101/209 (48%)

Query:    64 QSVEKWLISANTTVVEAGKLIXXX-XXXXXXCLKGLCPNLM-NRYQLSKKAAWEVKAIAG 121
             ++V+ WL   N+  +E   L+          CL GLC   + + Y+  K+    ++ +  
Sbjct:    68 EAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTK 127

Query:   122 LLEEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGI 181
             L  EG FDEVS   +P     +     +    ++ +L  A + L    V ++GL G+GG+
Sbjct:   128 LKSEGNFDEVS---QPPPRSEVEERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGV 184

Query:   182 GKTTLAKIVFYQ-AKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEG-----SES 235
             GKTTL K +  + A+     D V+++ VSQ   + ++Q DIA++L  ++C+      +ES
Sbjct:   185 GKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKL--HLCDDLWKNKNES 242

Query:   236 ERAMXXXXXXXXXXXXXXXDNIWTSLDLD 264
             ++A                D+IW  +DL+
Sbjct:   243 DKATDIHRVLKGKRFVLMLDDIWEKVDLE 271

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153474 AT5G05400 [Arabidopsis thaliana (taxid:3702)]

 Score = 183 (69.5 bits), Expect = 5.0e-16, Sum P(2) = 5.0e-16
 Identities = 57/221 (25%), Positives = 101/221 (45%)

Query:    52 VDAAKENGEEIEQSVEKWLISANTTVVEAGKLIXXXXXXXXX-CLKGLCPNLMN-RYQLS 109
             +   ++ G  +   V++WL    + V EA  ++          C    C       Y  S
Sbjct:    57 IKVQEDRGLNLLDEVQQWLSEVESRVCEAHDILSQSDEEIDNLCCGQYCSKRCKYSYDYS 116

Query:   110 KKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCSEG--YEAFESRKSILNDALDALSN 167
             K    +++ +  LL +G FDEV+     +G +    E   ++    +++I+    +++  
Sbjct:   117 KSVINKLQDVENLLSKGVFDEVA----QKGPIPKVEERLFHQEIVGQEAIVESTWNSMME 172

Query:   168 PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKL-CDEVVFVEVSQTPDVKRIQGDIADQLG 226
               V ++G+ G+GG+GKTTL   +  + + +    D  ++V VS+ P VKRIQ DI  +L 
Sbjct:   173 VGVGLLGIYGMGGVGKTTLLSQINNKFRTVSNDFDIAIWVVVSKNPTVKRIQEDIGKRLD 232

Query:   227 LYICEG----SESERAMXXXXXXXXXXXXXXXDNIWTSLDL 263
             LY  EG    +E+E A                D++WT +DL
Sbjct:   233 LYN-EGWEQKTENEIASTIKRSLENKKYMLLLDDMWTKVDL 272

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 146 (56.5 bits), Expect = 7.5e-15, Sum P(2) = 7.5e-15
 Identities = 57/217 (26%), Positives = 90/217 (41%)

Query:    57 ENGEEIE--QSVEKWLISANTTVVEAGKLIXXXXXXXXX-CLKGLCP-NLMNRYQLSKKA 112
             E G+ +E  Q V+ WL        +   L+          C    C  NL + Y   ++ 
Sbjct:    60 EEGKGLERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRV 119

Query:   113 AWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNV 172
                +K +  L   G F+ V+    P+   L           R++I   A + L +  V  
Sbjct:   120 FLMIKEVENLNSNGFFEIVA-APAPK---LEMRPIQPTIMGRETIFQRAWNRLMDDGVGT 175

Query:   173 IGLCGLGGIGKTTLAKIVFYQAKKLKL-CDEVVFVEVSQTPDVKRIQGDIADQLGLYICE 231
             +GL G+GG+GKTTL   +       K   D V++V VS    + +IQ DI ++LG    E
Sbjct:   176 MGLYGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKE 235

Query:   232 GS---ESERAMXXXXXXXXXXXXXXXDNIWTSLDLDK 265
              +   ES++A+               D+IW  +DL K
Sbjct:   236 WNKKQESQKAVDILNCLSKKRFVLLLDDIWKKVDLTK 272

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 154 (59.3 bits), Expect = 4.7e-14, Sum P(2) = 4.7e-14
 Identities = 53/204 (25%), Positives = 90/204 (44%)

Query:    66 VEKWLISANTTVVEAGKLIXX-XXXXXXXCLKGLCP-NLMNRYQLSKKAAWEVKAIAGLL 123
             V+ WL    T   +   L+          CL G C  N+   Y   K+    ++ + GL 
Sbjct:    72 VQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLREVEGLS 131

Query:   124 EEGKFDEVSFCTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGK 183
              +G FD V+       +  +  +       + S+L+   + L    V ++GL G+GG+GK
Sbjct:   132 SQGVFDIVTEAAPIAEVEELPIQS--TIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGK 189

Query:   184 TTLAKIVFYQAKKLKL-CDEVVFVEVSQTPDVKRIQGDIADQLGLY---ICEGSESERAM 239
             TTL   +  +  KL    D V++V VS+   V +IQ  I ++LGL      E ++++RA+
Sbjct:   190 TTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRAL 249

Query:   240 XXXXXXXXXXXXXXXDNIWTSLDL 263
                            D+IW  ++L
Sbjct:   250 DIHNVLRRKKFVLLLDDIWEKVEL 273

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

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

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

 Score = 135 (52.6 bits), Expect = 1.8e-13, Sum P(3) = 1.8e-13
 Identities = 54/212 (25%), Positives = 102/212 (48%)

Query:   821 LERFHNLEKLELRW---SSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDS-- 875
             L+   NL+ L +     S  ++  SN+ +      L ++++L   + S + ++   DS  
Sbjct:   649 LQLLENLQTLTITLGLASILEQFLSNQRLASCTRAL-RIENLNP-QSSVISFVATMDSLQ 706

Query:   876 KLDSITENLESLEVWWCENLINL-VPSSASF-KNLTTLELWYCQRLMNLVTSSTAKSLVC 933
             +L     ++  ++V   E ++ L +P++ +F  NL+ + L +C RL +L     A +L  
Sbjct:   707 ELHFADSDIWEIKVKRNETVLPLHIPTTTTFFPNLSQVSLEFCTRLRDLTWLIFAPNL-- 764

Query:   934 LTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLED 993
              T LR+     L E+I+KE+   ++ I F +LK + LE ++ L     G   L FP L+ 
Sbjct:   765 -TVLRVISASDLKEVINKEKAEQQNLIPFQELKELRLENVQMLKHIHRG--PLPFPCLQK 821

Query:   994 LFVIECPKMKIFSHRVLSTPR---LREVRQNW 1022
             + V  C +++       S PR   + E  + W
Sbjct:   822 ILVNGCSELRKLPLNFTSVPRGDLVIEAHKKW 853

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2025421 AT1G01490 [Arabidopsis thaliana (taxid:3702)]

 Score = 187 (70.9 bits), Expect = 3.0e-13, P = 3.0e-13
 Identities = 42/95 (44%), Positives = 58/95 (61%)

Query:  1117 QKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLC 1176
             +K VLKL++H ++A+QKA   VS   G+ SI  D K+KK+ VIG +D V VV KLRK   
Sbjct:     2 KKIVLKLDLHDDRAKQKALKTVSTLPGIDSIAMDMKEKKLTVIGTVDPVNVVSKLRKYWP 61

Query:  1177 ATELVSIGPANEHDNEEGERNIEESKNNADETQKQ 1211
              T++V +GPA E + E+ E   E  K    E  K+
Sbjct:    62 MTDIVLVGPAKEPEKEKKE---EPKKEGGGEPPKK 93

GO:0005634 "nucleus" evidence=ISM

GO:0030001 "metal ion transport" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA;ISS

---

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	1212
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	4e-13
PLN03210	1153	PLN03210, PLN03210, Resistant to P	8e-07
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	3e-05
pfam13401	124	pfam13401, AAA_22, AAA domain	3e-05
smart00382	148	smart00382, AAA, ATPases associated with a variety	1e-04
PLN03210	1153	PLN03210, PLN03210, Resistant to P	9e-04
cd01983	99	cd01983, Fer4_NifH, The Fer4_NifH superfamily cont	0.004

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

 Score = 70.8 bits (174), Expect = 4e-13
 Identities = 41/119 (34%), Positives = 66/119 (55%), Gaps = 9/119 (7%)

Query: 154 RKSILNDALDALS--NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQT 211
           R+ ++   ++ L   + N+ V+G+ G+GG+GKTTLAK ++         D V +V VS+T
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKT 60

Query: 212 PDVKRIQGDIADQLGLYICEGS-----ESERAMVLCGLLKKGKKILVLDNIWTSLDLDK 265
               R+Q DI  +LGL   +       ESE A+ +   L + + +LVLD++W   D DK
Sbjct: 61  YTEFRLQKDILQELGL--DDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDK 117

Length = 285

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

 Score = 53.3 bits (128), Expect = 8e-07
 Identities = 70/255 (27%), Positives = 103/255 (40%), Gaps = 52/255 (20%)

Query: 480 LEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKE---- 535
           LEK+  G     S   L+ I +R    LK I   S       L+TL + +C ++ E    
Sbjct: 623 LEKLWDG---VHSLTGLRNIDLRGSKNLKEIPDLSMA---TNLETLKLSDCSSLVELPSS 676

Query: 536 IFTVGRENDVDCHEVDKIE-------FSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKE 588
           I  + +  D+D    + +E          L+ L L    +L SF     ++  S   L E
Sbjct: 677 IQYLNKLEDLDMSRCENLEILPTGINLKSLYRLNLSGCSRLKSFPD--ISTNISWLDLDE 734

Query: 589 LSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQ-----LAAVYS 643
            +    P  + LE                 NL+ L LC + +EK+W        L  + S
Sbjct: 735 TAIEEFPSNLRLE-----------------NLDELILCEMKSEKLWERVQPLTPLMTMLS 777

Query: 644 QNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPK 703
            +LTRL +     L  L PSS I+N  +LEHLEI  C +LE++          T      
Sbjct: 778 PSLTRLFLSDIPSLVEL-PSS-IQNLHKLEHLEIENCINLETL---------PTGINLES 826

Query: 704 VTFLKLWNLSELKTF 718
           +  L L   S L+TF
Sbjct: 827 LESLDLSGCSRLRTF 841

syringae 6; Provisional. Length = 1153

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

 Score = 42.5 bits (101), Expect = 3e-05
 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 2/60 (3%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
            L+ L L ++ +  +P+     L  L++ DLSG   L  I P   SGL  L  L +   +
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGN-NLTSISPEAFSGLPSLRSLDLSGNN 59

Length = 60

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

 Score = 44.2 bits (105), Expect = 3e-05
 Identities = 40/146 (27%), Positives = 59/146 (40%), Gaps = 33/146 (22%)

Query: 175 LCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSE 234
           L G  G GKTTL + +  Q         VV+VE       K +   I   LGL +  G+ 
Sbjct: 9   LTGESGSGKTTLLRRLARQLPN----RRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTT 64

Query: 235 SE-RAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLR-L 292
           +E    +L  L ++G+ +L++D                      + L  E   L +LR L
Sbjct: 65  AELLEAILDALKRRGRPLLIID--------------------EAQHLSLEA--LEELRDL 102

Query: 293 FDLSGCSKLKVIPPNLLSGLSRLEDL 318
           +DLS    ++VI    L G   L  L
Sbjct: 103 YDLSEK-GIQVI----LVGTPELRKL 123

Length = 124

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

 Score = 43.1 bits (101), Expect = 1e-04
 Identities = 27/118 (22%), Positives = 48/118 (40%), Gaps = 2/118 (1%)

Query: 171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC 230
            VI + G  G GKTTLA+ +  +         V++++     +    Q  +    G    
Sbjct: 3   EVILIVGPPGSGKTTLARALARELGPPGG--GVIYIDGEDILEEVLDQLLLIIVGGKKAS 60

Query: 231 EGSESERAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLT 288
              E    + L    K    +L+LD I + LD +++  +L L +  +  L +    LT
Sbjct: 61  GSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLT 118

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|215633 PLN03210, PLN03210, Resistant to P

 Score = 43.3 bits (102), Expect = 9e-04
 Identities = 38/125 (30%), Positives = 61/125 (48%), Gaps = 18/125 (14%)

Query: 824 FH--NLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSIT 881
           F   NL KL+++ S        E++ +    LT ++++ L    +L    K+   L S+ 
Sbjct: 608 FRPENLVKLQMQGSKL------EKLWDGVHSLTGLRNIDLRGSKNL----KEIPDL-SMA 656

Query: 882 ENLESLEVWWCENLINLVPSSASFKN-LTTLELWYCQRLMNLVTSSTAKSLVCLTKLRID 940
            NLE+L++  C +L+ L PSS  + N L  L++  C+ L  L T    KSL  L    + 
Sbjct: 657 TNLETLKLSDCSSLVEL-PSSIQYLNKLEDLDMSRCENLEILPTGINLKSLYRLN---LS 712

Query: 941 GCRML 945
           GC  L
Sbjct: 713 GCSRL 717

syringae 6; Provisional. Length = 1153

>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

 Score = 37.8 bits (88), Expect = 0.004
 Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 4/44 (9%)

Query: 172 VIGLCGLGGIGKTTLA-KIVFYQAKKLK---LCDEVVFVEVSQT 211
           VI + G GG+GKTTLA  +    AK+ K   L D+ V ++    
Sbjct: 1   VIVVTGKGGVGKTTLAANLAAALAKRGKRVLLIDDYVLIDTPPG 44

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion. Length = 99

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	1212
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.97
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.86
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.85
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.84
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.81
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.81
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.81
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.8
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.79
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.79
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.64
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.45
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.44
KOG1603	73	consensus Copper chaperone [Inorganic ion transpor	99.44
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.29
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.27
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.25
KOG4341	483	consensus F-box protein containing LRR [General fu	99.01
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.97
PF00403	62	HMA: Heavy-metal-associated domain; InterPro: IPR0	98.87
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.84
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.84
KOG4341	483	consensus F-box protein containing LRR [General fu	98.8
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.73
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.61
PRK09376	416	rho transcription termination factor Rho; Provisio	98.6
cd01128	249	rho_factor Transcription termination factor rho is	98.59
COG2608	71	CopZ Copper chaperone [Inorganic ion transport and	98.52
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.43
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.4
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.31
PRK15386	426	type III secretion protein GogB; Provisional	98.31
PRK15386	426	type III secretion protein GogB; Provisional	98.27
TIGR00767	415	rho transcription termination factor Rho. Members	98.25
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.22
KOG4656	247	consensus Copper chaperone for superoxide dismutas	98.13
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.13
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.07
PTZ00202	550	tuzin; Provisional	98.04
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.03
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.02
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.99
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.98
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.95
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.92
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	97.88
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.81
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.79
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	97.75
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	97.72
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.69
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.68
PF05729	166	NACHT: NACHT domain	97.55
PRK08118	167	topology modulation protein; Reviewed	97.48
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.47
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.4
PLN02957	238	copper, zinc superoxide dismutase	97.32
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.29
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.28
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.24
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.21
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.21
PRK13342	413	recombination factor protein RarA; Reviewed	97.21
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.15
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.07
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.05
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.03
PLN03150	623	hypothetical protein; Provisional	96.94
PRK10671	834	copA copper exporting ATPase; Provisional	96.89
PF13173	128	AAA_14: AAA domain	96.88
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	96.85
COG2256	436	MGS1 ATPase related to the helicase subunit of the	96.81
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	96.81
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.8
PRK06893	229	DNA replication initiation factor; Validated	96.79
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	96.75
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.72
PLN03150	623	hypothetical protein; Provisional	96.68
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	96.56
PRK13341	725	recombination factor protein RarA/unknown domain f	96.54
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	96.54
KOG2028	554	consensus ATPase related to the helicase subunit o	96.52
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	96.5
PRK07261	171	topology modulation protein; Provisional	96.47
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.44
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.43
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	96.36
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	96.33
PRK04195	482	replication factor C large subunit; Provisional	96.33
PRK08116	268	hypothetical protein; Validated	96.31
PLN03025	319	replication factor C subunit; Provisional	96.31
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.25
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.24
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.23
smart00382	148	AAA ATPases associated with a variety of cellular	96.2
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.16
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.14
PRK12402	337	replication factor C small subunit 2; Reviewed	96.11
PRK12377	248	putative replication protein; Provisional	96.08
PRK08727	233	hypothetical protein; Validated	96.08
PRK08084	235	DNA replication initiation factor; Provisional	96.05
PRK12608	380	transcription termination factor Rho; Provisional	96.04
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.02
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.02
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	96.02
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	95.92
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	95.92
CHL00095	821	clpC Clp protease ATP binding subunit	95.87
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.84
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.8
KOG2982	418	consensus Uncharacterized conserved protein [Funct	95.77
PRK07952	244	DNA replication protein DnaC; Validated	95.72
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	95.68
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	95.65
PRK08939	306	primosomal protein DnaI; Reviewed	95.65
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	95.63
PRK04841	903	transcriptional regulator MalT; Provisional	95.59
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	95.57
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	95.55
PRK06921	266	hypothetical protein; Provisional	95.55
PRK05564	313	DNA polymerase III subunit delta'; Validated	95.52
PRK06696	223	uridine kinase; Validated	95.5
PF00004	132	AAA: ATPase family associated with various cellula	95.49
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	95.46
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.45
PTZ00301	210	uridine kinase; Provisional	95.44
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	95.38
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.24
PRK12422	445	chromosomal replication initiation protein; Provis	95.21
PRK08181	269	transposase; Validated	95.19
PRK14088	440	dnaA chromosomal replication initiation protein; P	95.18
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	95.18
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	95.16
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	95.14
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	95.14
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	95.13
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	95.04
PRK05642	234	DNA replication initiation factor; Validated	95.03
PRK14087	450	dnaA chromosomal replication initiation protein; P	95.0
PRK10865	857	protein disaggregation chaperone; Provisional	94.99
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	94.98
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	94.96
PRK07667	193	uridine kinase; Provisional	94.96
PRK06547	172	hypothetical protein; Provisional	94.94
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	94.94
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	94.89
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	94.89
PRK00771	437	signal recognition particle protein Srp54; Provisi	94.87
PRK06835	329	DNA replication protein DnaC; Validated	94.82
PRK06526	254	transposase; Provisional	94.75
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	94.75
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	94.74
TIGR02237	209	recomb_radB DNA repair and recombination protein R	94.73
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.66
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	94.63
PRK09183	259	transposase/IS protein; Provisional	94.63
PHA00729	226	NTP-binding motif containing protein	94.63
PRK05480	209	uridine/cytidine kinase; Provisional	94.58
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	94.58
PRK05541	176	adenylylsulfate kinase; Provisional	94.54
PRK00149	450	dnaA chromosomal replication initiation protein; R	94.51
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	94.45
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	94.44
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	94.44
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	94.42
PRK15455	644	PrkA family serine protein kinase; Provisional	94.41
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.39
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	94.33
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	94.3
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	94.3
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	94.25
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	94.23
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	94.18
PRK06851	367	hypothetical protein; Provisional	94.18
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	94.16
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	94.09
PRK08233	182	hypothetical protein; Provisional	94.08
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	94.07
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	94.02
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	94.0
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	94.0
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	93.97
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	93.94
PRK06762	166	hypothetical protein; Provisional	93.91
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	93.9
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	93.87
PRK10536	262	hypothetical protein; Provisional	93.86
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	93.83
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	93.82
PRK10865	857	protein disaggregation chaperone; Provisional	93.8
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	93.79
cd00983	325	recA RecA is a bacterial enzyme which has roles in	93.75
PF00154	322	RecA: recA bacterial DNA recombination protein; In	93.72
PHA02544	316	44 clamp loader, small subunit; Provisional	93.68
cd03115	173	SRP The signal recognition particle (SRP) mediates	93.67
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	93.65
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	93.59
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	93.59
PRK04040	188	adenylate kinase; Provisional	93.55
PRK03839	180	putative kinase; Provisional	93.54
PRK09354	349	recA recombinase A; Provisional	93.47
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	93.45
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	93.43
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	93.34
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	93.33
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	93.3
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	93.27
PRK13695	174	putative NTPase; Provisional	93.26
PRK14086	617	dnaA chromosomal replication initiation protein; P	93.25
cd01394	218	radB RadB. The archaeal protein radB shares simila	93.18
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	93.17
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	93.16
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	93.13
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	93.12
PRK03992	389	proteasome-activating nucleotidase; Provisional	93.03
PRK10867	433	signal recognition particle protein; Provisional	92.9
PRK00625	173	shikimate kinase; Provisional	92.88
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	92.86
TIGR00003	68	copper ion binding protein. This model describes a	92.81
COG0593	408	DnaA ATPase involved in DNA replication initiation	92.79
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	92.78
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	92.73
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	92.73
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	92.69
KOG2123	388	consensus Uncharacterized conserved protein [Funct	92.68
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	92.68
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	92.66
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	92.65
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	92.64
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	92.63
PRK05439	311	pantothenate kinase; Provisional	92.58
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	92.57
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	92.56
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	92.55
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	92.55
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	92.55
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	92.49
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	92.49
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	92.47
COG1084	346	Predicted GTPase [General function prediction only	92.45
PRK06217	183	hypothetical protein; Validated	92.41
PRK00889	175	adenylylsulfate kinase; Provisional	92.39
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	92.38
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	92.36
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	92.33
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	92.3
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	92.25
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	92.2
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	92.15
COG2217	713	ZntA Cation transport ATPase [Inorganic ion transp	92.06
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	92.03
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	92.01
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	91.98
CHL00181	287	cbbX CbbX; Provisional	91.95
KOG3864	221	consensus Uncharacterized conserved protein [Funct	91.94
PRK14974	336	cell division protein FtsY; Provisional	91.92
KOG3864	221	consensus Uncharacterized conserved protein [Funct	91.92
PRK13531	498	regulatory ATPase RavA; Provisional	91.92
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	91.92
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	91.87
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	91.85
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	91.84
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	91.78
PRK00131	175	aroK shikimate kinase; Reviewed	91.76
PRK08903	227	DnaA regulatory inactivator Hda; Validated	91.74
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	91.74
PRK13949	169	shikimate kinase; Provisional	91.73
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	91.73
TIGR00959	428	ffh signal recognition particle protein. This mode	91.72
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	91.71
PRK03846	198	adenylylsulfate kinase; Provisional	91.7
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	91.68
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	91.68
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	91.68
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	91.63
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	91.59
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	91.54
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	91.54
CHL00176	638	ftsH cell division protein; Validated	91.51
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	91.46
PRK13975	196	thymidylate kinase; Provisional	91.45
PF07726	131	AAA_3: ATPase family associated with various cellu	91.42
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	91.4
PRK00300	205	gmk guanylate kinase; Provisional	91.39
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	91.38
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	91.37
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	91.37
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	91.36
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	91.36
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	91.31
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	91.3
PRK13947	171	shikimate kinase; Provisional	91.28
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	91.22
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	91.19
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	91.18
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	91.14
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	91.1
PRK07940	394	DNA polymerase III subunit delta'; Validated	91.1
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	91.08
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	91.04
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	91.03
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	91.01
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	91.01
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	90.99
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	90.96
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	90.93
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	90.93
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	90.92
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	90.92
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	90.9
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	90.9
PRK05057	172	aroK shikimate kinase I; Reviewed	90.85
PRK09087	226	hypothetical protein; Validated	90.81
COG1100	219	GTPase SAR1 and related small G proteins [General	90.8
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	90.78
TIGR01287	275	nifH nitrogenase iron protein. This model describe	90.76
PRK06620	214	hypothetical protein; Validated	90.72
PRK13946	184	shikimate kinase; Provisional	90.71
PLN02796	347	D-glycerate 3-kinase	90.68
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	90.66
CHL00095	821	clpC Clp protease ATP binding subunit	90.62
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	90.59
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	90.53
PTZ00185	574	ATPase alpha subunit; Provisional	90.5
KOG2123	388	consensus Uncharacterized conserved protein [Funct	90.49
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	90.45
PRK06761	282	hypothetical protein; Provisional	90.44
PRK13768	253	GTPase; Provisional	90.43
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	90.39
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	90.36
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	90.35
PF00005	137	ABC_tran: ABC transporter This structure is on hol	90.34
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	90.33
PRK08533	230	flagellar accessory protein FlaH; Reviewed	90.33
PRK09825	176	idnK D-gluconate kinase; Provisional	90.31
COG4240	300	Predicted kinase [General function prediction only	90.31
PLN02348	395	phosphoribulokinase	90.3
PRK14530	215	adenylate kinase; Provisional	90.22
PRK08149	428	ATP synthase SpaL; Validated	90.21
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	90.14
PRK12339	197	2-phosphoglycerate kinase; Provisional	90.14
cd03116	159	MobB Molybdenum is an essential trace element in t	90.12
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	90.11
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	90.06
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	90.05
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	90.05
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	90.05
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	89.99
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	89.98
PRK13765	637	ATP-dependent protease Lon; Provisional	89.97
cd02034	116	CooC The accessory protein CooC, which contains a	89.97
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	89.93
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	89.92
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	89.91
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	89.91
PRK13230	279	nitrogenase reductase-like protein; Reviewed	89.91
PRK13236	296	nitrogenase reductase; Reviewed	89.84
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	89.83
cd03114	148	ArgK-like The function of this protein family is u	89.81
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	89.8
PRK13948	182	shikimate kinase; Provisional	89.76
TIGR00064	272	ftsY signal recognition particle-docking protein F	89.75
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	89.73
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	89.68
cd02117	212	NifH_like This family contains the NifH (iron prot	89.68
PRK08099	399	bifunctional DNA-binding transcriptional repressor	89.67
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	89.65
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	89.62
PLN02318	656	phosphoribulokinase/uridine kinase	89.6
PRK13232	273	nifH nitrogenase reductase; Reviewed	89.58
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	89.58
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	89.55
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	89.54
PRK04182	180	cytidylate kinase; Provisional	89.52
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	89.46
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	89.46
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	89.45
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	89.44
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	89.44
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	89.4
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	89.36
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	89.36
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	89.28
cd02040	270	NifH NifH gene encodes component II (iron protein)	89.25
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	89.25
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	89.24
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	89.2
PRK03731	171	aroL shikimate kinase II; Reviewed	89.14
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	89.05
PRK06936	439	type III secretion system ATPase; Provisional	89.05
PRK06067	234	flagellar accessory protein FlaH; Validated	89.0
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	88.99
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	88.95
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	88.93
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	88.91
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	88.87
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	88.79
COG3899	849	Predicted ATPase [General function prediction only	88.78
PRK12678	672	transcription termination factor Rho; Provisional	88.73
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	88.71
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	88.67
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	88.66
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	88.66
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	88.64
PRK09112	351	DNA polymerase III subunit delta'; Validated	88.64
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	88.63
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	88.61
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	88.6
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	88.58
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	88.57
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	88.56
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	88.52
PRK07594	433	type III secretion system ATPase SsaN; Validated	88.51
PTZ00035	337	Rad51 protein; Provisional	88.5
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	88.48
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	88.46
PRK13233	275	nifH nitrogenase reductase; Reviewed	88.44
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	88.37
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	88.37
PLN03046	460	D-glycerate 3-kinase; Provisional	88.34
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	88.28
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	88.27
PRK14738	206	gmk guanylate kinase; Provisional	88.21
PRK13235	274	nifH nitrogenase reductase; Reviewed	88.12
PHA02575	227	1 deoxynucleoside monophosphate kinase; Provisiona	88.1
PRK13231	264	nitrogenase reductase-like protein; Reviewed	88.08
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	88.07
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	88.06
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	88.06
PRK09519	790	recA DNA recombination protein RecA; Reviewed	88.05
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	88.04
PRK08356	195	hypothetical protein; Provisional	88.03
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	88.02
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	88.0
PRK14527	191	adenylate kinase; Provisional	87.99
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	87.98
PF02680	95	DUF211: Uncharacterized ArCR, COG1888; InterPro: I	87.96
) 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	87.93
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	87.91
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	87.91
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	87.87
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	87.86
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	87.81
CHL00060	494	atpB ATP synthase CF1 beta subunit	87.81
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	87.78
COG1348	278	NifH Nitrogenase subunit NifH (ATPase) [Inorganic	87.76
PRK14737	186	gmk guanylate kinase; Provisional	87.74
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	87.71
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	87.68
PF13245	76	AAA_19: Part of AAA domain	87.67
PRK04328	249	hypothetical protein; Provisional	87.67
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	87.66
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	87.65
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	87.62
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	87.61
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	87.61
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	87.6
PRK15453	290	phosphoribulokinase; Provisional	87.54
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	87.53
COG4167	267	SapF ABC-type antimicrobial peptide transport syst	87.51
PLN02165	334	adenylate isopentenyltransferase	87.48
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	87.48
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	87.46
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	87.46
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	87.46
COG1245	591	Predicted ATPase, RNase L inhibitor (RLI) homolog	87.45
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	87.4
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	87.36
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	87.34
PRK01184	184	hypothetical protein; Provisional	87.34
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	87.31
PLN02924	220	thymidylate kinase	87.3
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	87.3
PLN02200	234	adenylate kinase family protein	87.29
PTZ00088	229	adenylate kinase 1; Provisional	87.29
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	87.29
cd03269	210	ABC_putative_ATPase This subfamily is involved in	87.28
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	87.23
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	87.21
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	87.15
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	87.15
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	87.15
TIGR00101	199	ureG urease accessory protein UreG. This model rep	87.13
PRK10416	318	signal recognition particle-docking protein FtsY;	87.11
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	87.11
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	87.09
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	87.08
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	87.08
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	87.06
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	87.05
COG3638	258	ABC-type phosphate/phosphonate transport system, A	87.04
PRK00698	205	tmk thymidylate kinase; Validated	87.01
PRK07429	327	phosphoribulokinase; Provisional	87.01
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	86.95
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	86.93
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	86.86
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	86.84

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=6.4e-44  Score=432.84  Aligned_cols=681  Identities=22%  Similarity=0.240  Sum_probs=419.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHhHhhhHHHHhhcc----------------
Q 000945           30 NFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIEDEEKEKKK----------------   93 (1212)
Q Consensus        30 ~~~~~~~~~~~L~~~l~~i~~~l~~ae~~~~~~~~~v~~Wl~~lk~~~~~aed~ld~~~~~~~~----------------   93 (1212)
                      .+.+.++++..|+..|..++.++++|+++ +.....+..|.+.+++++|+|||+++.+..+...                
T Consensus        22 ~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~-~~~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~  100 (889)
T KOG4658|consen   22 CLDGKDNYILELKENLKALQSALEDLDAK-RDDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQR  100 (889)
T ss_pred             HHhchHHHHHHHHHHHHHHHHHHHHHHhh-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHH
Confidence            35677889999999999999999999988 4557889999999999999999999876443211                


Q ss_pred             -cccCC-CCChhHHHHHHHHHHHHHHHHHHHhhcCCcceecc-ccCCCccccccCCCcccccchHHHHHHHHHHhCCCCc
Q 000945           94 -CLKGL-CPNLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSF-CTKPEGILLMCSEGYEAFESRKSILNDALDALSNPNV  170 (1212)
Q Consensus        94 -~~~~~-~~~~~~~~~~~~~i~~i~~~l~~i~~~~~~~~~~~-~~~~~~~~~~~~~~~~~i~gr~~~~~~l~~~L~~~~~  170 (1212)
                       |+.+. ..+....+++++++.++.+.++.+..++.|..+.. ..+...+++.+...... +|.+..++++++.|.+++.
T Consensus       101 ~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~~  179 (889)
T KOG4658|consen  101 LCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDDV  179 (889)
T ss_pred             HhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCCC
Confidence             22122 22445566788888888888888887776765553 22222344444444434 8999999999999998888


Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh-hcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC---CChhHHHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK-KLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE---GSESERAMVLCGLLK  246 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~-v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~---~~~~~~~~~l~~~L~  246 (1212)
                      .++||+||||+||||||+.|||+.. ++++||.++||+||++|+..++|++|++.++.....   .+..+.+..|.+.|+
T Consensus       180 ~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~  259 (889)
T KOG4658|consen  180 GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLE  259 (889)
T ss_pred             CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhc
Confidence            9999999999999999999999988 999999999999999999999999999998874333   334688999999999


Q ss_pred             cCCcEE-EecCccccccccc----------cceeeeccCC--------------ccccc-cHHHHhhccccccc--ccCC
Q 000945          247 KGKKIL-VLDNIWTSLDLDK----------KLEILSLVDS--------------NIEQL-PEEMAQLTQLRLFD--LSGC  298 (1212)
Q Consensus       247 ~~kr~L-VLDDVw~~~~~~~----------~Lr~L~ls~~--------------~i~~l-p~~i~~L~~L~~L~--Ls~~  298 (1212)
                      . |||+ ||||||+..+|+.          -.+++--+.+              .+..+ |+.-..|..-....  +..+
T Consensus       260 ~-krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~  338 (889)
T KOG4658|consen  260 G-KRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSH  338 (889)
T ss_pred             c-CceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhcccccccc
Confidence            5 9999 9999999999987          0222111110              01111 11111111111111  1122


Q ss_pred             CCCcccchhHhhccccCc--------eeecCCCcceeeeecccc---------CCCccchhhhhcC-CCCC-cceeeecc
Q 000945          299 SKLKVIPPNLLSGLSRLE--------DLYMGNTSVKWEFEGLNV---------GRSNASLQELKLL-SHLT-TLEIQICD  359 (1212)
Q Consensus       299 ~~l~~lp~~~i~~L~~L~--------~L~l~~~~~~w~~~~~~~---------~~~~~~~~~L~~l-~~L~-~L~l~~~~  359 (1212)
                      ..+..+.+.++.+|.+|.        .|.-..+..+|.......         ...+.+++.|+.. .+|+ ++..||-|
T Consensus       339 ~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~CFLy  418 (889)
T KOG4658|consen  339 PDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEELKSCFLY  418 (889)
T ss_pred             ccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHHHHHHHh
Confidence            235666677777887773        233344444565542211         1123344555432 4455 47778889


Q ss_pred             cccCCCCcccccceEEeEEEcCcccccCC-Ccc---------------------------ceeeeeccccChHHHHHHH-
Q 000945          360 AMILPKGLFSKKLERYKIFIGDEWDWSGN-YKN---------------------------KRVLKLKLYTSNVDEVIMQ-  410 (1212)
Q Consensus       360 ~~~~p~~~~~~~L~~l~~~~~~~~~~~~~-~~~---------------------------~~~l~~~l~~~i~~~~~~~-  410 (1212)
                      |+.||+|+.+.+-+.+.+|++++|..... +..                           ...-+||.-..+.-+.+.. 
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            99999999999989999999998765421 111                           0112222211111111110 


Q ss_pred             hccceEEEeccCCCcccccccC-------------------CccccCCCcEEEeecCCC-ceeeecCcchhccccccccc
Q 000945          411 LKGIEELYLDEVPGIKNVLYDL-------------------DIEGFLQLKHLHVQNNPF-ILFIVDSMAWVRYNAFLLLE  470 (1212)
Q Consensus       411 l~~l~~L~l~~~~~~~~~~~~l-------------------~~~~l~~L~~L~l~~~~~-~~~l~~~~~~~~~~~~~~L~  470 (1212)
                      ....+...+....+..+.....                   .....+.|++|-+.++.. +..+    ....+..+|.|+
T Consensus       499 ~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~i----s~~ff~~m~~Lr  574 (889)
T KOG4658|consen  499 GKQEENQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEI----SGEFFRSLPLLR  574 (889)
T ss_pred             cccccceEEECCcCccccccccchhheeEEEEeccchhhccCCCCCCccceEEEeecchhhhhc----CHHHHhhCcceE
Confidence            0112222111111111111110                   011233455555555421 1111    011134567777


Q ss_pred             eeecccccccceeecccCCccccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCcc
Q 000945          471 SLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEV  550 (1212)
Q Consensus       471 ~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~  550 (1212)
                      .|+|++|..+..+   |..++.+-+||+|++++ ..++++|  ..+++|..|.+|++..+..+..++.            
T Consensus       575 VLDLs~~~~l~~L---P~~I~~Li~LryL~L~~-t~I~~LP--~~l~~Lk~L~~Lnl~~~~~l~~~~~------------  636 (889)
T KOG4658|consen  575 VLDLSGNSSLSKL---PSSIGELVHLRYLDLSD-TGISHLP--SGLGNLKKLIYLNLEVTGRLESIPG------------  636 (889)
T ss_pred             EEECCCCCccCcC---ChHHhhhhhhhcccccC-CCccccc--hHHHHHHhhheeccccccccccccc------------
Confidence            7777766554433   66777777777777776 4677776  4567777777777776665555543            


Q ss_pred             CceecccccEEecccCCcccccccccccchhhHhhhcccccccC--Ccc---------------eeccc-cccccccccc
Q 000945          551 DKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTL--PRE---------------VILED-ECDTLMPFFN  612 (1212)
Q Consensus       551 ~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~l~~L~~~~l--~~~---------------~~~~~-~~~~l~~~~~  612 (1212)
                      ....+++|++|.+..-.  ...   ..........+..|+....  .+.               ..... .+........
T Consensus       637 i~~~L~~Lr~L~l~~s~--~~~---~~~~l~el~~Le~L~~ls~~~~s~~~~e~l~~~~~L~~~~~~l~~~~~~~~~~~~  711 (889)
T KOG4658|consen  637 ILLELQSLRVLRLPRSA--LSN---DKLLLKELENLEHLENLSITISSVLLLEDLLGMTRLRSLLQSLSIEGCSKRTLIS  711 (889)
T ss_pred             hhhhcccccEEEeeccc--ccc---chhhHHhhhcccchhhheeecchhHhHhhhhhhHHHHHHhHhhhhcccccceeec
Confidence            33446667766653321  000   0000111111111111100  000               00000 1122334445


Q ss_pred             ccccccccceeeccccccce---ecccCccccc-CcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeec
Q 000945          613 EKVVFPNLETLELCAISTEK---IWCNQLAAVY-SQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVG  688 (1212)
Q Consensus       613 ~l~~~~~L~~L~l~~~~l~~---~~~~~~~~~~-l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~  688 (1212)
                      .+..+.+|+.|.|.+|....   .|........ |+++..+.+.+|.....+.+   ....|+|+.|.+.+|..++.+..
T Consensus       712 ~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~---~~f~~~L~~l~l~~~~~~e~~i~  788 (889)
T KOG4658|consen  712 SLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTW---LLFAPHLTSLSLVSCRLLEDIIP  788 (889)
T ss_pred             ccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccch---hhccCcccEEEEecccccccCCC
Confidence            56778999999999995532   3443322222 77888889999988887655   34589999999999998888865


Q ss_pred             cccccccc--ccccCCcccee-ecccCCccceeccCCCcCCCCCccEEEEecCCCccccc
Q 000945          689 KESGEEAT--TTFVFPKVTFL-KLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFT  745 (1212)
Q Consensus       689 ~~~~~~~~--~~~~~~~L~~L-~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp  745 (1212)
                      ........  ....|.++..+ .+.+.+.+..+.....  .+++|+.+.+..||++..+|
T Consensus       789 ~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~l--~~~~l~~~~ve~~p~l~~~P  846 (889)
T KOG4658|consen  789 KLKALLELKELILPFNKLEGLRMLCSLGGLPQLYWLPL--SFLKLEELIVEECPKLGKLP  846 (889)
T ss_pred             HHHHhhhcccEEecccccccceeeecCCCCceeEeccc--CccchhheehhcCcccccCc
Confidence            43322111  24567788888 5777777777765432  46779999999999999885

>PLN03210 Resistant to P

Probab=100.00  E-value=2.6e-42  Score=445.85  Aligned_cols=301  Identities=21%  Similarity=0.276  Sum_probs=200.2

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +.+|++|++.++.+..+|.+.   ..+++|+.|+|++|..++.+|.   ++.+++|+.|++++|..+..++.        
T Consensus       610 ~~~L~~L~L~~s~l~~L~~~~---~~l~~Lk~L~Ls~~~~l~~ip~---ls~l~~Le~L~L~~c~~L~~lp~--------  675 (1153)
T PLN03210        610 PENLVKLQMQGSKLEKLWDGV---HSLTGLRNIDLRGSKNLKEIPD---LSMATNLETLKLSDCSSLVELPS--------  675 (1153)
T ss_pred             ccCCcEEECcCcccccccccc---ccCCCCCEEECCCCCCcCcCCc---cccCCcccEEEecCCCCccccch--------
Confidence            367888888888877788764   3688999999999888888765   67789999999999988887753        


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                      ....+++|+.|++.+|.+++.++.+.   .+++|+.|.+++|..+..+|.                          .+++
T Consensus       676 si~~L~~L~~L~L~~c~~L~~Lp~~i---~l~sL~~L~Lsgc~~L~~~p~--------------------------~~~n  726 (1153)
T PLN03210        676 SIQYLNKLEDLDMSRCENLEILPTGI---NLKSLYRLNLSGCSRLKSFPD--------------------------ISTN  726 (1153)
T ss_pred             hhhccCCCCEEeCCCCCCcCccCCcC---CCCCCCEEeCCCCCCcccccc--------------------------ccCC
Confidence            34568889999999999888887643   578899999999988877741                          1457


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      |++|++++|.+..++..    ..+++|++|++.+.....++..                 +..+.+     .....+++|
T Consensus       727 L~~L~L~~n~i~~lP~~----~~l~~L~~L~l~~~~~~~l~~~-----------------~~~l~~-----~~~~~~~sL  780 (1153)
T PLN03210        727 ISWLDLDETAIEEFPSN----LRLENLDELILCEMKSEKLWER-----------------VQPLTP-----LMTMLSPSL  780 (1153)
T ss_pred             cCeeecCCCcccccccc----ccccccccccccccchhhcccc-----------------ccccch-----hhhhccccc
Confidence            77788877776655421    1345566555554221111100                 000000     001124567


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccE
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTK  936 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~  936 (1212)
                      +.|++++|+.+..+    |..++++++|+.|++++|..++.+|... .+++|+.|++++|..+..+|.     ..++|+.
T Consensus       781 ~~L~Ls~n~~l~~l----P~si~~L~~L~~L~Ls~C~~L~~LP~~~-~L~sL~~L~Ls~c~~L~~~p~-----~~~nL~~  850 (1153)
T PLN03210        781 TRLFLSDIPSLVEL----PSSIQNLHKLEHLEIENCINLETLPTGI-NLESLESLDLSGCSRLRTFPD-----ISTNISD  850 (1153)
T ss_pred             hheeCCCCCCcccc----ChhhhCCCCCCEEECCCCCCcCeeCCCC-CccccCEEECCCCCccccccc-----cccccCE
Confidence            77777777666655    4556677777777777777777776654 567777777777777766552     2355777


Q ss_pred             EEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccC
Q 000945          937 LRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFS 1006 (1212)
Q Consensus       937 L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp 1006 (1212)
                      |+++++. ++++|.       ....+++|+.|++.+|++|+.+|....  .+++|+.+++++|++++.++
T Consensus       851 L~Ls~n~-i~~iP~-------si~~l~~L~~L~L~~C~~L~~l~~~~~--~L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        851 LNLSRTG-IEEVPW-------WIEKFSNLSFLDMNGCNNLQRVSLNIS--KLKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             eECCCCC-CccChH-------HHhcCCCCCEEECCCCCCcCccCcccc--cccCCCeeecCCCccccccc
Confidence            7776654 555552       234467777777777777777766544  34677777777777776554

syringae 6; Provisional

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

Probab=100.00  E-value=4.2e-32  Score=353.55  Aligned_cols=82  Identities=20%  Similarity=0.301  Sum_probs=65.7

Q ss_pred             cceeeeccCCcccc-ccHHHHhhcccccccccCCCCCc-ccchhHhhccccCceeecCCCcceeeeeccccCCCccchhh
Q 000945          266 KLEILSLVDSNIEQ-LPEEMAQLTQLRLFDLSGCSKLK-VIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQE  343 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~-lp~~i~~L~~L~~L~Ls~~~~l~-~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~  343 (1212)
                      +++.|+++++.+.. +|..+..+.+|++|+|++| .+. .+|.+++..+.+|++|++++|.+.           +..+. 
T Consensus        70 ~v~~L~L~~~~i~~~~~~~~~~l~~L~~L~Ls~n-~~~~~ip~~~~~~l~~L~~L~Ls~n~l~-----------~~~p~-  136 (968)
T PLN00113         70 RVVSIDLSGKNISGKISSAIFRLPYIQTINLSNN-QLSGPIPDDIFTTSSSLRYLNLSNNNFT-----------GSIPR-  136 (968)
T ss_pred             cEEEEEecCCCccccCChHHhCCCCCCEEECCCC-ccCCcCChHHhccCCCCCEEECcCCccc-----------cccCc-
Confidence            68899999998874 4788999999999999999 564 799987779999999999999875           11221 


Q ss_pred             hhcCCCCCcceeeecccc
Q 000945          344 LKLLSHLTTLEIQICDAM  361 (1212)
Q Consensus       344 L~~l~~L~~L~l~~~~~~  361 (1212)
                       ..+.+|++|+++.|.+.
T Consensus       137 -~~l~~L~~L~Ls~n~~~  153 (968)
T PLN00113        137 -GSIPNLETLDLSNNMLS  153 (968)
T ss_pred             -cccCCCCEEECcCCccc
Confidence             35678888888877654

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

Probab=99.97  E-value=6.7e-31  Score=342.30  Aligned_cols=520  Identities=16%  Similarity=0.060  Sum_probs=286.4

Q ss_pred             cccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh-cCCCCCcceeeecccc-cCCC
Q 000945          288 TQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK-LLSHLTTLEIQICDAM-ILPK  365 (1212)
Q Consensus       288 ~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~-~l~~L~~L~l~~~~~~-~~p~  365 (1212)
                      .+++.|+++++ .+.......+..+.+|++|++++|.+.           +..+..+. .+.+|++|+++.|.+. .+|.
T Consensus        69 ~~v~~L~L~~~-~i~~~~~~~~~~l~~L~~L~Ls~n~~~-----------~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~  136 (968)
T PLN00113         69 SRVVSIDLSGK-NISGKISSAIFRLPYIQTINLSNNQLS-----------GPIPDDIFTTSSSLRYLNLSNNNFTGSIPR  136 (968)
T ss_pred             CcEEEEEecCC-CccccCChHHhCCCCCCEEECCCCccC-----------CcCChHHhccCCCCCEEECcCCccccccCc
Confidence            46889999998 665444445899999999999999874           33455544 7889999999988754 2332


Q ss_pred             CcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCCcccccccCCccccCCCcEEEe
Q 000945          366 GLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHV  445 (1212)
Q Consensus       366 ~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~~~~~~~~l~~~~l~~L~~L~l  445 (1212)
                      . .+                                          .+++.|.+.+.......+..+.  .+++|++|++
T Consensus       137 ~-~l------------------------------------------~~L~~L~Ls~n~~~~~~p~~~~--~l~~L~~L~L  171 (968)
T PLN00113        137 G-SI------------------------------------------PNLETLDLSNNMLSGEIPNDIG--SFSSLKVLDL  171 (968)
T ss_pred             c-cc------------------------------------------CCCCEEECcCCcccccCChHHh--cCCCCCEEEC
Confidence            1 11                                          2233344433322212222222  5667777777


Q ss_pred             ecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCCCCCccCchhhhccCCCccEE
Q 000945          446 QNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTL  525 (1212)
Q Consensus       446 ~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L  525 (1212)
                      ++|.....+|..     ...+++|++|+++++...   ...|..++.+++|++|+|++|.-...+|  ..++++++|++|
T Consensus       172 ~~n~l~~~~p~~-----~~~l~~L~~L~L~~n~l~---~~~p~~l~~l~~L~~L~L~~n~l~~~~p--~~l~~l~~L~~L  241 (968)
T PLN00113        172 GGNVLVGKIPNS-----LTNLTSLEFLTLASNQLV---GQIPRELGQMKSLKWIYLGYNNLSGEIP--YEIGGLTSLNHL  241 (968)
T ss_pred             ccCcccccCChh-----hhhCcCCCeeeccCCCCc---CcCChHHcCcCCccEEECcCCccCCcCC--hhHhcCCCCCEE
Confidence            766433333221     235666677776665322   1224455666677777776653333344  345666777777


Q ss_pred             EEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccccccccccchhhHhhhcccccccCCcceecccccc
Q 000945          526 NVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECD  605 (1212)
Q Consensus       526 ~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~  605 (1212)
                      ++++|.....+|.            .+..+++|+.|+++++.-...+                                 
T Consensus       242 ~L~~n~l~~~~p~------------~l~~l~~L~~L~L~~n~l~~~~---------------------------------  276 (968)
T PLN00113        242 DLVYNNLTGPIPS------------SLGNLKNLQYLFLYQNKLSGPI---------------------------------  276 (968)
T ss_pred             ECcCceeccccCh------------hHhCCCCCCEEECcCCeeeccC---------------------------------
Confidence            7766653334443            4556666666666654321111                                 


Q ss_pred             cccccccccccccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccce
Q 000945          606 TLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLES  685 (1212)
Q Consensus       606 ~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~  685 (1212)
                           ...+..+++|++|++++|.+.......+  ..+++|+.|++++|.....+|..  ++.+++|+.|++++|.....
T Consensus       277 -----p~~l~~l~~L~~L~Ls~n~l~~~~p~~~--~~l~~L~~L~l~~n~~~~~~~~~--~~~l~~L~~L~L~~n~l~~~  347 (968)
T PLN00113        277 -----PPSIFSLQKLISLDLSDNSLSGEIPELV--IQLQNLEILHLFSNNFTGKIPVA--LTSLPRLQVLQLWSNKFSGE  347 (968)
T ss_pred             -----chhHhhccCcCEEECcCCeeccCCChhH--cCCCCCcEEECCCCccCCcCChh--HhcCCCCCEEECcCCCCcCc
Confidence                 1122334667777777774432211111  13667777777766443333322  46677777777777653222


Q ss_pred             eecccccccccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCcccc
Q 000945          686 IVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQ  765 (1212)
Q Consensus       686 i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~  765 (1212)
                      ++.        ....+++|+.|+++++.-...++...  ..+++|+.|++.+|+-...+|.   .+              
T Consensus       348 ~p~--------~l~~~~~L~~L~Ls~n~l~~~~p~~~--~~~~~L~~L~l~~n~l~~~~p~---~~--------------  400 (968)
T PLN00113        348 IPK--------NLGKHNNLTVLDLSTNNLTGEIPEGL--CSSGNLFKLILFSNSLEGEIPK---SL--------------  400 (968)
T ss_pred             CCh--------HHhCCCCCcEEECCCCeeEeeCChhH--hCcCCCCEEECcCCEecccCCH---HH--------------
Confidence            221        22345667777776654332222211  1345666666666543223321   00              


Q ss_pred             ceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccc
Q 000945          766 ALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEE  845 (1212)
Q Consensus       766 ~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~  845 (1212)
                            ..+++|+.|++++|.+.+..+  .....+++|+.|++++|.+...++..+..+++|+.|+++.|.+....+.. 
T Consensus       401 ------~~~~~L~~L~L~~n~l~~~~p--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p~~-  471 (968)
T PLN00113        401 ------GACRSLRRVRLQDNSFSGELP--SEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPDS-  471 (968)
T ss_pred             ------hCCCCCCEEECcCCEeeeECC--hhHhcCCCCCEEECcCCcccCccChhhccCCCCcEEECcCceeeeecCcc-
Confidence                  015667777777666665433  22345666777777776555544444556677777777744443322211 


Q ss_pred             hhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccch
Q 000945          846 IVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTS  925 (1212)
Q Consensus       846 ~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~  925 (1212)
                           ...++|+.|++++|.-...    .|..+..+++|+.|++++|...+.+|..+..+++|+.|+|++|.-...+|  
T Consensus       472 -----~~~~~L~~L~ls~n~l~~~----~~~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p--  540 (968)
T PLN00113        472 -----FGSKRLENLDLSRNQFSGA----VPRKLGSLSELMQLKLSENKLSGEIPDELSSCKKLVSLDLSHNQLSGQIP--  540 (968)
T ss_pred             -----cccccceEEECcCCccCCc----cChhhhhhhccCEEECcCCcceeeCChHHcCccCCCEEECCCCcccccCC--
Confidence                 0135666777766542222    24455666677777777766666666666666777777777654333333  


Q ss_pred             hhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCC
Q 000945          926 STAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSG  982 (1212)
Q Consensus       926 ~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~  982 (1212)
                      ..+..+++|+.|++++|.....+|.       ....+++|+.|++++|+-...+|..
T Consensus       541 ~~~~~l~~L~~L~Ls~N~l~~~~p~-------~l~~l~~L~~l~ls~N~l~~~~p~~  590 (968)
T PLN00113        541 ASFSEMPVLSQLDLSQNQLSGEIPK-------NLGNVESLVQVNISHNHLHGSLPST  590 (968)
T ss_pred             hhHhCcccCCEEECCCCcccccCCh-------hHhcCcccCEEeccCCcceeeCCCc
Confidence            3445666677777776665444442       2233566666666666655555543

>PLN03210 Resistant to P

Probab=99.86  E-value=1.1e-20  Score=245.29  Aligned_cols=270  Identities=21%  Similarity=0.263  Sum_probs=185.0

Q ss_pred             ccccceeecccc-ccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccc
Q 000945          617 FPNLETLELCAI-STEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEA  695 (1212)
Q Consensus       617 ~~~L~~L~l~~~-~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  695 (1212)
                      +++|+.|+++++ .+..++..    ..+++|+.|+|++|..+..+|..  ++++++|+.|++++|..++.++..      
T Consensus       633 l~~Lk~L~Ls~~~~l~~ip~l----s~l~~Le~L~L~~c~~L~~lp~s--i~~L~~L~~L~L~~c~~L~~Lp~~------  700 (1153)
T PLN03210        633 LTGLRNIDLRGSKNLKEIPDL----SMATNLETLKLSDCSSLVELPSS--IQYLNKLEDLDMSRCENLEILPTG------  700 (1153)
T ss_pred             CCCCCEEECCCCCCcCcCCcc----ccCCcccEEEecCCCCccccchh--hhccCCCCEEeCCCCCCcCccCCc------
Confidence            455666666555 33333221    24677888888888777777654  677888888888888877777431      


Q ss_pred             cccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecc
Q 000945          696 TTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTS  775 (1212)
Q Consensus       696 ~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~  775 (1212)
                         ..+++|+.|.+.+|..+..++.     ..++|+.|++.++. +..+|...                        .++
T Consensus       701 ---i~l~sL~~L~Lsgc~~L~~~p~-----~~~nL~~L~L~~n~-i~~lP~~~------------------------~l~  747 (1153)
T PLN03210        701 ---INLKSLYRLNLSGCSRLKSFPD-----ISTNISWLDLDETA-IEEFPSNL------------------------RLE  747 (1153)
T ss_pred             ---CCCCCCCEEeCCCCCCcccccc-----ccCCcCeeecCCCc-cccccccc------------------------ccc
Confidence               1467788888888877776653     24577888887753 55554211                        146


Q ss_pred             cceeeeeccccccccccc-----cCcccccccceEeEeec-CCccccchHHHhhcCccceeEEE-ccceeEeccccchhh
Q 000945          776 KLEELKLSGKDIAMICQS-----QFPKHIFRNLKNLEVVN-DESENFRIGFLERFHNLEKLELR-WSSYKEIFSNEEIVE  848 (1212)
Q Consensus       776 ~L~~L~l~~~~~~~l~~~-----~~~~~~~~~L~~L~l~~-~~~~~~p~~~l~~l~~L~~L~l~-c~~l~~~~~~~~~~~  848 (1212)
                      +|++|.+.++....++..     ......+++|+.|++++ +.+..+|.. ++++++|+.|+|+ |++++.+|...    
T Consensus       748 ~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~s-i~~L~~L~~L~Ls~C~~L~~LP~~~----  822 (1153)
T PLN03210        748 NLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSS-IQNLHKLEHLEIENCINLETLPTGI----  822 (1153)
T ss_pred             ccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChh-hhCCCCCCEEECCCCCCcCeeCCCC----
Confidence            677776654322222110     01112346788888888 456677776 7889999999998 88888776432    


Q ss_pred             ccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhh
Q 000945          849 HAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTA  928 (1212)
Q Consensus       849 ~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~  928 (1212)
                         .+++|+.|++++|..+..++.       ..++|+.|+++++ .++.+|.++..+++|+.|++++|++|+.+|.  .+
T Consensus       823 ---~L~sL~~L~Ls~c~~L~~~p~-------~~~nL~~L~Ls~n-~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~--~~  889 (1153)
T PLN03210        823 ---NLESLESLDLSGCSRLRTFPD-------ISTNISDLNLSRT-GIEEVPWWIEKFSNLSFLDMNGCNNLQRVSL--NI  889 (1153)
T ss_pred             ---CccccCEEECCCCCccccccc-------cccccCEeECCCC-CCccChHHHhcCCCCCEEECCCCCCcCccCc--cc
Confidence               378899999999988877632       2467888898874 5678888888889999999999999988873  45


Q ss_pred             cccccccEEEecCcchhhHhh
Q 000945          929 KSLVCLTKLRIDGCRMLTEII  949 (1212)
Q Consensus       929 ~~l~~L~~L~i~~c~~l~~~~  949 (1212)
                      ..+++|+.|++++|..+..++
T Consensus       890 ~~L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        890 SKLKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             ccccCCCeeecCCCccccccc
Confidence            678888888999998776654

syringae 6; Provisional

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

Probab=99.85  E-value=3e-24  Score=221.77  Aligned_cols=277  Identities=17%  Similarity=0.150  Sum_probs=140.3

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++|..|++.+|+++..+.+.   ..+.+|.+|++++ +.++.+|+.  +|++ .|+.|.+.|++ ++.|-.+-...  .
T Consensus       251 L~~l~vLDLRdNklke~Pde~---clLrsL~rLDlSN-N~is~Lp~s--Lgnl-hL~~L~leGNP-lrTiRr~ii~~--g  320 (565)
T KOG0472|consen  251 LNSLLVLDLRDNKLKEVPDEI---CLLRSLERLDLSN-NDISSLPYS--LGNL-HLKFLALEGNP-LRTIRREIISK--G  320 (565)
T ss_pred             cccceeeeccccccccCchHH---HHhhhhhhhcccC-CccccCCcc--cccc-eeeehhhcCCc-hHHHHHHHHcc--c
Confidence            477788888888777776655   3477788888887 477787776  7888 89999998887 55542110000  0


Q ss_pred             ccccCCccceeec-ccCCccce----------eccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCcccc
Q 000945          697 TTFVFPKVTFLKL-WNLSELKT----------FYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQ  765 (1212)
Q Consensus       697 ~~~~~~~L~~L~l-~~~~~L~~----------~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~  765 (1212)
                      ....+..|+.=.- .+...-+.          +... ......+.+.|++++ .+++.+|...  |....          
T Consensus       321 T~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~-~~~~~i~tkiL~~s~-~qlt~VPdEV--fea~~----------  386 (565)
T KOG0472|consen  321 TQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFP-DIYAIITTKILDVSD-KQLTLVPDEV--FEAAK----------  386 (565)
T ss_pred             HHHHHHHHHHhhccCCCCCCcccccccCCCCCCccc-chhhhhhhhhhcccc-cccccCCHHH--HHHhh----------
Confidence            1111111111000 00100000          0000 000123345555555 3455444111  11000          


Q ss_pred             ceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccc
Q 000945          766 ALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEE  845 (1212)
Q Consensus       766 ~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~  845 (1212)
                              -.-.+..++++|.+..++.   ....+..+.+.-+.++...++++..+..+++|..|+++.|-+.++|..  
T Consensus       387 --------~~~Vt~VnfskNqL~elPk---~L~~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN~Ln~LP~e--  453 (565)
T KOG0472|consen  387 --------SEIVTSVNFSKNQLCELPK---RLVELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNNLLNDLPEE--  453 (565)
T ss_pred             --------hcceEEEecccchHhhhhh---hhHHHHHHHHHHHhhcCccccchHHHHhhhcceeeecccchhhhcchh--
Confidence                    1124455666666666542   111222232222222333334444466667777777766666555432  


Q ss_pred             hhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccc
Q 000945          846 IVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVT  924 (1212)
Q Consensus       846 ~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~  924 (1212)
                          ++.+..|+.|+|+.+ ....+    |..+..+..||.+-.+ ...+++++++ +.++.+|+.|++.+ +.+..+| 
T Consensus       454 ----~~~lv~Lq~LnlS~N-rFr~l----P~~~y~lq~lEtllas-~nqi~~vd~~~l~nm~nL~tLDL~n-Ndlq~IP-  521 (565)
T KOG0472|consen  454 ----MGSLVRLQTLNLSFN-RFRML----PECLYELQTLETLLAS-NNQIGSVDPSGLKNMRNLTTLDLQN-NDLQQIP-  521 (565)
T ss_pred             ----hhhhhhhheeccccc-ccccc----hHHHhhHHHHHHHHhc-cccccccChHHhhhhhhcceeccCC-CchhhCC-
Confidence                223555677766664 23333    3333333334443333 3455666655 66677777777766 4666666 


Q ss_pred             hhhhcccccccEEEecCcc
Q 000945          925 SSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       925 ~~~~~~l~~L~~L~i~~c~  943 (1212)
                       ..++++++|+.|.+++++
T Consensus       522 -p~LgnmtnL~hLeL~gNp  539 (565)
T KOG0472|consen  522 -PILGNMTNLRHLELDGNP  539 (565)
T ss_pred             -hhhccccceeEEEecCCc
Confidence             556777777777777766

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

Probab=99.84  E-value=1.7e-21  Score=210.60  Aligned_cols=229  Identities=19%  Similarity=0.266  Sum_probs=152.5

Q ss_pred             cceeeeccCCccccc-cHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhh
Q 000945          266 KLEILSLVDSNIEQL-PEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL  344 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L  344 (1212)
                      .-+.|++++|.+..+ +..|.++.+|+.+++.+| .+..||.. ..-..+|+.|++.+|.+.           ...-++|
T Consensus        79 ~t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N-~Lt~IP~f-~~~sghl~~L~L~~N~I~-----------sv~se~L  145 (873)
T KOG4194|consen   79 QTQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKN-ELTRIPRF-GHESGHLEKLDLRHNLIS-----------SVTSEEL  145 (873)
T ss_pred             ceeeeeccccccccCcHHHHhcCCcceeeeeccc-hhhhcccc-cccccceeEEeeeccccc-----------cccHHHH
Confidence            456799999998888 667889999999999999 89999984 445556999999999886           3345678


Q ss_pred             hcCCCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCC
Q 000945          345 KLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPG  424 (1212)
Q Consensus       345 ~~l~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~  424 (1212)
                      ..++-|+.|+++.|.++.+|..-.                                                        
T Consensus       146 ~~l~alrslDLSrN~is~i~~~sf--------------------------------------------------------  169 (873)
T KOG4194|consen  146 SALPALRSLDLSRNLISEIPKPSF--------------------------------------------------------  169 (873)
T ss_pred             HhHhhhhhhhhhhchhhcccCCCC--------------------------------------------------------
Confidence            888888889988887766554221                                                        


Q ss_pred             cccccccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecC
Q 000945          425 IKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNC  504 (1212)
Q Consensus       425 ~~~~~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c  504 (1212)
                              .  .-.++++|++.+|. +..+                             .  ...+..|.+|-+|.|++ 
T Consensus       170 --------p--~~~ni~~L~La~N~-It~l-----------------------------~--~~~F~~lnsL~tlkLsr-  206 (873)
T KOG4194|consen  170 --------P--AKVNIKKLNLASNR-ITTL-----------------------------E--TGHFDSLNSLLTLKLSR-  206 (873)
T ss_pred             --------C--CCCCceEEeecccc-cccc-----------------------------c--cccccccchheeeeccc-
Confidence                    0  12467777777662 1111                             0  11234566788888887 


Q ss_pred             CCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccccccccccchhhHh
Q 000945          505 DKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQT  584 (1212)
Q Consensus       505 ~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~  584 (1212)
                      +.++.+|.. .+.+|++|+.|++..+. ++.+..                                              
T Consensus       207 NrittLp~r-~Fk~L~~L~~LdLnrN~-irive~----------------------------------------------  238 (873)
T KOG4194|consen  207 NRITTLPQR-SFKRLPKLESLDLNRNR-IRIVEG----------------------------------------------  238 (873)
T ss_pred             CcccccCHH-Hhhhcchhhhhhccccc-eeeehh----------------------------------------------
Confidence            678888763 46778888888887643 332211                                              


Q ss_pred             hhcccccccCCcceecccccccccccccccccccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchh
Q 000945          585 RLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSS  664 (1212)
Q Consensus       585 ~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  664 (1212)
                                                 -.+..+++|+.|.+..|++..+-.+.|-  .+.++++|+|.. +++..+... 
T Consensus       239 ---------------------------ltFqgL~Sl~nlklqrN~I~kL~DG~Fy--~l~kme~l~L~~-N~l~~vn~g-  287 (873)
T KOG4194|consen  239 ---------------------------LTFQGLPSLQNLKLQRNDISKLDDGAFY--GLEKMEHLNLET-NRLQAVNEG-  287 (873)
T ss_pred             ---------------------------hhhcCchhhhhhhhhhcCcccccCccee--eecccceeeccc-chhhhhhcc-
Confidence                                       0112235666666666655555555443  367777777776 456665443 


Q ss_pred             hhhccCCCcEEEecccccccee
Q 000945          665 MIRNFVQLEHLEICYCSSLESI  686 (1212)
Q Consensus       665 ~l~~l~~L~~L~l~~~~~l~~i  686 (1212)
                      ++.+|++|+.|+++++. +..|
T Consensus       288 ~lfgLt~L~~L~lS~Na-I~ri  308 (873)
T KOG4194|consen  288 WLFGLTSLEQLDLSYNA-IQRI  308 (873)
T ss_pred             cccccchhhhhccchhh-hhee
Confidence            34568888888888776 5555

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

Probab=99.81  E-value=1.2e-23  Score=217.19  Aligned_cols=488  Identities=18%  Similarity=0.154  Sum_probs=265.0

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK  345 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~  345 (1212)
                      .+..|.++.|.+..+-..+.+|..|.+|++.+| .+..+|.. ++.+..++.|++++|.+.            ..++++.
T Consensus        46 ~l~~lils~N~l~~l~~dl~nL~~l~vl~~~~n-~l~~lp~a-ig~l~~l~~l~vs~n~ls------------~lp~~i~  111 (565)
T KOG0472|consen   46 DLQKLILSHNDLEVLREDLKNLACLTVLNVHDN-KLSQLPAA-IGELEALKSLNVSHNKLS------------ELPEQIG  111 (565)
T ss_pred             chhhhhhccCchhhccHhhhcccceeEEEeccc-hhhhCCHH-HHHHHHHHHhhcccchHh------------hccHHHh
Confidence            788889999999999888999999999999999 78889987 799999999999988873            4667777


Q ss_pred             cCCCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCCc
Q 000945          346 LLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGI  425 (1212)
Q Consensus       346 ~l~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~~  425 (1212)
                      .+..|.+++.+++....+|.++.                                                         
T Consensus       112 s~~~l~~l~~s~n~~~el~~~i~---------------------------------------------------------  134 (565)
T KOG0472|consen  112 SLISLVKLDCSSNELKELPDSIG---------------------------------------------------------  134 (565)
T ss_pred             hhhhhhhhhccccceeecCchHH---------------------------------------------------------
Confidence            77778778877776655554431                                                         


Q ss_pred             ccccccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCC
Q 000945          426 KNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCD  505 (1212)
Q Consensus       426 ~~~~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~  505 (1212)
                                .+..+..|+-.+| ++                                ...|..++++.+|..|++.+ +
T Consensus       135 ----------~~~~l~dl~~~~N-~i--------------------------------~slp~~~~~~~~l~~l~~~~-n  170 (565)
T KOG0472|consen  135 ----------RLLDLEDLDATNN-QI--------------------------------SSLPEDMVNLSKLSKLDLEG-N  170 (565)
T ss_pred             ----------HHhhhhhhhcccc-cc--------------------------------ccCchHHHHHHHHHHhhccc-c
Confidence                      0111111111111 11                                12233344445555555555 3


Q ss_pred             CCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccccccccccchhhHhh
Q 000945          506 KLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTR  585 (1212)
Q Consensus       506 ~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~  585 (1212)
                      +++.+|+.  .-++..|++|+...+ .++.+|.            +++.+.+|..|++.... +...             
T Consensus       171 ~l~~l~~~--~i~m~~L~~ld~~~N-~L~tlP~------------~lg~l~~L~~LyL~~Nk-i~~l-------------  221 (565)
T KOG0472|consen  171 KLKALPEN--HIAMKRLKHLDCNSN-LLETLPP------------ELGGLESLELLYLRRNK-IRFL-------------  221 (565)
T ss_pred             chhhCCHH--HHHHHHHHhcccchh-hhhcCCh------------hhcchhhhHHHHhhhcc-cccC-------------
Confidence            55555432  122555566555442 2555555            44555555544443210 0000             


Q ss_pred             hcccccccCCcceecccccccccccccccccccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhh
Q 000945          586 LKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSM  665 (1212)
Q Consensus       586 l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  665 (1212)
                                                .++..++.|++|+++.|.+..+.....  ..+++|..|++++ ++++++|..  
T Consensus       222 --------------------------Pef~gcs~L~Elh~g~N~i~~lpae~~--~~L~~l~vLDLRd-Nklke~Pde--  270 (565)
T KOG0472|consen  222 --------------------------PEFPGCSLLKELHVGENQIEMLPAEHL--KHLNSLLVLDLRD-NKLKEVPDE--  270 (565)
T ss_pred             --------------------------CCCCccHHHHHHHhcccHHHhhHHHHh--cccccceeeeccc-cccccCchH--
Confidence                                      011234668888888886655443332  2689999999999 589998776  


Q ss_pred             hhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceecc----CCCcCCCCCccEEEEecCCCc
Q 000945          666 IRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYP----GTHTSKWPMLKKLEVYGCDKV  741 (1212)
Q Consensus       666 l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~----~~~~~~~~~L~~L~i~~C~~L  741 (1212)
                      +.-+.+|++|+++++. +..++.        ..+.+ .|+.|.+.+.|- +.+-.    .+....   |++|.=      
T Consensus       271 ~clLrsL~rLDlSNN~-is~Lp~--------sLgnl-hL~~L~leGNPl-rTiRr~ii~~gT~~v---LKyLrs------  330 (565)
T KOG0472|consen  271 ICLLRSLERLDLSNND-ISSLPY--------SLGNL-HLKFLALEGNPL-RTIRREIISKGTQEV---LKYLRS------  330 (565)
T ss_pred             HHHhhhhhhhcccCCc-cccCCc--------ccccc-eeeehhhcCCch-HHHHHHHHcccHHHH---HHHHHH------
Confidence            6779999999999887 666643        33345 677777776652 11110    000000   111100      


Q ss_pred             ccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccC-cccccccceEeEeecCCccccchHH
Q 000945          742 KIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQF-PKHIFRNLKNLEVVNDESENFRIGF  820 (1212)
Q Consensus       742 ~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~-~~~~~~~L~~L~l~~~~~~~~p~~~  820 (1212)
                                 .+...|++..+.-          +-       ...+ ..+..+ ......+.+.|++++..++.+|..+
T Consensus       331 -----------~~~~dglS~se~~----------~e-------~~~t-~~~~~~~~~~~~i~tkiL~~s~~qlt~VPdEV  381 (565)
T KOG0472|consen  331 -----------KIKDDGLSQSEGG----------TE-------TAMT-LPSESFPDIYAIITTKILDVSDKQLTLVPDEV  381 (565)
T ss_pred             -----------hhccCCCCCCccc----------cc-------ccCC-CCCCcccchhhhhhhhhhcccccccccCCHHH
Confidence                       0011111110000          00       0000 000000 0112334555555555556666655


Q ss_pred             HhhcC--ccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccc
Q 000945          821 LERFH--NLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINL  898 (1212)
Q Consensus       821 l~~l~--~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~l  898 (1212)
                      |....  -....+++-|.+.++|.      .+..+..+.+.-+.....+..+    |..+..++.|..|++++ +.+.++
T Consensus       382 fea~~~~~Vt~VnfskNqL~elPk------~L~~lkelvT~l~lsnn~isfv----~~~l~~l~kLt~L~L~N-N~Ln~L  450 (565)
T KOG0472|consen  382 FEAAKSEIVTSVNFSKNQLCELPK------RLVELKELVTDLVLSNNKISFV----PLELSQLQKLTFLDLSN-NLLNDL  450 (565)
T ss_pred             HHHhhhcceEEEecccchHhhhhh------hhHHHHHHHHHHHhhcCccccc----hHHHHhhhcceeeeccc-chhhhc
Confidence            54332  13344444555554432      1111222222222222222222    34556666777777775 356667


Q ss_pred             cCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCccc
Q 000945          899 VPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTS  978 (1212)
Q Consensus       899 p~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~  978 (1212)
                      |..++.+..|+.|+|+.+ ..+.+|  ....-+..|+.+-.+++. +.+++.+      ....+.+|..|++.+. .++.
T Consensus       451 P~e~~~lv~Lq~LnlS~N-rFr~lP--~~~y~lq~lEtllas~nq-i~~vd~~------~l~nm~nL~tLDL~nN-dlq~  519 (565)
T KOG0472|consen  451 PEEMGSLVRLQTLNLSFN-RFRMLP--ECLYELQTLETLLASNNQ-IGSVDPS------GLKNMRNLTTLDLQNN-DLQQ  519 (565)
T ss_pred             chhhhhhhhhheeccccc-ccccch--HHHhhHHHHHHHHhcccc-ccccChH------HhhhhhhcceeccCCC-chhh
Confidence            777777777777777763 555555  333333334444333332 4444422      2345667777777665 4777


Q ss_pred             ccCCCceeecCCccEEEeccCCC
Q 000945          979 FCSGNYTLKFPSLEDLFVIECPK 1001 (1212)
Q Consensus       979 l~~~~~~~~~~sL~~L~i~~C~~ 1001 (1212)
                      +|....  .+++|++|++.|.|-
T Consensus       520 IPp~Lg--nmtnL~hLeL~gNpf  540 (565)
T KOG0472|consen  520 IPPILG--NMTNLRHLELDGNPF  540 (565)
T ss_pred             CChhhc--cccceeEEEecCCcc
Confidence            777666  357888888887663

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

Probab=99.81  E-value=4.3e-22  Score=216.05  Aligned_cols=182  Identities=20%  Similarity=0.205  Sum_probs=113.6

Q ss_pred             cccceEeEeec--CCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCC
Q 000945          800 FRNLKNLEVVN--DESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKL  877 (1212)
Q Consensus       800 ~~~L~~L~l~~--~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~  877 (1212)
                      +++|+.|++++  ..+..+|.. +..+.+|..+|++||+|..+|      +++-.+++|+.|+++++. ++.+    ...
T Consensus       196 mtsL~vLhms~TqRTl~N~Pts-ld~l~NL~dvDlS~N~Lp~vP------ecly~l~~LrrLNLS~N~-iteL----~~~  263 (1255)
T KOG0444|consen  196 MTSLSVLHMSNTQRTLDNIPTS-LDDLHNLRDVDLSENNLPIVP------ECLYKLRNLRRLNLSGNK-ITEL----NMT  263 (1255)
T ss_pred             chhhhhhhcccccchhhcCCCc-hhhhhhhhhccccccCCCcch------HHHhhhhhhheeccCcCc-eeee----ecc
Confidence            44455555555  233444544 555666666666666665554      233345666666666632 3333    122


Q ss_pred             ccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccc
Q 000945          878 DSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAE  957 (1212)
Q Consensus       878 ~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~  957 (1212)
                      .+.-.+|++|++|+ +.++.+|..+..++.|+.|.+.+ ++|+.-..++.++.|.+|+.+...++. ++-+|.       
T Consensus       264 ~~~W~~lEtLNlSr-NQLt~LP~avcKL~kL~kLy~n~-NkL~FeGiPSGIGKL~~Levf~aanN~-LElVPE-------  333 (1255)
T KOG0444|consen  264 EGEWENLETLNLSR-NQLTVLPDAVCKLTKLTKLYANN-NKLTFEGIPSGIGKLIQLEVFHAANNK-LELVPE-------  333 (1255)
T ss_pred             HHHHhhhhhhcccc-chhccchHHHhhhHHHHHHHhcc-CcccccCCccchhhhhhhHHHHhhccc-cccCch-------
Confidence            33445777778877 45777888888888888888776 455543333666777888877776654 655552       


Q ss_pred             cceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccC
Q 000945          958 DEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFS 1006 (1212)
Q Consensus       958 ~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp 1006 (1212)
                      ....+..|+.|.+.. ..|..+|...+-  ++-|+.||+++.|++..=|
T Consensus       334 glcRC~kL~kL~L~~-NrLiTLPeaIHl--L~~l~vLDlreNpnLVMPP  379 (1255)
T KOG0444|consen  334 GLCRCVKLQKLKLDH-NRLITLPEAIHL--LPDLKVLDLRENPNLVMPP  379 (1255)
T ss_pred             hhhhhHHHHHhcccc-cceeechhhhhh--cCCcceeeccCCcCccCCC
Confidence            344567788887764 467788887763  4888888888888886444

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

Probab=99.81  E-value=6.2e-21  Score=206.28  Aligned_cols=346  Identities=18%  Similarity=0.180  Sum_probs=190.9

Q ss_pred             ccceeecccccccceeecccCCccccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccC
Q 000945          468 LLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDC  547 (1212)
Q Consensus       468 ~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~  547 (1212)
                      .-+.|+++++ .+..|  .+..+.++++|+.+++.+ +.|+.+|  .+.....+|+.|++.++. +.++..         
T Consensus        79 ~t~~LdlsnN-kl~~i--d~~~f~nl~nLq~v~l~~-N~Lt~IP--~f~~~sghl~~L~L~~N~-I~sv~s---------  142 (873)
T KOG4194|consen   79 QTQTLDLSNN-KLSHI--DFEFFYNLPNLQEVNLNK-NELTRIP--RFGHESGHLEKLDLRHNL-ISSVTS---------  142 (873)
T ss_pred             ceeeeecccc-ccccC--cHHHHhcCCcceeeeecc-chhhhcc--cccccccceeEEeeeccc-cccccH---------
Confidence            3345666554 23322  122345667777777766 5666666  333445557777776643 443332         


Q ss_pred             CccCceecccccEEecccCCcccccccccccchhhHhhhcccccccCCcceecccccccccccccccccccccceeeccc
Q 000945          548 HEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCA  627 (1212)
Q Consensus       548 ~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~  627 (1212)
                        +.+..++.|++|+|+.. .+..++.                                     ..+..-.++++|+|++
T Consensus       143 --e~L~~l~alrslDLSrN-~is~i~~-------------------------------------~sfp~~~ni~~L~La~  182 (873)
T KOG4194|consen  143 --EELSALPALRSLDLSRN-LISEIPK-------------------------------------PSFPAKVNIKKLNLAS  182 (873)
T ss_pred             --HHHHhHhhhhhhhhhhc-hhhcccC-------------------------------------CCCCCCCCceEEeecc
Confidence              34556667777766541 0111000                                     0011126799999999


Q ss_pred             cccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCcccee
Q 000945          628 ISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFL  707 (1212)
Q Consensus       628 ~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L  707 (1212)
                      |.++.+-.+.|.  .|.+|..|.|++ ++++.+|+..| .+||.|+.|+|..+. ++.+..       ..+..+++|+.|
T Consensus       183 N~It~l~~~~F~--~lnsL~tlkLsr-NrittLp~r~F-k~L~~L~~LdLnrN~-irive~-------ltFqgL~Sl~nl  250 (873)
T KOG4194|consen  183 NRITTLETGHFD--SLNSLLTLKLSR-NRITTLPQRSF-KRLPKLESLDLNRNR-IRIVEG-------LTFQGLPSLQNL  250 (873)
T ss_pred             cccccccccccc--ccchheeeeccc-CcccccCHHHh-hhcchhhhhhccccc-eeeehh-------hhhcCchhhhhh
Confidence            988877766665  577899999988 57888877654 779999999998776 555421       234457777777


Q ss_pred             ecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccc
Q 000945          708 KLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDI  787 (1212)
Q Consensus       708 ~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~  787 (1212)
                      .+.... +..+..|. ...+..++.|++... ++..+          ..+++            ..+++|+.|++|+|.+
T Consensus       251 klqrN~-I~kL~DG~-Fy~l~kme~l~L~~N-~l~~v----------n~g~l------------fgLt~L~~L~lS~NaI  305 (873)
T KOG4194|consen  251 KLQRND-ISKLDDGA-FYGLEKMEHLNLETN-RLQAV----------NEGWL------------FGLTSLEQLDLSYNAI  305 (873)
T ss_pred             hhhhcC-cccccCcc-eeeecccceeecccc-hhhhh----------hcccc------------cccchhhhhccchhhh
Confidence            776542 12222222 224555666666552 33332          11111            1256777777777777


Q ss_pred             cccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccc
Q 000945          788 AMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDL  867 (1212)
Q Consensus       788 ~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l  867 (1212)
                      ..+...  .....++|++|+|++|.+..++++.|..+..|+.|+|+.|.+..+-.     ..+..+.+|+.|+++++. +
T Consensus       306 ~rih~d--~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e-----~af~~lssL~~LdLr~N~-l  377 (873)
T KOG4194|consen  306 QRIHID--SWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNSIDHLAE-----GAFVGLSSLHKLDLRSNE-L  377 (873)
T ss_pred             heeecc--hhhhcccceeEeccccccccCChhHHHHHHHhhhhcccccchHHHHh-----hHHHHhhhhhhhcCcCCe-E
Confidence            666531  22235667777777777777777777777777777777666654421     123335666666666532 1


Q ss_pred             hhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeecc
Q 000945          868 MYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWY  915 (1212)
Q Consensus       868 ~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~  915 (1212)
                      .-.-++....+..+++|+.|++.++ .+.++|.. +..|.+|+.|++.+
T Consensus       378 s~~IEDaa~~f~gl~~LrkL~l~gN-qlk~I~krAfsgl~~LE~LdL~~  425 (873)
T KOG4194|consen  378 SWCIEDAAVAFNGLPSLRKLRLTGN-QLKSIPKRAFSGLEALEHLDLGD  425 (873)
T ss_pred             EEEEecchhhhccchhhhheeecCc-eeeecchhhhccCcccceecCCC
Confidence            1111112223334555555555542 34444422 23445555555544

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

Probab=99.80  E-value=1.2e-21  Score=223.83  Aligned_cols=88  Identities=23%  Similarity=0.379  Sum_probs=80.5

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK  345 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~  345 (1212)
                      +|+.||++.|.+...|..|..+.+|+.|+++.| .+..+|.+ ..++++|++|.+.+|...            ..+..+.
T Consensus        46 ~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n-~i~~vp~s-~~~~~~l~~lnL~~n~l~------------~lP~~~~  111 (1081)
T KOG0618|consen   46 KLKSLDLSNNQISSFPIQITLLSHLRQLNLSRN-YIRSVPSS-CSNMRNLQYLNLKNNRLQ------------SLPASIS  111 (1081)
T ss_pred             eeEEeeccccccccCCchhhhHHHHhhcccchh-hHhhCchh-hhhhhcchhheeccchhh------------cCchhHH
Confidence            699999999999999999999999999999999 89999987 899999999999999884            5677888


Q ss_pred             cCCCCCcceeeecccccCCCCc
Q 000945          346 LLSHLTTLEIQICDAMILPKGL  367 (1212)
Q Consensus       346 ~l~~L~~L~l~~~~~~~~p~~~  367 (1212)
                      .+.+|+.|++++|....+|.-+
T Consensus       112 ~lknl~~LdlS~N~f~~~Pl~i  133 (1081)
T KOG0618|consen  112 ELKNLQYLDLSFNHFGPIPLVI  133 (1081)
T ss_pred             hhhcccccccchhccCCCchhH
Confidence            9999999999999988888754

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

Probab=99.79  E-value=2.5e-21  Score=210.12  Aligned_cols=158  Identities=19%  Similarity=0.219  Sum_probs=82.5

Q ss_pred             cCCccccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccC
Q 000945          487 QLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFL  566 (1212)
Q Consensus       487 ~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  566 (1212)
                      |.....+..++.|.|.. .+|.++|  ..++.|.+|++|.++++. +..+..            ++..+|.||.+.+.+.
T Consensus        25 P~~v~qMt~~~WLkLnr-t~L~~vP--eEL~~lqkLEHLs~~HN~-L~~vhG------------ELs~Lp~LRsv~~R~N   88 (1255)
T KOG0444|consen   25 PHDVEQMTQMTWLKLNR-TKLEQVP--EELSRLQKLEHLSMAHNQ-LISVHG------------ELSDLPRLRSVIVRDN   88 (1255)
T ss_pred             chhHHHhhheeEEEech-hhhhhCh--HHHHHHhhhhhhhhhhhh-hHhhhh------------hhccchhhHHHhhhcc
Confidence            33345566666666665 5666666  456666667776666643 444443            5566666666655442


Q ss_pred             Ccccc--cccccccchhhHhhhcccccccCCcceecccccccccccccccccccccceeeccccccceecccCcccccCc
Q 000945          567 PQLTS--FYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQ  644 (1212)
Q Consensus       567 ~~l~~--~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~  644 (1212)
                      . ++.  ++..       .-++..|...+++..+        +..++..+....++-+|+||+|++..++...|.  .+.
T Consensus        89 ~-LKnsGiP~d-------iF~l~dLt~lDLShNq--------L~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfi--nLt  150 (1255)
T KOG0444|consen   89 N-LKNSGIPTD-------IFRLKDLTILDLSHNQ--------LREVPTNLEYAKNSIVLNLSYNNIETIPNSLFI--NLT  150 (1255)
T ss_pred             c-cccCCCCch-------hcccccceeeecchhh--------hhhcchhhhhhcCcEEEEcccCccccCCchHHH--hhH
Confidence            1 111  1110       0011112111221111        112223334445666677777766665544332  456


Q ss_pred             CccEEEEecCCCccccCchhhhhccCCCcEEEecccc
Q 000945          645 NLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCS  681 (1212)
Q Consensus       645 ~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~  681 (1212)
                      .|-.|+|++ +++..+||.  +..|.+|+.|.|++++
T Consensus       151 DLLfLDLS~-NrLe~LPPQ--~RRL~~LqtL~Ls~NP  184 (1255)
T KOG0444|consen  151 DLLFLDLSN-NRLEMLPPQ--IRRLSMLQTLKLSNNP  184 (1255)
T ss_pred             hHhhhcccc-chhhhcCHH--HHHHhhhhhhhcCCCh
Confidence            666667766 466666665  5667777777777666

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

Probab=99.79  E-value=2.1e-21  Score=221.87  Aligned_cols=256  Identities=18%  Similarity=0.117  Sum_probs=132.5

Q ss_pred             eeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCC
Q 000945          623 LELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFP  702 (1212)
Q Consensus       623 L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~  702 (1212)
                      |++++|.+.....     ..+++|+.|+... +.+..+     --..++|+.|+.++|+.. .+..         .....
T Consensus       183 ldLr~N~~~~~dl-----s~~~~l~~l~c~r-n~ls~l-----~~~g~~l~~L~a~~n~l~-~~~~---------~p~p~  241 (1081)
T KOG0618|consen  183 LDLRYNEMEVLDL-----SNLANLEVLHCER-NQLSEL-----EISGPSLTALYADHNPLT-TLDV---------HPVPL  241 (1081)
T ss_pred             eecccchhhhhhh-----hhccchhhhhhhh-cccceE-----EecCcchheeeeccCcce-eecc---------ccccc
Confidence            6666664432211     1355555555433 344433     123466777777777633 2211         11234


Q ss_pred             ccceeecccC--CccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceee
Q 000945          703 KVTFLKLWNL--SELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEEL  780 (1212)
Q Consensus       703 ~L~~L~l~~~--~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L  780 (1212)
                      +|++++++..  .++.+|.     ..+++|+.+.+... .|..+|...                       ....+|+.|
T Consensus       242 nl~~~dis~n~l~~lp~wi-----~~~~nle~l~~n~N-~l~~lp~ri-----------------------~~~~~L~~l  292 (1081)
T KOG0618|consen  242 NLQYLDISHNNLSNLPEWI-----GACANLEALNANHN-RLVALPLRI-----------------------SRITSLVSL  292 (1081)
T ss_pred             cceeeecchhhhhcchHHH-----HhcccceEecccch-hHHhhHHHH-----------------------hhhhhHHHH
Confidence            5666665532  2222221     24677777776663 445543111                       015678888


Q ss_pred             eeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCc-cceeEEEccceeEeccccchh------------
Q 000945          781 KLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHN-LEKLELRWSSYKEIFSNEEIV------------  847 (1212)
Q Consensus       781 ~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~-L~~L~l~c~~l~~~~~~~~~~------------  847 (1212)
                      .+..|++..+++   ....+.+|++|+|..|.+.++|..++.-+.. |..|+.+|+.+...+..++..            
T Consensus       293 ~~~~nel~yip~---~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN  369 (1081)
T KOG0618|consen  293 SAAYNELEYIPP---FLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANN  369 (1081)
T ss_pred             HhhhhhhhhCCC---cccccceeeeeeehhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcC
Confidence            888888888764   2335788888888888888888877766655 777777777777665433210            


Q ss_pred             -------hccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcc
Q 000945          848 -------EHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLM  920 (1212)
Q Consensus       848 -------~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~  920 (1212)
                             ..+.+..+|+.|+++++. |.+||.   ..+.++..|++|++|| ++|+.+|..+..+..|++|...+ +.|.
T Consensus       370 ~Ltd~c~p~l~~~~hLKVLhLsyNr-L~~fpa---s~~~kle~LeeL~LSG-NkL~~Lp~tva~~~~L~tL~ahs-N~l~  443 (1081)
T KOG0618|consen  370 HLTDSCFPVLVNFKHLKVLHLSYNR-LNSFPA---SKLRKLEELEELNLSG-NKLTTLPDTVANLGRLHTLRAHS-NQLL  443 (1081)
T ss_pred             cccccchhhhccccceeeeeecccc-cccCCH---HHHhchHHhHHHhccc-chhhhhhHHHHhhhhhHHHhhcC-Ccee
Confidence                   111223444555554421 333321   2233444455555554 24444554444455555554444 2444


Q ss_pred             cccchhhhcccccccEEEec
Q 000945          921 NLVTSSTAKSLVCLTKLRID  940 (1212)
Q Consensus       921 ~l~~~~~~~~l~~L~~L~i~  940 (1212)
                      .+|   -+..+++|+.++++
T Consensus       444 ~fP---e~~~l~qL~~lDlS  460 (1081)
T KOG0618|consen  444 SFP---ELAQLPQLKVLDLS  460 (1081)
T ss_pred             ech---hhhhcCcceEEecc
Confidence            443   12334555555554

>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=99.64  E-value=5.6e-16  Score=171.97  Aligned_cols=111  Identities=34%  Similarity=0.501  Sum_probs=96.4

Q ss_pred             hHHHHHHHHHHhCC--CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCccc-
Q 000945          154 RKSILNDALDALSN--PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC-  230 (1212)
Q Consensus       154 r~~~~~~l~~~L~~--~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~-  230 (1212)
                      ||.++++|.+.|.+  ++.++|+|+||||+||||||+.+|++..++.+|+.++|+.+++.++...++++|+.+++.... 
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            78899999999986  789999999999999999999999997788999999999999999999999999999988732 


Q ss_pred             ---CCChhHHHHHHHHHHHcCCcEE-EecCccccccccc
Q 000945          231 ---EGSESERAMVLCGLLKKGKKIL-VLDNIWTSLDLDK  265 (1212)
Q Consensus       231 ---~~~~~~~~~~l~~~L~~~kr~L-VLDDVw~~~~~~~  265 (1212)
                         ..+..+....+++.|.+ +++| ||||||+...|+.
T Consensus        81 ~~~~~~~~~~~~~l~~~L~~-~~~LlVlDdv~~~~~~~~  118 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLKD-KRCLLVLDDVWDEEDLEE  118 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHCC-TSEEEEEEEE-SHHHH--
T ss_pred             cccccccccccccchhhhcc-ccceeeeeeecccccccc
Confidence               34566789999999996 8999 9999999998865

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.

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.45  E-value=2.9e-13  Score=162.18  Aligned_cols=256  Identities=19%  Similarity=0.134  Sum_probs=127.9

Q ss_pred             cCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCC
Q 000945          644 QNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTH  723 (1212)
Q Consensus       644 ~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~  723 (1212)
                      .+-..|+++++ .++.+|+.  +  .++|+.|++.++. ++.++.           .+++|++|++.++ ++..++.   
T Consensus       201 ~~~~~LdLs~~-~LtsLP~~--l--~~~L~~L~L~~N~-Lt~LP~-----------lp~~Lk~LdLs~N-~LtsLP~---  259 (788)
T PRK15387        201 NGNAVLNVGES-GLTTLPDC--L--PAHITTLVIPDNN-LTSLPA-----------LPPELRTLEVSGN-QLTSLPV---  259 (788)
T ss_pred             CCCcEEEcCCC-CCCcCCcc--h--hcCCCEEEccCCc-CCCCCC-----------CCCCCcEEEecCC-ccCcccC---
Confidence            34667888886 77787763  2  2578999998865 666532           1466777776664 4444432   


Q ss_pred             cCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccc
Q 000945          724 TSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNL  803 (1212)
Q Consensus       724 ~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L  803 (1212)
                        .+++|+.|++.+| .+..+|.                          .+++|+.|++++|.++.++.      .+++|
T Consensus       260 --lp~sL~~L~Ls~N-~L~~Lp~--------------------------lp~~L~~L~Ls~N~Lt~LP~------~p~~L  304 (788)
T PRK15387        260 --LPPGLLELSIFSN-PLTHLPA--------------------------LPSGLCKLWIFGNQLTSLPV------LPPGL  304 (788)
T ss_pred             --cccccceeeccCC-chhhhhh--------------------------chhhcCEEECcCCccccccc------ccccc
Confidence              2455666666665 2444420                          13456666666666655532      13456


Q ss_pred             eEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCc
Q 000945          804 KNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITEN  883 (1212)
Q Consensus       804 ~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~  883 (1212)
                      +.|++++|.+..+|..    ..+|+.|+++.|.++.++..         +.+|+.|+++++ .+..+|    .   ...+
T Consensus       305 ~~LdLS~N~L~~Lp~l----p~~L~~L~Ls~N~L~~LP~l---------p~~Lq~LdLS~N-~Ls~LP----~---lp~~  363 (788)
T PRK15387        305 QELSVSDNQLASLPAL----PSELCKLWAYNNQLTSLPTL---------PSGLQELSVSDN-QLASLP----T---LPSE  363 (788)
T ss_pred             ceeECCCCccccCCCC----cccccccccccCcccccccc---------ccccceEecCCC-ccCCCC----C---CCcc
Confidence            6666666655555531    23455555555555444321         345555555553 233332    1   1234


Q ss_pred             ccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccccceecc
Q 000945          884 LESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFS  963 (1212)
Q Consensus       884 L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~  963 (1212)
                      |..|++++| .+..+|..   .++|+.|++++| .++.+|.     ..++|+.|++++|. +..+|.          .+.
T Consensus       364 L~~L~Ls~N-~L~~LP~l---~~~L~~LdLs~N-~Lt~LP~-----l~s~L~~LdLS~N~-LssIP~----------l~~  422 (788)
T PRK15387        364 LYKLWAYNN-RLTSLPAL---PSGLKELIVSGN-RLTSLPV-----LPSELKELMVSGNR-LTSLPM----------LPS  422 (788)
T ss_pred             cceehhhcc-ccccCccc---ccccceEEecCC-cccCCCC-----cccCCCEEEccCCc-CCCCCc----------chh
Confidence            455555543 33444432   234555555553 4444431     12345555555544 333331          123


Q ss_pred             chhhhhhccCCCcccccCCCceeecCCccEEEeccCC
Q 000945          964 KLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECP 1000 (1212)
Q Consensus       964 ~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~ 1000 (1212)
                      +|+.|+++++ .++.+|....  .+++|+.|++++++
T Consensus       423 ~L~~L~Ls~N-qLt~LP~sl~--~L~~L~~LdLs~N~  456 (788)
T PRK15387        423 GLLSLSVYRN-QLTRLPESLI--HLSSETTVNLEGNP  456 (788)
T ss_pred             hhhhhhhccC-cccccChHHh--hccCCCeEECCCCC
Confidence            4444555443 2444444332  23445555554444

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.44  E-value=3.9e-13  Score=161.16  Aligned_cols=256  Identities=19%  Similarity=0.124  Sum_probs=191.6

Q ss_pred             cccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccc
Q 000945          618 PNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATT  697 (1212)
Q Consensus       618 ~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  697 (1212)
                      ..-..|++++++++.++...     .++|+.|++.+ ++++.+|.     .+++|++|++++|. ++.++.         
T Consensus       201 ~~~~~LdLs~~~LtsLP~~l-----~~~L~~L~L~~-N~Lt~LP~-----lp~~Lk~LdLs~N~-LtsLP~---------  259 (788)
T PRK15387        201 NGNAVLNVGESGLTTLPDCL-----PAHITTLVIPD-NNLTSLPA-----LPPELRTLEVSGNQ-LTSLPV---------  259 (788)
T ss_pred             CCCcEEEcCCCCCCcCCcch-----hcCCCEEEccC-CcCCCCCC-----CCCCCcEEEecCCc-cCcccC---------
Confidence            44667899999887665432     45799999998 47888765     26899999999984 777742         


Q ss_pred             cccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccc
Q 000945          698 TFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKL  777 (1212)
Q Consensus       698 ~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L  777 (1212)
                        .+++|+.|++.++. +..++.     .++.|+.|++++| +++.+|.                          .+++|
T Consensus       260 --lp~sL~~L~Ls~N~-L~~Lp~-----lp~~L~~L~Ls~N-~Lt~LP~--------------------------~p~~L  304 (788)
T PRK15387        260 --LPPGLLELSIFSNP-LTHLPA-----LPSGLCKLWIFGN-QLTSLPV--------------------------LPPGL  304 (788)
T ss_pred             --cccccceeeccCCc-hhhhhh-----chhhcCEEECcCC-ccccccc--------------------------ccccc
Confidence              25789999998874 555442     3467899999986 5666641                          15789


Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVK  857 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~  857 (1212)
                      +.|++++|.+..++.      ...+|+.|++++|.+..+|..    ..+|+.|+++.|+|+.+|+.         +.+|+
T Consensus       305 ~~LdLS~N~L~~Lp~------lp~~L~~L~Ls~N~L~~LP~l----p~~Lq~LdLS~N~Ls~LP~l---------p~~L~  365 (788)
T PRK15387        305 QELSVSDNQLASLPA------LPSELCKLWAYNNQLTSLPTL----PSGLQELSVSDNQLASLPTL---------PSELY  365 (788)
T ss_pred             ceeECCCCccccCCC------CcccccccccccCcccccccc----ccccceEecCCCccCCCCCC---------Ccccc
Confidence            999999999988753      235788999999999988852    35899999999999887642         57888


Q ss_pred             eEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEE
Q 000945          858 SLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKL  937 (1212)
Q Consensus       858 ~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L  937 (1212)
                      .|+++++ .+..++    .   ...+|+.|++++| .++.+|..   .++|+.|++++| .++.+|.  .   +.+|+.|
T Consensus       366 ~L~Ls~N-~L~~LP----~---l~~~L~~LdLs~N-~Lt~LP~l---~s~L~~LdLS~N-~LssIP~--l---~~~L~~L  427 (788)
T PRK15387        366 KLWAYNN-RLTSLP----A---LPSGLKELIVSGN-RLTSLPVL---PSELKELMVSGN-RLTSLPM--L---PSGLLSL  427 (788)
T ss_pred             eehhhcc-ccccCc----c---cccccceEEecCC-cccCCCCc---ccCCCEEEccCC-cCCCCCc--c---hhhhhhh
Confidence            9988874 355553    2   2357999999986 56678753   478999999996 6888873  2   3468889


Q ss_pred             EecCcchhhHhhccCccccccceeccchhhhhhccCC
Q 000945          938 RIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLE  974 (1212)
Q Consensus       938 ~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  974 (1212)
                      ++++|. +..+|.       ....+++|+.|++++++
T Consensus       428 ~Ls~Nq-Lt~LP~-------sl~~L~~L~~LdLs~N~  456 (788)
T PRK15387        428 SVYRNQ-LTRLPE-------SLIHLSSETTVNLEGNP  456 (788)
T ss_pred             hhccCc-ccccCh-------HHhhccCCCeEECCCCC
Confidence            999877 777774       23457889999999886

>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]

Probab=99.44  E-value=4.8e-13  Score=110.68  Aligned_cols=67  Identities=33%  Similarity=0.463  Sum_probs=62.3

Q ss_pred             cceEEEEEEEecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhc-CceEEE
Q 000945         1115 TKQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQL-CATELV 1181 (1212)
Q Consensus      1115 ~~~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~-~~~~~~ 1181 (1212)
                      .+++.+++|+|||+||+++|++.+.+++||+++.+|.++++|||.|++||..|+++++|++ +++..+
T Consensus         3 ~~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~~   70 (73)
T KOG1603|consen    3 PIKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAELW   70 (73)
T ss_pred             CccEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEEe
Confidence            4678999999999999999999999999999999999999999999999999999999988 455554

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.29  E-value=3.2e-12  Score=154.75  Aligned_cols=120  Identities=18%  Similarity=0.192  Sum_probs=56.1

Q ss_pred             CCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccc
Q 000945          671 QLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLR  750 (1212)
Q Consensus       671 ~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~  750 (1212)
                      +...|+++++. +..++.          ...+.|+.|++.++ ++..++..    .+++|+.|++++| +++.+|...  
T Consensus       179 ~~~~L~L~~~~-LtsLP~----------~Ip~~L~~L~Ls~N-~LtsLP~~----l~~nL~~L~Ls~N-~LtsLP~~l--  239 (754)
T PRK15370        179 NKTELRLKILG-LTTIPA----------CIPEQITTLILDNN-ELKSLPEN----LQGNIKTLYANSN-QLTSIPATL--  239 (754)
T ss_pred             CceEEEeCCCC-cCcCCc----------ccccCCcEEEecCC-CCCcCChh----hccCCCEEECCCC-ccccCChhh--
Confidence            45677776654 555432          11345666666554 34444332    1245566666554 344443110  


Q ss_pred             hhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCcccee
Q 000945          751 FQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKL  830 (1212)
Q Consensus       751 ~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L  830 (1212)
                                             +++|+.|++++|.+..++.     ...++|+.|++++|.+..+|..+   .++|+.|
T Consensus       240 -----------------------~~~L~~L~Ls~N~L~~LP~-----~l~s~L~~L~Ls~N~L~~LP~~l---~~sL~~L  288 (754)
T PRK15370        240 -----------------------PDTIQEMELSINRITELPE-----RLPSALQSLDLFHNKISCLPENL---PEELRYL  288 (754)
T ss_pred             -----------------------hccccEEECcCCccCcCCh-----hHhCCCCEEECcCCccCcccccc---CCCCcEE
Confidence                                   2345555555555554421     11234555555555555554432   1345555


Q ss_pred             EEEccceeEe
Q 000945          831 ELRWSSYKEI  840 (1212)
Q Consensus       831 ~l~c~~l~~~  840 (1212)
                      +++.|+|+.+
T Consensus       289 ~Ls~N~Lt~L  298 (754)
T PRK15370        289 SVYDNSIRTL  298 (754)
T ss_pred             ECCCCccccC
Confidence            5554444443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.27  E-value=7.8e-12  Score=151.35  Aligned_cols=247  Identities=15%  Similarity=0.118  Sum_probs=160.0

Q ss_pred             cccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccc
Q 000945          618 PNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATT  697 (1212)
Q Consensus       618 ~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  697 (1212)
                      .+...|++++++++.++...     .++|+.|+|+++ .++.+|..    ..++|++|++++|. ++.++.         
T Consensus       178 ~~~~~L~L~~~~LtsLP~~I-----p~~L~~L~Ls~N-~LtsLP~~----l~~nL~~L~Ls~N~-LtsLP~---------  237 (754)
T PRK15370        178 NNKTELRLKILGLTTIPACI-----PEQITTLILDNN-ELKSLPEN----LQGNIKTLYANSNQ-LTSIPA---------  237 (754)
T ss_pred             cCceEEEeCCCCcCcCCccc-----ccCCcEEEecCC-CCCcCChh----hccCCCEEECCCCc-cccCCh---------
Confidence            45667778777666554321     356888888775 67776552    23588888888775 666532         


Q ss_pred             cccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccc
Q 000945          698 TFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKL  777 (1212)
Q Consensus       698 ~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L  777 (1212)
                       ..+++|+.|.++++. +..++..    ...+|+.|++++ +++..+|..                         .+++|
T Consensus       238 -~l~~~L~~L~Ls~N~-L~~LP~~----l~s~L~~L~Ls~-N~L~~LP~~-------------------------l~~sL  285 (754)
T PRK15370        238 -TLPDTIQEMELSINR-ITELPER----LPSALQSLDLFH-NKISCLPEN-------------------------LPEEL  285 (754)
T ss_pred             -hhhccccEEECcCCc-cCcCChh----HhCCCCEEECcC-CccCccccc-------------------------cCCCC
Confidence             124567888887764 4444432    134688888874 466666421                         13578


Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVK  857 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~  857 (1212)
                      +.|++++|.++.++.     ...++|+.|++++|.+..+|...   .++|+.|+++.|.++.++..        .+++|+
T Consensus       286 ~~L~Ls~N~Lt~LP~-----~lp~sL~~L~Ls~N~Lt~LP~~l---~~sL~~L~Ls~N~Lt~LP~~--------l~~sL~  349 (754)
T PRK15370        286 RYLSVYDNSIRTLPA-----HLPSGITHLNVQSNSLTALPETL---PPGLKTLEAGENALTSLPAS--------LPPELQ  349 (754)
T ss_pred             cEEECCCCccccCcc-----cchhhHHHHHhcCCccccCCccc---cccceeccccCCccccCChh--------hcCccc
Confidence            888888888776642     11246888888888888777543   36788888886677765431        157888


Q ss_pred             eEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccch--hhhccccccc
Q 000945          858 SLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTS--STAKSLVCLT  935 (1212)
Q Consensus       858 ~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~--~~~~~l~~L~  935 (1212)
                      .|++++|. +..++    ..+  .++|+.|++++| .+..+|+.+  ..+|+.|++++| ++..+|..  .....++++.
T Consensus       350 ~L~Ls~N~-L~~LP----~~l--p~~L~~LdLs~N-~Lt~LP~~l--~~sL~~LdLs~N-~L~~LP~sl~~~~~~~~~l~  418 (754)
T PRK15370        350 VLDVSKNQ-ITVLP----ETL--PPTITTLDVSRN-ALTNLPENL--PAALQIMQASRN-NLVRLPESLPHFRGEGPQPT  418 (754)
T ss_pred             EEECCCCC-CCcCC----hhh--cCCcCEEECCCC-cCCCCCHhH--HHHHHHHhhccC-CcccCchhHHHHhhcCCCcc
Confidence            88888864 55553    222  357888888886 466777654  347888888884 67777631  2333456778


Q ss_pred             EEEecCcc
Q 000945          936 KLRIDGCR  943 (1212)
Q Consensus       936 ~L~i~~c~  943 (1212)
                      .|++.+++
T Consensus       419 ~L~L~~Np  426 (754)
T PRK15370        419 RIIVEYNP  426 (754)
T ss_pred             EEEeeCCC
Confidence            88888876

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

Probab=99.25  E-value=1.4e-13  Score=143.49  Aligned_cols=53  Identities=23%  Similarity=0.340  Sum_probs=35.9

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEE
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELR  833 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~  833 (1212)
                      ..-.+|++.+|.++.++..     .+.+| .+|+++|.+..+....|.+++.|..|-|+
T Consensus       444 ~d~telyl~gn~~~~vp~~-----~~~~l-~~dls~n~i~~Lsn~tf~n~tql~tlils  496 (498)
T KOG4237|consen  444 VDVTELYLDGNAITSVPDE-----LLRSL-LLDLSNNRISSLSNYTFSNMTQLSTLILS  496 (498)
T ss_pred             chhHHHhcccchhcccCHH-----HHhhh-hcccccCceehhhcccccchhhhheeEEe
Confidence            3456677777777776532     45666 77777777777776667777777766665

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

Probab=99.01  E-value=1.3e-11  Score=130.45  Aligned_cols=117  Identities=22%  Similarity=0.235  Sum_probs=74.4

Q ss_pred             cccceeecccc-ccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          618 PNLETLELCAI-STEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       618 ~~L~~L~l~~~-~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      ..|+.|.++|+ .........+. ..++++++|.+.+|.++++..-.++...++.|++|++..|.+++......      
T Consensus       138 g~lk~LSlrG~r~v~~sslrt~~-~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~------  210 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRTFA-SNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKY------  210 (483)
T ss_pred             cccccccccccccCCcchhhHHh-hhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHH------
Confidence            45788888888 43333333333 46888888888888888776555566678888888888888777664321      


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKV  741 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L  741 (1212)
                      ....+|+|++|+++.|+....-........+..++.+...+|..+
T Consensus       211 la~gC~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~  255 (483)
T KOG4341|consen  211 LAEGCRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLEL  255 (483)
T ss_pred             HHHhhhhHHHhhhccCchhhcCcchHHhccchhhhhhhhcccccc
Confidence            122478888888888876665211111123444666666666543

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

Probab=98.97  E-value=2.5e-11  Score=111.70  Aligned_cols=64  Identities=16%  Similarity=0.213  Sum_probs=46.4

Q ss_pred             cccceeecccccccceeecccCCccccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhc
Q 000945          467 LLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFT  538 (1212)
Q Consensus       467 ~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~  538 (1212)
                      ..|+.|.|+++.    +...|..++++.+||.|.++. +.+-.+|  ..++.|..|++|+|.++. +..+|.
T Consensus       127 ~tlralyl~dnd----fe~lp~dvg~lt~lqil~lrd-ndll~lp--keig~lt~lrelhiqgnr-l~vlpp  190 (264)
T KOG0617|consen  127 TTLRALYLGDND----FEILPPDVGKLTNLQILSLRD-NDLLSLP--KEIGDLTRLRELHIQGNR-LTVLPP  190 (264)
T ss_pred             HHHHHHHhcCCC----cccCChhhhhhcceeEEeecc-CchhhCc--HHHHHHHHHHHHhcccce-eeecCh
Confidence            344445555442    133477788999999999988 5777787  668889999999998855 777776

>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures

Probab=98.87  E-value=6.3e-09  Score=84.00  Aligned_cols=57  Identities=25%  Similarity=0.278  Sum_probs=52.6

Q ss_pred             EEEE-EecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecC---HHHHHHHHHhhcC
Q 000945         1120 VLKL-EIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDID---AVPVVRKLRKQLC 1176 (1212)
Q Consensus      1120 ~~~v-~~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d---~~~~~~~l~k~~~ 1176 (1212)
                      +++| +|+|++|++++.+++.+++||.++.+|...++++|.++.+   +.++.++|++.|+
T Consensus         1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy   61 (62)
T PF00403_consen    1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGY   61 (62)
T ss_dssp             EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTS
T ss_pred             CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCc
Confidence            4778 5999999999999999999999999999999999999955   4999999999886

These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....

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

Probab=98.84  E-value=1.5e-10  Score=121.21  Aligned_cols=130  Identities=15%  Similarity=0.100  Sum_probs=67.6

Q ss_pred             ccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccccccc
Q 000945          496 LKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQ  575 (1212)
Q Consensus       496 L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~  575 (1212)
                      -..++|.. +.++.+|+ ..++.+++|+.|+++++. ++.|-.           ..+..+.+|.+|-+.+..+++.++.+
T Consensus        69 tveirLdq-N~I~~iP~-~aF~~l~~LRrLdLS~N~-Is~I~p-----------~AF~GL~~l~~Lvlyg~NkI~~l~k~  134 (498)
T KOG4237|consen   69 TVEIRLDQ-NQISSIPP-GAFKTLHRLRRLDLSKNN-ISFIAP-----------DAFKGLASLLSLVLYGNNKITDLPKG  134 (498)
T ss_pred             ceEEEecc-CCcccCCh-hhccchhhhceecccccc-hhhcCh-----------HhhhhhHhhhHHHhhcCCchhhhhhh
Confidence            44455555 45666654 345666666666666643 554433           23445555555555555555555554


Q ss_pred             cccchhhHhhhcccccccCCcceecccccccccccccccccccccceeeccccccceecccCcccccCcCccEEEEecC
Q 000945          576 VKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGC  654 (1212)
Q Consensus       576 ~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c  654 (1212)
                      .+..+..++.+...           ...|+.+  ..+.+..+++|..|.+.+|.+..+..+.+.  .+.+++.+++...
T Consensus       135 ~F~gL~slqrLllN-----------an~i~Ci--r~~al~dL~~l~lLslyDn~~q~i~~~tf~--~l~~i~tlhlA~n  198 (498)
T KOG4237|consen  135 AFGGLSSLQRLLLN-----------ANHINCI--RQDALRDLPSLSLLSLYDNKIQSICKGTFQ--GLAAIKTLHLAQN  198 (498)
T ss_pred             HhhhHHHHHHHhcC-----------hhhhcch--hHHHHHHhhhcchhcccchhhhhhcccccc--chhccchHhhhcC
Confidence            44333333322110           0011111  012334567888888888876666665544  4666777776553

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

Probab=98.84  E-value=2.1e-10  Score=105.70  Aligned_cols=159  Identities=16%  Similarity=0.136  Sum_probs=112.2

Q ss_pred             cccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCcc
Q 000945          800 FRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDS  879 (1212)
Q Consensus       800 ~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~  879 (1212)
                      +++.+.|.+++|.+..+|+. +..+.+|+.|+++.|.++++|..      +..++.|+.|++.- ..+..+    |.+++
T Consensus        32 ~s~ITrLtLSHNKl~~vppn-ia~l~nlevln~~nnqie~lp~~------issl~klr~lnvgm-nrl~~l----prgfg   99 (264)
T KOG0617|consen   32 MSNITRLTLSHNKLTVVPPN-IAELKNLEVLNLSNNQIEELPTS------ISSLPKLRILNVGM-NRLNIL----PRGFG   99 (264)
T ss_pred             hhhhhhhhcccCceeecCCc-HHHhhhhhhhhcccchhhhcChh------hhhchhhhheecch-hhhhcC----ccccC
Confidence            45566666777777777776 66777777777777777776542      22356666666643 334444    77888


Q ss_pred             ccCcccEEEEecCCCc-ccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCcccccc
Q 000945          880 ITENLESLEVWWCENL-INLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAED  958 (1212)
Q Consensus       880 ~l~~L~~L~l~~c~~l-~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~  958 (1212)
                      .++.|+.|++.+++.- .++|-.+..++.|+.|++++ +..+.+|  .-.+.+++|+.|.++++. +-++|.       .
T Consensus       100 s~p~levldltynnl~e~~lpgnff~m~tlralyl~d-ndfe~lp--~dvg~lt~lqil~lrdnd-ll~lpk-------e  168 (264)
T KOG0617|consen  100 SFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGD-NDFEILP--PDVGKLTNLQILSLRDND-LLSLPK-------E  168 (264)
T ss_pred             CCchhhhhhccccccccccCCcchhHHHHHHHHHhcC-CCcccCC--hhhhhhcceeEEeeccCc-hhhCcH-------H
Confidence            8899999999886544 46777777778888899988 4777777  445888999999998887 556663       3


Q ss_pred             ceeccchhhhhhccCCCcccccCC
Q 000945          959 EIVFSKLKWVSLERLENLTSFCSG  982 (1212)
Q Consensus       959 ~~~l~~L~~L~l~~~~~L~~l~~~  982 (1212)
                      ...+++|+.|+|.+. .|+-+|..
T Consensus       169 ig~lt~lrelhiqgn-rl~vlppe  191 (264)
T KOG0617|consen  169 IGDLTRLRELHIQGN-RLTVLPPE  191 (264)
T ss_pred             HHHHHHHHHHhcccc-eeeecChh
Confidence            455788888888876 36666643

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

Probab=98.80  E-value=1.9e-10  Score=121.76  Aligned_cols=92  Identities=18%  Similarity=0.169  Sum_probs=44.6

Q ss_pred             CCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCCCCCccCchhhhc
Q 000945          438 LQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVR  517 (1212)
Q Consensus       438 ~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~  517 (1212)
                      ..||.|++.++.....   +........+|++++|.+.+|.+++...... ....+++|++|++..|..+++..-.....
T Consensus       138 g~lk~LSlrG~r~v~~---sslrt~~~~CpnIehL~l~gc~~iTd~s~~s-la~~C~~l~~l~L~~c~~iT~~~Lk~la~  213 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGD---SSLRTFASNCPNIEHLALYGCKKITDSSLLS-LARYCRKLRHLNLHSCSSITDVSLKYLAE  213 (483)
T ss_pred             cccccccccccccCCc---chhhHHhhhCCchhhhhhhcceeccHHHHHH-HHHhcchhhhhhhcccchhHHHHHHHHHH
Confidence            3567777777654432   1212223455666666666665443321110 01234556666666665555542212334


Q ss_pred             cCCCccEEEEccCcCc
Q 000945          518 GLPQLQTLNVINCKNM  533 (1212)
Q Consensus       518 ~L~~L~~L~l~~c~~l  533 (1212)
                      .+++|++|+++.|+.+
T Consensus       214 gC~kL~~lNlSwc~qi  229 (483)
T KOG4341|consen  214 GCRKLKYLNLSWCPQI  229 (483)
T ss_pred             hhhhHHHhhhccCchh
Confidence            4555555555555543

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.73  E-value=1.1e-08  Score=126.46  Aligned_cols=106  Identities=22%  Similarity=0.138  Sum_probs=75.6

Q ss_pred             ccccceeeccccc--cceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccc
Q 000945          617 FPNLETLELCAIS--TEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEE  694 (1212)
Q Consensus       617 ~~~L~~L~l~~~~--l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~  694 (1212)
                      .+.|.+|-+.++.  +..+....|.  .++.|+.|+|++|..+..+|..  ++.|-+|++|+++++. +.++|.      
T Consensus       544 ~~~L~tLll~~n~~~l~~is~~ff~--~m~~LrVLDLs~~~~l~~LP~~--I~~Li~LryL~L~~t~-I~~LP~------  612 (889)
T KOG4658|consen  544 NPKLRTLLLQRNSDWLLEISGEFFR--SLPLLRVLDLSGNSSLSKLPSS--IGELVHLRYLDLSDTG-ISHLPS------  612 (889)
T ss_pred             CCccceEEEeecchhhhhcCHHHHh--hCcceEEEECCCCCccCcCChH--HhhhhhhhcccccCCC-ccccch------
Confidence            3568888777773  3333222222  5889999999999899888775  7889999999998876 777753      


Q ss_pred             ccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEec
Q 000945          695 ATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYG  737 (1212)
Q Consensus       695 ~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~  737 (1212)
                        ....|..|.+|++..+..+..++..  ...+++|++|.+..
T Consensus       613 --~l~~Lk~L~~Lnl~~~~~l~~~~~i--~~~L~~Lr~L~l~~  651 (889)
T KOG4658|consen  613 --GLGNLKKLIYLNLEVTGRLESIPGI--LLELQSLRVLRLPR  651 (889)
T ss_pred             --HHHHHHhhheeccccccccccccch--hhhcccccEEEeec
Confidence              4556788888888887777766322  22477888887765

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

Probab=98.61  E-value=9e-09  Score=116.56  Aligned_cols=64  Identities=17%  Similarity=0.070  Sum_probs=31.0

Q ss_pred             cccCcccEEEEecCCCcc----cccCCc-cccCCccEEeeccccCcccc---cchhhhcccccccEEEecCcc
Q 000945          879 SITENLESLEVWWCENLI----NLVPSS-ASFKNLTTLELWYCQRLMNL---VTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       879 ~~l~~L~~L~l~~c~~l~----~lp~~~-~~l~~L~~L~l~~c~~l~~l---~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      ..+++|++|++++|..-.    .+...+ ...+.|+.|++++| .++..   ........+++|+.+++++|.
T Consensus       218 ~~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n-~i~~~~~~~l~~~~~~~~~L~~l~l~~N~  289 (319)
T cd00116         218 ASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCN-DITDDGAKDLAEVLAEKESLLELDLRGNK  289 (319)
T ss_pred             cccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCC-CCCcHHHHHHHHHHhcCCCccEEECCCCC
Confidence            345566666666654221    010000 01356777777776 33211   001233444667777777766

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).

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.60  E-value=1.1e-07  Score=103.34  Aligned_cols=99  Identities=14%  Similarity=0.094  Sum_probs=68.0

Q ss_pred             HHHHhC-CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCC--CHHHHHHHHHHHhcCcccCCChh--
Q 000945          161 ALDALS-NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTP--DVKRIQGDIADQLGLYICEGSES--  235 (1212)
Q Consensus       161 l~~~L~-~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~--~~~~l~~~il~~l~~~~~~~~~~--  235 (1212)
                      +++++. =..-...+|+|.+|+||||||+.|||+...+ +|+.++||++++++  ++.++++.|...+-.........  
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            444444 1234568999999999999999999998865 99999999999999  88999999974221111111111  


Q ss_pred             -----HHHHHHHHHHHcCCcEE-EecCcccc
Q 000945          236 -----ERAMVLCGLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       236 -----~~~~~l~~~L~~~kr~L-VLDDVw~~  260 (1212)
                           .....-+.....|++++ ++|++-.-
T Consensus       238 ~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        238 VQVAEMVIEKAKRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHHHHHHHHHHHHcCCCEEEEEEChHHH
Confidence                 11222222234579999 99998755

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.59  E-value=7.3e-08  Score=101.23  Aligned_cols=92  Identities=16%  Similarity=0.073  Sum_probs=66.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCC--CCHHHHHHHHH-----HHhcCcccC--CChhHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQT--PDVKRIQGDIA-----DQLGLYICE--GSESERAM  239 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~--~~~~~l~~~il-----~~l~~~~~~--~~~~~~~~  239 (1212)
                      .-..++|+|.+|+|||||++.+|++.... +|+.++|++++.+  +++.+++++|.     .+++.....  ........
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~   93 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLE   93 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHH
Confidence            45689999999999999999999988754 9999999999887  89999999993     333321000  00112233


Q ss_pred             HHHHHHHcCCcEE-EecCccccc
Q 000945          240 VLCGLLKKGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       240 ~l~~~L~~~kr~L-VLDDVw~~~  261 (1212)
                      ........|++++ ++|++-.-.
T Consensus        94 ~a~~~~~~G~~vll~iDei~r~a  116 (249)
T cd01128          94 KAKRLVEHGKDVVILLDSITRLA  116 (249)
T ss_pred             HHHHHHHCCCCEEEEEECHHHhh
Confidence            3343334579999 999987553

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.

>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]

Probab=98.52  E-value=3.2e-07  Score=75.39  Aligned_cols=65  Identities=15%  Similarity=0.181  Sum_probs=56.9

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCC--eEEEEE-ecCHHHHHHHHHhhcCceEE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDK--KMIVIG-DIDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~--~~~v~g-~~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      |+++.++|. |+|++|+.++.++|.+++||.+|.+|.+.+  .|++.+ .++..++.+++.+.|+.+..
T Consensus         1 ~~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~   69 (71)
T COG2608           1 MMKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEE   69 (71)
T ss_pred             CceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeee
Confidence            356788997 999999999999999999999999999995  566677 48999999999999986653

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

Probab=98.43  E-value=2.7e-08  Score=106.37  Aligned_cols=191  Identities=19%  Similarity=0.254  Sum_probs=122.2

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccch--HHHhhcCccceeEEEccceeEeccccchhhccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRI--GFLERFHNLEKLELRWSSYKEIFSNEEIVEHAE  851 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~--~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~  851 (1212)
                      +..|+++.+.++........ .-...+++++.|||+.|.+..+-+  .+...+|+|+.|+|+.|.+......    ....
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~-~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s----~~~~  194 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIE-EYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISS----NTTL  194 (505)
T ss_pred             HHhhhheeecCccccccchh-hhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccc----cchh
Confidence            67788888866554433211 223468899999999987766432  3567899999999998777543221    1122


Q ss_pred             cccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccc
Q 000945          852 MLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSL  931 (1212)
Q Consensus       852 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l  931 (1212)
                      .+++|+.|.|+.|. +.  |.+....+..+|+|+.|++.+|..+..-..+...+..|++|+|+++ ++.+.+.....+.+
T Consensus       195 ~l~~lK~L~l~~CG-ls--~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N-~li~~~~~~~~~~l  270 (505)
T KOG3207|consen  195 LLSHLKQLVLNSCG-LS--WKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNN-NLIDFDQGYKVGTL  270 (505)
T ss_pred             hhhhhheEEeccCC-CC--HHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCC-cccccccccccccc
Confidence            47889999999985 22  2222334456789999999988654433333456788999999985 45555655667788


Q ss_pred             ccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCC
Q 000945          932 VCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLE  974 (1212)
Q Consensus       932 ~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  974 (1212)
                      +.|+.|+++.|. +.++-.-+.+.-.....+++|++|.+...+
T Consensus       271 ~~L~~Lnls~tg-i~si~~~d~~s~~kt~~f~kL~~L~i~~N~  312 (505)
T KOG3207|consen  271 PGLNQLNLSSTG-IASIAEPDVESLDKTHTFPKLEYLNISENN  312 (505)
T ss_pred             cchhhhhccccC-cchhcCCCccchhhhcccccceeeecccCc
Confidence            888888888876 444432211111122346666666666553

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

Probab=98.40  E-value=5.9e-08  Score=109.88  Aligned_cols=241  Identities=18%  Similarity=0.043  Sum_probs=134.8

Q ss_pred             cccceeeeeccccccccccc--cCcccccccceEeEeecCCccccc------hHHHhhcCccceeEEEccceeEeccccc
Q 000945          774 TSKLEELKLSGKDIAMICQS--QFPKHIFRNLKNLEVVNDESENFR------IGFLERFHNLEKLELRWSSYKEIFSNEE  845 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~--~~~~~~~~~L~~L~l~~~~~~~~p------~~~l~~l~~L~~L~l~c~~l~~~~~~~~  845 (1212)
                      +.+|+.|+++++.+......  .......++|++|+++++.+...+      ...+..+++|+.|+++.+.+....+   
T Consensus        22 l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~---   98 (319)
T cd00116          22 LLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGC---   98 (319)
T ss_pred             HhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHH---
Confidence            45688888888776432110  012234567888888886555212      1235667889999998444432111   


Q ss_pred             hhhccccc---cccceEeeCCCccchhhhccCCCCcccc-CcccEEEEecCCCcc----cccCCccccCCccEEeecccc
Q 000945          846 IVEHAEML---TQVKSLKLWELSDLMYIWKQDSKLDSIT-ENLESLEVWWCENLI----NLVPSSASFKNLTTLELWYCQ  917 (1212)
Q Consensus       846 ~~~~~~~l---~~L~~L~l~~c~~l~~l~~~~~~~~~~l-~~L~~L~l~~c~~l~----~lp~~~~~l~~L~~L~l~~c~  917 (1212)
                        ..+..+   ++|++|++++|.--..-.......+..+ ++|+.|++++|....    .++..+..+++|+.|++++|.
T Consensus        99 --~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~  176 (319)
T cd00116          99 --GVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNG  176 (319)
T ss_pred             --HHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCC
Confidence              111112   3489999988752210000001233455 788999999886442    233334556789999998864


Q ss_pred             Ccccccch---hhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCccc-----ccCCCceeecC
Q 000945          918 RLMNLVTS---STAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTS-----FCSGNYTLKFP  989 (1212)
Q Consensus       918 ~l~~l~~~---~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~-----l~~~~~~~~~~  989 (1212)
                       ++.-...   ..+..+++|+.|++++|. +......  ........+++|+.|++++|+ +..     +...... ..+
T Consensus       177 -l~~~~~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~--~l~~~~~~~~~L~~L~ls~n~-l~~~~~~~l~~~~~~-~~~  250 (319)
T cd00116         177 -IGDAGIRALAEGLKANCNLEVLDLNNNG-LTDEGAS--ALAETLASLKSLEVLNLGDNN-LTDAGAAALASALLS-PNI  250 (319)
T ss_pred             -CchHHHHHHHHHHHhCCCCCEEeccCCc-cChHHHH--HHHHHhcccCCCCEEecCCCc-CchHHHHHHHHHHhc-cCC
Confidence             4421111   122344589999999886 2211100  000112336789999998874 332     1111100 136


Q ss_pred             CccEEEeccCCCc----cccCcCCcCCCccceEEeccCcc
Q 000945          990 SLEDLFVIECPKM----KIFSHRVLSTPRLREVRQNWGLY 1025 (1212)
Q Consensus       990 sL~~L~i~~C~~l----~~lp~~~~~~~~L~~l~~~~~~~ 1025 (1212)
                      .|++|++.+|.-.    ..++.....+++|+.+++++|..
T Consensus       251 ~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N~l  290 (319)
T cd00116         251 SLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGNKF  290 (319)
T ss_pred             CceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCCCC
Confidence            8999999998532    22334444568899999987764

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).

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

Probab=98.31  E-value=8.5e-08  Score=102.68  Aligned_cols=64  Identities=23%  Similarity=0.377  Sum_probs=37.8

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchH-HHhhcCccceeEEEccceeE
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIG-FLERFHNLEKLELRWSSYKE  839 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~-~l~~l~~L~~L~l~c~~l~~  839 (1212)
                      +|+|+.|++.+|....+  ...+...+..|+.|||++|.+..++.. ....++.|..|+++.+.+.+
T Consensus       221 fPsl~~L~L~~N~~~~~--~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~s  285 (505)
T KOG3207|consen  221 FPSLEVLYLEANEIILI--KATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIAS  285 (505)
T ss_pred             CCcHHHhhhhcccccce--ecchhhhhhHHhhccccCCcccccccccccccccchhhhhccccCcch
Confidence            67777777776652222  123444566777777777666666532 24567777777777444443

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.31  E-value=7.8e-07  Score=98.06  Aligned_cols=62  Identities=15%  Similarity=0.179  Sum_probs=30.5

Q ss_pred             hcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCccccc
Q 000945          823 RFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLV  899 (1212)
Q Consensus       823 ~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp  899 (1212)
                      .+.+++.|+++.+.++.+|.         .+.+|++|.+++|.++..++.    .+  .++|++|++++|..+..+|
T Consensus        50 ~~~~l~~L~Is~c~L~sLP~---------LP~sLtsL~Lsnc~nLtsLP~----~L--P~nLe~L~Ls~Cs~L~sLP  111 (426)
T PRK15386         50 EARASGRLYIKDCDIESLPV---------LPNELTEITIENCNNLTTLPG----SI--PEGLEKLTVCHCPEISGLP  111 (426)
T ss_pred             HhcCCCEEEeCCCCCcccCC---------CCCCCcEEEccCCCCcccCCc----hh--hhhhhheEccCcccccccc
Confidence            34555555555114544431         144556666665555555422    11  2355566666555555554

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.27  E-value=2.1e-06  Score=94.77  Aligned_cols=133  Identities=18%  Similarity=0.267  Sum_probs=90.0

Q ss_pred             cccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccc
Q 000945          852 MLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSL  931 (1212)
Q Consensus       852 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l  931 (1212)
                      .+.+++.|+|++| .++++|       ...++|++|.+++|..++.+|..+  .++|+.|++++|..+..+|        
T Consensus        50 ~~~~l~~L~Is~c-~L~sLP-------~LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP--------  111 (426)
T PRK15386         50 EARASGRLYIKDC-DIESLP-------VLPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLP--------  111 (426)
T ss_pred             HhcCCCEEEeCCC-CCcccC-------CCCCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccc--------
Confidence            4688999999999 688874       134579999999999999998644  4799999999998888776        


Q ss_pred             ccccEEEecC--cchhhHhhccCccccccceeccchhhhhhccCCCc--ccccCCCceeecCCccEEEeccCCCccccCc
Q 000945          932 VCLTKLRIDG--CRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENL--TSFCSGNYTLKFPSLEDLFVIECPKMKIFSH 1007 (1212)
Q Consensus       932 ~~L~~L~i~~--c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L--~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~ 1007 (1212)
                      .+|+.|++..  |..+..+|             ++|+.|.+.++...  ..+|    ..-+++|++|++.+|..+. +|.
T Consensus       112 ~sLe~L~L~~n~~~~L~~LP-------------ssLk~L~I~~~n~~~~~~lp----~~LPsSLk~L~Is~c~~i~-LP~  173 (426)
T PRK15386        112 ESVRSLEIKGSATDSIKNVP-------------NGLTSLSINSYNPENQARID----NLISPSLKTLSLTGCSNII-LPE  173 (426)
T ss_pred             cccceEEeCCCCCcccccCc-------------chHhheeccccccccccccc----cccCCcccEEEecCCCccc-Ccc
Confidence            2377777754  33344444             66777777543211  1111    1124688888888887653 443


Q ss_pred             CCcCCCccceEEecc
Q 000945         1008 RVLSTPRLREVRQNW 1022 (1212)
Q Consensus      1008 ~~~~~~~L~~l~~~~ 1022 (1212)
                      .+-  .+|+.|+++.
T Consensus       174 ~LP--~SLk~L~ls~  186 (426)
T PRK15386        174 KLP--ESLQSITLHI  186 (426)
T ss_pred             ccc--ccCcEEEecc
Confidence            221  4677777653

>TIGR00767 rho transcription termination factor Rho

Probab=98.25  E-value=3.7e-06  Score=92.32  Aligned_cols=91  Identities=13%  Similarity=0.067  Sum_probs=65.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCC--CCHHHHHHHHHHHhcCcccCCCh-------hHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQT--PDVKRIQGDIADQLGLYICEGSE-------SERAM  239 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~--~~~~~l~~~il~~l~~~~~~~~~-------~~~~~  239 (1212)
                      .-..++|+|.+|.|||||++.+++....+ +|+..+||+++++  +++.++++.|+..+-...-....       ....+
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e  245 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIE  245 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHH
Confidence            44578999999999999999999988744 8999999999977  89999999996443211111111       11223


Q ss_pred             HHHHHHHcCCcEE-EecCcccc
Q 000945          240 VLCGLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       240 ~l~~~L~~~kr~L-VLDDVw~~  260 (1212)
                      ..+.....|++++ ++|++-.-
T Consensus       246 ~Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       246 KAKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHHcCCCeEEEEEChhHH
Confidence            3333334579999 99988654

Members of this family differ in the specificity of RNA binding.

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

Probab=98.22  E-value=8.4e-07  Score=89.95  Aligned_cols=54  Identities=17%  Similarity=0.195  Sum_probs=24.6

Q ss_pred             cceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCC
Q 000945          802 NLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWE  863 (1212)
Q Consensus       802 ~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~  863 (1212)
                      .|+.||+++|.+..+..+ ..-.|.++.|+++.|.+..+-.       ++.+++|+.|++++
T Consensus       285 ~LtelDLS~N~I~~iDES-vKL~Pkir~L~lS~N~i~~v~n-------La~L~~L~~LDLS~  338 (490)
T KOG1259|consen  285 ELTELDLSGNLITQIDES-VKLAPKLRRLILSQNRIRTVQN-------LAELPQLQLLDLSG  338 (490)
T ss_pred             hhhhccccccchhhhhhh-hhhccceeEEeccccceeeehh-------hhhcccceEeeccc
Confidence            344444444444444433 3444555555555444444321       22345555555554

>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]

Probab=98.13  E-value=8.8e-06  Score=77.23  Aligned_cols=68  Identities=13%  Similarity=0.135  Sum_probs=63.4

Q ss_pred             eEEEEEEEecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEEecC
Q 000945         1117 QKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSIG 1184 (1212)
Q Consensus      1117 ~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~~~~ 1184 (1212)
                      -++++-|.|+|+.|...+++.|..++||++|++|.+++.|.|.+.+-|.++...|+..++.|-+.-.+
T Consensus         7 ~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~G   74 (247)
T KOG4656|consen    7 YEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGAG   74 (247)
T ss_pred             eeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecCC
Confidence            46789999999999999999999999999999999999999999999999999999999988876543

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.13  E-value=2.4e-05  Score=91.15  Aligned_cols=114  Identities=22%  Similarity=0.164  Sum_probs=82.1

Q ss_pred             cccccchHHHHHHHHHHhC----CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHH
Q 000945          148 YEAFESRKSILNDALDALS----NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIAD  223 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L~----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~  223 (1212)
                      +..+.||+++++.|...+.    ......+-|+|..|+||||+++.++++.......-..++|.+....+...+..+|++
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~  108 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIAR  108 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHH
Confidence            3457899999999988874    234456789999999999999999998763332234555655666678889999999


Q ss_pred             HhcCc-c--cCCChhHHHHHHHHHHHcC-CcEE-EecCccccc
Q 000945          224 QLGLY-I--CEGSESERAMVLCGLLKKG-KKIL-VLDNIWTSL  261 (1212)
Q Consensus       224 ~l~~~-~--~~~~~~~~~~~l~~~L~~~-kr~L-VLDDVw~~~  261 (1212)
                      ++... .  ...+..+....+.+.+... +.++ |+|+++...
T Consensus       109 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~  151 (394)
T PRK00411        109 QLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLF  151 (394)
T ss_pred             HhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhh
Confidence            98652 1  1224456677777777642 4566 999998753

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.07  E-value=3e-05  Score=89.26  Aligned_cols=112  Identities=22%  Similarity=0.230  Sum_probs=78.6

Q ss_pred             ccccchHHHHHHHHHHhC----CCCceEEEEEecCCCchhHHHHHHHHHhhhc-CCC---CEEEEEEecCCCCHHHHHHH
Q 000945          149 EAFESRKSILNDALDALS----NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL-KLC---DEVVFVEVSQTPDVKRIQGD  220 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~-~~F---~~~~wv~vs~~~~~~~l~~~  220 (1212)
                      ..+.||+++++.|...+.    ......+-|+|+.|+||||+|+.++++.... ...   -..+|+.+....+...+...
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            357899999999999886    2334578999999999999999999975411 111   13456666666677889999


Q ss_pred             HHHHhc---Cccc--CCChhHHHHHHHHHHH-cCCcEE-EecCcccc
Q 000945          221 IADQLG---LYIC--EGSESERAMVLCGLLK-KGKKIL-VLDNIWTS  260 (1212)
Q Consensus       221 il~~l~---~~~~--~~~~~~~~~~l~~~L~-~~kr~L-VLDDVw~~  260 (1212)
                      |++++.   ....  ..+..+....+.+.+. .++.++ |||+++..
T Consensus        95 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L  141 (365)
T TIGR02928        95 LANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYL  141 (365)
T ss_pred             HHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhh
Confidence            999883   2221  1233445566666664 235677 99999876

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.

>PTZ00202 tuzin; Provisional

Probab=98.04  E-value=0.00024  Score=78.01  Aligned_cols=104  Identities=14%  Similarity=0.163  Sum_probs=72.5

Q ss_pred             ccCCCcccccchHHHHHHHHHHhCC---CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHH
Q 000945          143 MCSEGYEAFESRKSILNDALDALSN---PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQG  219 (1212)
Q Consensus       143 ~~~~~~~~i~gr~~~~~~l~~~L~~---~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~  219 (1212)
                      ..+.+..++.||+.+...+...|.+   +...++.|.|++|+|||||++.+.....      ..+++..+.  +...+.+
T Consensus       256 ~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~------~~qL~vNpr--g~eElLr  327 (550)
T PTZ00202        256 SAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG------MPAVFVDVR--GTEDTLR  327 (550)
T ss_pred             CCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC------ceEEEECCC--CHHHHHH
Confidence            3455677899999999999888852   2345889999999999999999996543      223333333  7899999


Q ss_pred             HHHHHhcCcccCCChhHHHHHHHHHHH----c-CCcEE-Eec
Q 000945          220 DIADQLGLYICEGSESERAMVLCGLLK----K-GKKIL-VLD  255 (1212)
Q Consensus       220 ~il~~l~~~~~~~~~~~~~~~l~~~L~----~-~kr~L-VLD  255 (1212)
                      .|+.+++.... ....++...|.+.+.    . |++.+ |+-
T Consensus       328 ~LL~ALGV~p~-~~k~dLLrqIqeaLl~~~~e~GrtPVLII~  368 (550)
T PTZ00202        328 SVVKALGVPNV-EACGDLLDFISEACRRAKKMNGETPLLVLK  368 (550)
T ss_pred             HHHHHcCCCCc-ccHHHHHHHHHHHHHHHHHhCCCCEEEEEE
Confidence            99999997422 233445555555543    2 56666 654

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

Probab=98.03  E-value=5e-06  Score=81.85  Aligned_cols=83  Identities=18%  Similarity=0.171  Sum_probs=29.4

Q ss_pred             ccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCc-cccCCccEEeeccccCcccccchhhhccc
Q 000945          853 LTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSS-ASFKNLTTLELWYCQRLMNLVTSSTAKSL  931 (1212)
Q Consensus       853 l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~-~~l~~L~~L~l~~c~~l~~l~~~~~~~~l  931 (1212)
                      +.+|+.|++++|. ++.+     .++..++.|+.|++++| .+++++..+ ..+++|+.|++++ +++.++-.-..+..+
T Consensus        41 l~~L~~L~Ls~N~-I~~l-----~~l~~L~~L~~L~L~~N-~I~~i~~~l~~~lp~L~~L~L~~-N~I~~l~~l~~L~~l  112 (175)
T PF14580_consen   41 LDKLEVLDLSNNQ-ITKL-----EGLPGLPRLKTLDLSNN-RISSISEGLDKNLPNLQELYLSN-NKISDLNELEPLSSL  112 (175)
T ss_dssp             -TT--EEE-TTS---S-------TT----TT--EEE--SS----S-CHHHHHH-TT--EEE-TT-S---SCCCCGGGGG-
T ss_pred             hcCCCEEECCCCC-Cccc-----cCccChhhhhhcccCCC-CCCccccchHHhCCcCCEEECcC-CcCCChHHhHHHHcC
Confidence            4455555555542 3333     23445666666666653 344443322 2467777777776 456555444455667


Q ss_pred             ccccEEEecCcc
Q 000945          932 VCLTKLRIDGCR  943 (1212)
Q Consensus       932 ~~L~~L~i~~c~  943 (1212)
                      ++|+.|++.++|
T Consensus       113 ~~L~~L~L~~NP  124 (175)
T PF14580_consen  113 PKLRVLSLEGNP  124 (175)
T ss_dssp             TT--EEE-TT-G
T ss_pred             CCcceeeccCCc
Confidence            778888887776

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.02  E-value=2.3e-07  Score=94.13  Aligned_cols=137  Identities=24%  Similarity=0.194  Sum_probs=61.7

Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-cc-ccCCccEEeeccccCcccc-cchhhhcc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SA-SFKNLTTLELWYCQRLMNL-VTSSTAKS  930 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~-~l~~L~~L~l~~c~~l~~l-~~~~~~~~  930 (1212)
                      .+|+.|+|+.|.+++.....  --+.++++|.+|++++|...+..... .. --+.|+.|+|++|..--.. -...+...
T Consensus       234 ~~L~~lnlsm~sG~t~n~~~--ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~r  311 (419)
T KOG2120|consen  234 SNLVRLNLSMCSGFTENALQ--LLLSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRR  311 (419)
T ss_pred             ccceeeccccccccchhHHH--HHHHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHh
Confidence            44555555555544432110  12344556666666666544332110 01 1245666666665321110 01123345


Q ss_pred             cccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCccccc-CCCceeecCCccEEEeccCC
Q 000945          931 LVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFC-SGNYTLKFPSLEDLFVIECP 1000 (1212)
Q Consensus       931 l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~-~~~~~~~~~sL~~L~i~~C~ 1000 (1212)
                      +++|..|++++|..+..-..      .....|+.|++|.++.|-.+---- ....  .-|+|.+|++.+|-
T Consensus       312 cp~l~~LDLSD~v~l~~~~~------~~~~kf~~L~~lSlsRCY~i~p~~~~~l~--s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  312 CPNLVHLDLSDSVMLKNDCF------QEFFKFNYLQHLSLSRCYDIIPETLLELN--SKPSLVYLDVFGCV  374 (419)
T ss_pred             CCceeeeccccccccCchHH------HHHHhcchheeeehhhhcCCChHHeeeec--cCcceEEEEecccc
Confidence            56666666666654432111      112335666666666664221000 0001  12677777777763

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

Probab=97.99  E-value=2e-05  Score=75.49  Aligned_cols=91  Identities=24%  Similarity=0.322  Sum_probs=67.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhc---CCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC-CChhHHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKL---KLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE-GSESERAMVLCGLL  245 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~---~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~-~~~~~~~~~l~~~L  245 (1212)
                      -+++.|+|..|+||||+++.+.++....   ..-...+|+.+....+...+.+.|+..++..... .+..+..+.+.+.+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            4678999999999999999999875411   1134567888887779999999999999887655 56677788899999


Q ss_pred             HcCCcEE-EecCcccc
Q 000945          246 KKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       246 ~~~kr~L-VLDDVw~~  260 (1212)
                      .+.+..+ |+||+..-
T Consensus        84 ~~~~~~~lviDe~~~l   99 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHL   99 (131)
T ss_dssp             HHCTEEEEEEETTHHH
T ss_pred             HhcCCeEEEEeChHhc
Confidence            8755656 99998764

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

Probab=97.98  E-value=5.7e-05  Score=82.82  Aligned_cols=92  Identities=21%  Similarity=0.215  Sum_probs=62.1

Q ss_pred             CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHH---
Q 000945          167 NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCG---  243 (1212)
Q Consensus       167 ~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~---  243 (1212)
                      ...-.++.|+|..|+||||+|+.+++...... + ..+|+ +....+...+++.|+..++..............+.+   
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            34456899999999999999999999865221 1 22343 334567888999999888776443333333334433   


Q ss_pred             -HHHcCCcEE-EecCccccc
Q 000945          244 -LLKKGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       244 -~L~~~kr~L-VLDDVw~~~  261 (1212)
                       ....+++++ |+||+|...
T Consensus       117 ~~~~~~~~~vliiDe~~~l~  136 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLT  136 (269)
T ss_pred             HHHhCCCCeEEEEECcccCC
Confidence             333457777 999998764

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=97.95  E-value=5.2e-06  Score=81.73  Aligned_cols=60  Identities=27%  Similarity=0.312  Sum_probs=16.1

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEcccee
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYK  838 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~  838 (1212)
                      .+|+.|++++|.+..+.    ....+++|+.|++++|.+..++.++...+++|+.|+++.|.+.
T Consensus        42 ~~L~~L~Ls~N~I~~l~----~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L~~N~I~  101 (175)
T PF14580_consen   42 DKLEVLDLSNNQITKLE----GLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLSNNKIS  101 (175)
T ss_dssp             TT--EEE-TTS--S--T----T----TT--EEE--SS---S-CHHHHHH-TT--EEE-TTS---
T ss_pred             cCCCEEECCCCCCcccc----CccChhhhhhcccCCCCCCccccchHHhCCcCCEEECcCCcCC
Confidence            44555555555555442    2223455555555555555554332334555555555544443

>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=97.92  E-value=5.1e-06  Score=66.71  Aligned_cols=59  Identities=32%  Similarity=0.575  Sum_probs=51.8

Q ss_pred             cceeeeccCCccccccH-HHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcc
Q 000945          266 KLEILSLVDSNIEQLPE-EMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSV  325 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~-~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  325 (1212)
                      .|++|++++|.+..+|. .|..+.+|++|++++| .+..+|+++|..+.+|++|++++|.+
T Consensus         2 ~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    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNN-NLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSS-SESEEETTTTTTSTTESEEEETSSSB
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCC-ccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            47889999999999974 7889999999999988 89999988899999999999998864

...

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

Probab=97.88  E-value=1.4e-06  Score=96.43  Aligned_cols=169  Identities=17%  Similarity=0.098  Sum_probs=88.2

Q ss_pred             eEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCc
Q 000945          804 KNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITEN  883 (1212)
Q Consensus       804 ~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~  883 (1212)
                      ...|++.|....+|.. +..+..|+.|.+..|.+..+++.      +.++..|..|+|+.+ .+..+    |..+..| -
T Consensus        78 ~~aDlsrNR~~elp~~-~~~f~~Le~liLy~n~~r~ip~~------i~~L~~lt~l~ls~N-qlS~l----p~~lC~l-p  144 (722)
T KOG0532|consen   78 VFADLSRNRFSELPEE-ACAFVSLESLILYHNCIRTIPEA------ICNLEALTFLDLSSN-QLSHL----PDGLCDL-P  144 (722)
T ss_pred             hhhhccccccccCchH-HHHHHHHHHHHHHhccceecchh------hhhhhHHHHhhhccc-hhhcC----ChhhhcC-c
Confidence            3456666666666655 45566666666664444444422      223455555555442 12333    2222222 2


Q ss_pred             ccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccccceecc
Q 000945          884 LESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFS  963 (1212)
Q Consensus       884 L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~  963 (1212)
                      |+.|-+++ ++++++|..++.++.|..|+.+.| ++.++|  +-++.+.+|+.|.++.+.                    
T Consensus       145 Lkvli~sN-Nkl~~lp~~ig~~~tl~~ld~s~n-ei~slp--sql~~l~slr~l~vrRn~--------------------  200 (722)
T KOG0532|consen  145 LKVLIVSN-NKLTSLPEEIGLLPTLAHLDVSKN-EIQSLP--SQLGYLTSLRDLNVRRNH--------------------  200 (722)
T ss_pred             ceeEEEec-CccccCCcccccchhHHHhhhhhh-hhhhch--HHhhhHHHHHHHHHhhhh--------------------
Confidence            55555554 455556655555555666665553 455544  333444445544444433                    


Q ss_pred             chhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCCcCCCccceEEeccCcc
Q 000945          964 KLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLY 1025 (1212)
Q Consensus       964 ~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~~~~~~L~~l~~~~~~~ 1025 (1212)
                                  +..+|...+.+   .|..||++ |.++..+|-.+..+..|++|-+.+|..
T Consensus       201 ------------l~~lp~El~~L---pLi~lDfS-cNkis~iPv~fr~m~~Lq~l~LenNPL  246 (722)
T KOG0532|consen  201 ------------LEDLPEELCSL---PLIRLDFS-CNKISYLPVDFRKMRHLQVLQLENNPL  246 (722)
T ss_pred             ------------hhhCCHHHhCC---ceeeeecc-cCceeecchhhhhhhhheeeeeccCCC
Confidence                        44444443332   36666663 667777777777777777777766543

>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=97.81  E-value=1.6e-05  Score=63.84  Aligned_cols=58  Identities=22%  Similarity=0.293  Sum_probs=29.2

Q ss_pred             cceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCC
Q 000945          802 NLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWEL  864 (1212)
Q Consensus       802 ~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c  864 (1212)
                      +|++|++++|.+..+|...|..+++|+.|++++|.++.+++     ..+..+++|++|++++|
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~-----~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPP-----DAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEET-----TTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCH-----HHHcCCCCCCEEeCcCC
Confidence            34444455555555555455555555555555555554443     12333555555555554

...

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

Probab=97.79  E-value=9.8e-05  Score=82.86  Aligned_cols=70  Identities=21%  Similarity=0.197  Sum_probs=58.4

Q ss_pred             ccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHH
Q 000945          149 EAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGD  220 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~  220 (1212)
                      ..+++.+...+.++..|..  -+.|-++|++|+||||+|+.+.+.......|+.+.||++++.++..++...
T Consensus       175 ~d~~i~e~~le~l~~~L~~--~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G  244 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQG  244 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcc
Confidence            3466778889999998874  356778999999999999999998766678999999999999987776654

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

Probab=97.75  E-value=1.8e-06  Score=95.76  Aligned_cols=129  Identities=19%  Similarity=0.176  Sum_probs=61.2

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +..|++|+|+.|+++.++..   . .+--|+.|-+++|.++.+|.. ++.++.|..|+.+||.+..+++      .++.+
T Consensus       120 L~~lt~l~ls~NqlS~lp~~---l-C~lpLkvli~sNNkl~~lp~~-ig~~~tl~~ld~s~nei~slps------ql~~l  188 (722)
T KOG0532|consen  120 LEALTFLDLSSNQLSHLPDG---L-CDLPLKVLIVSNNKLTSLPEE-IGLLPTLAHLDVSKNEIQSLPS------QLGYL  188 (722)
T ss_pred             hhHHHHhhhccchhhcCChh---h-hcCcceeEEEecCccccCCcc-cccchhHHHhhhhhhhhhhchH------HhhhH
Confidence            34455555555555544321   1 112355555555555555554 3455555555555555544432      12224


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMN  921 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~  921 (1212)
                      .+|+.|.+..+. +..+    |..+. --.|..||++ |+++..||.++..+..|++|.|.++ -|++
T Consensus       189 ~slr~l~vrRn~-l~~l----p~El~-~LpLi~lDfS-cNkis~iPv~fr~m~~Lq~l~LenN-PLqS  248 (722)
T KOG0532|consen  189 TSLRDLNVRRNH-LEDL----PEELC-SLPLIRLDFS-CNKISYLPVDFRKMRHLQVLQLENN-PLQS  248 (722)
T ss_pred             HHHHHHHHhhhh-hhhC----CHHHh-CCceeeeecc-cCceeecchhhhhhhhheeeeeccC-CCCC
Confidence            555555554422 2333    22222 1235555555 4555556665556666666666553 3444

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

Probab=97.72  E-value=1.6e-05  Score=80.93  Aligned_cols=128  Identities=18%  Similarity=0.164  Sum_probs=90.5

Q ss_pred             cCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCcc
Q 000945          824 FHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSA  903 (1212)
Q Consensus       824 l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~  903 (1212)
                      ...|+.||++.|.++.+-      +.+...|.++.|+++++. +..+     ..+..+++|+.|+++++ .++++.-+-.
T Consensus       283 Wq~LtelDLS~N~I~~iD------ESvKL~Pkir~L~lS~N~-i~~v-----~nLa~L~~L~~LDLS~N-~Ls~~~Gwh~  349 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQID------ESVKLAPKLRRLILSQNR-IRTV-----QNLAELPQLQLLDLSGN-LLAECVGWHL  349 (490)
T ss_pred             Hhhhhhccccccchhhhh------hhhhhccceeEEeccccc-eeee-----hhhhhcccceEeecccc-hhHhhhhhHh
Confidence            457899999988887653      344558999999999854 3332     44778899999999984 4555544445


Q ss_pred             ccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCC
Q 000945          904 SFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLE  974 (1212)
Q Consensus       904 ~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  974 (1212)
                      .+-+.++|.+++ +.++++   +.++.+-+|..|+++++. ++.+-.-     ..++.+|.|+++.+.+.|
T Consensus       350 KLGNIKtL~La~-N~iE~L---SGL~KLYSLvnLDl~~N~-Ie~ldeV-----~~IG~LPCLE~l~L~~NP  410 (490)
T KOG1259|consen  350 KLGNIKTLKLAQ-NKIETL---SGLRKLYSLVNLDLSSNQ-IEELDEV-----NHIGNLPCLETLRLTGNP  410 (490)
T ss_pred             hhcCEeeeehhh-hhHhhh---hhhHhhhhheeccccccc-hhhHHHh-----cccccccHHHHHhhcCCC
Confidence            678889999998 577777   667888889999998875 4443210     235556777777776665

>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=97.69  E-value=0.00022  Score=70.02  Aligned_cols=58  Identities=22%  Similarity=0.286  Sum_probs=44.3

Q ss_pred             chHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCC
Q 000945          153 SRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTP  212 (1212)
Q Consensus       153 gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~  212 (1212)
                      |++..++.+...+.......+-|+|..|+||||+|+.+++...  ..-...+++..++..
T Consensus         2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~   59 (151)
T cd00009           2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLL   59 (151)
T ss_pred             chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhh
Confidence            6788888888888765677899999999999999999999875  222345566555443

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.

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=97.68  E-value=3.9e-06  Score=85.42  Aligned_cols=62  Identities=24%  Similarity=0.234  Sum_probs=33.3

Q ss_pred             cccceeecccc--ccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEecccc
Q 000945          618 PNLETLELCAI--STEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCS  681 (1212)
Q Consensus       618 ~~L~~L~l~~~--~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~  681 (1212)
                      ++|..|+|+||  ++.......+. ..+|+|.+|+|++|..++. .-...+.+++.|++|.++.|-
T Consensus       286 e~l~~LNlsG~rrnl~~sh~~tL~-~rcp~l~~LDLSD~v~l~~-~~~~~~~kf~~L~~lSlsRCY  349 (419)
T KOG2120|consen  286 ETLTQLNLSGYRRNLQKSHLSTLV-RRCPNLVHLDLSDSVMLKN-DCFQEFFKFNYLQHLSLSRCY  349 (419)
T ss_pred             hhhhhhhhhhhHhhhhhhHHHHHH-HhCCceeeeccccccccCc-hHHHHHHhcchheeeehhhhc
Confidence            55666666666  33322221111 2467777777777766654 122224556666666666665

>PF05729 NACHT: NACHT domain

Probab=97.55  E-value=0.00021  Score=71.70  Aligned_cols=87  Identities=25%  Similarity=0.284  Sum_probs=54.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCC----CCEEEEEEecCCCCHH---HHHHHHHHHhcCcccCCChhHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKL----CDEVVFVEVSQTPDVK---RIQGDIADQLGLYICEGSESERAMVLCG  243 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~----F~~~~wv~vs~~~~~~---~l~~~il~~l~~~~~~~~~~~~~~~l~~  243 (1212)
                      +++-|.|.+|+||||+++.+..+......    |...+|+.....-+..   .+...|.........     .....+..
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~-----~~~~~~~~   75 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIA-----PIEELLQE   75 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchh-----hhHHHHHH
Confidence            47899999999999999999988764443    4566676665433322   344444444322111     11113344


Q ss_pred             HHHcCCcEE-EecCcccccc
Q 000945          244 LLKKGKKIL-VLDNIWTSLD  262 (1212)
Q Consensus       244 ~L~~~kr~L-VLDDVw~~~~  262 (1212)
                      .+...++++ |+|++++...
T Consensus        76 ~~~~~~~~llilDglDE~~~   95 (166)
T PF05729_consen   76 LLEKNKRVLLILDGLDELEE   95 (166)
T ss_pred             HHHcCCceEEEEechHhccc
Confidence            444568999 9999987643

>PRK08118 topology modulation protein; Reviewed

Probab=97.48  E-value=6.4e-05  Score=74.64  Aligned_cols=35  Identities=31%  Similarity=0.348  Sum_probs=29.4

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhc-CCCCEEEE
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKL-KLCDEVVF  205 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~-~~F~~~~w  205 (1212)
                      ..|.|+|++|.||||||+.+++...+. -+||...|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            368999999999999999999987654 56777775

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

Probab=97.47  E-value=5e-05  Score=88.51  Aligned_cols=62  Identities=24%  Similarity=0.412  Sum_probs=29.1

Q ss_pred             cceeeeeccccccccccccCccccc-ccceEeEeecCCccccchHHHhhcCccceeEEEccceeEec
Q 000945          776 KLEELKLSGKDIAMICQSQFPKHIF-RNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIF  841 (1212)
Q Consensus       776 ~L~~L~l~~~~~~~l~~~~~~~~~~-~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~  841 (1212)
                      .++.|++.++.+..+.+   ....+ .+|+.|++++|.+..+|.. +..+++|+.|+++.|.+.+++
T Consensus       117 ~l~~L~l~~n~i~~i~~---~~~~~~~nL~~L~l~~N~i~~l~~~-~~~l~~L~~L~l~~N~l~~l~  179 (394)
T COG4886         117 NLTSLDLDNNNITDIPP---LIGLLKSNLKELDLSDNKIESLPSP-LRNLPNLKNLDLSFNDLSDLP  179 (394)
T ss_pred             ceeEEecCCcccccCcc---ccccchhhcccccccccchhhhhhh-hhccccccccccCCchhhhhh
Confidence            45555555555555432   11122 1455555555555555422 445555555555544444443

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

Probab=97.40  E-value=0.00016  Score=77.46  Aligned_cols=45  Identities=31%  Similarity=0.316  Sum_probs=37.6

Q ss_pred             ccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          151 FESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++||+++.+.|.+++..+....+.|+|..|+|||||++.+.+...
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~   45 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELK   45 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhh
Confidence            479999999999998876678999999999999999999999774

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

>PLN02957 copper, zinc superoxide dismutase

Probab=97.32  E-value=0.001  Score=69.99  Aligned_cols=72  Identities=13%  Similarity=0.179  Sum_probs=64.7

Q ss_pred             ceEEEEEEEecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEEecCCCC
Q 000945         1116 KQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSIGPAN 1187 (1212)
Q Consensus      1116 ~~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~~~~~~~ 1187 (1212)
                      -+++.+.|.|.|+.|+.++.+.+.+++||.++.+|...++++|.+.+++..++.++++.++.++++...+++
T Consensus         5 ~~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~~~   76 (238)
T PLN02957          5 ELLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQGDPE   76 (238)
T ss_pred             cEEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCCCcc
Confidence            367789999999999999999999999999999999999999999889999999999999888888665543

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

Probab=97.29  E-value=1.5e-05  Score=96.38  Aligned_cols=14  Identities=29%  Similarity=0.643  Sum_probs=7.4

Q ss_pred             CCCccEEEEecCCC
Q 000945          727 WPMLKKLEVYGCDK  740 (1212)
Q Consensus       727 ~~~L~~L~i~~C~~  740 (1212)
                      +++|+.|.+.+|+.
T Consensus       268 c~~L~~L~l~~c~~  281 (482)
T KOG1947|consen  268 CPNLETLSLSNCSN  281 (482)
T ss_pred             CCCcceEccCCCCc
Confidence            45555555555544

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

Probab=97.28  E-value=0.00022  Score=83.07  Aligned_cols=154  Identities=26%  Similarity=0.303  Sum_probs=120.0

Q ss_pred             cceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccc
Q 000945          776 KLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQ  855 (1212)
Q Consensus       776 ~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~  855 (1212)
                      +|+.|++++|.+..+.   .+...+++|+.|++++|.+..+|.. ...+++|+.|+++.|.+..+++..+      .+..
T Consensus       141 nL~~L~l~~N~i~~l~---~~~~~l~~L~~L~l~~N~l~~l~~~-~~~~~~L~~L~ls~N~i~~l~~~~~------~~~~  210 (394)
T COG4886         141 NLKELDLSDNKIESLP---SPLRNLPNLKNLDLSFNDLSDLPKL-LSNLSNLNNLDLSGNKISDLPPEIE------LLSA  210 (394)
T ss_pred             hcccccccccchhhhh---hhhhccccccccccCCchhhhhhhh-hhhhhhhhheeccCCccccCchhhh------hhhh
Confidence            8999999999998874   3456789999999999999999875 4478999999999999998876421      2667


Q ss_pred             cceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccccc
Q 000945          856 VKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLT  935 (1212)
Q Consensus       856 L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~  935 (1212)
                      |++|.+.+.+.+..     +..+..+.++..|.+.+ ..+..++.....+++|+.|+++++ .+.+++.   ...+.+|+
T Consensus       211 L~~l~~~~N~~~~~-----~~~~~~~~~l~~l~l~~-n~~~~~~~~~~~l~~l~~L~~s~n-~i~~i~~---~~~~~~l~  280 (394)
T COG4886         211 LEELDLSNNSIIEL-----LSSLSNLKNLSGLELSN-NKLEDLPESIGNLSNLETLDLSNN-QISSISS---LGSLTNLR  280 (394)
T ss_pred             hhhhhhcCCcceec-----chhhhhcccccccccCC-ceeeeccchhccccccceeccccc-ccccccc---ccccCccC
Confidence            99999998653332     45567788888888554 445555666788899999999984 7888753   67888999


Q ss_pred             EEEecCcchhhHhh
Q 000945          936 KLRIDGCRMLTEII  949 (1212)
Q Consensus       936 ~L~i~~c~~l~~~~  949 (1212)
                      .|++++......++
T Consensus       281 ~L~~s~n~~~~~~~  294 (394)
T COG4886         281 ELDLSGNSLSNALP  294 (394)
T ss_pred             EEeccCccccccch
Confidence            99999887554444

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

Probab=97.24  E-value=0.0027  Score=71.25  Aligned_cols=111  Identities=23%  Similarity=0.299  Sum_probs=84.4

Q ss_pred             ccchHHHHHHHHHHhC----CCCceEEEEEecCCCchhHHHHHHHHHhhhc-CCCCEEEEEEecCCCCHHHHHHHHHHHh
Q 000945          151 FESRKSILNDALDALS----NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL-KLCDEVVFVEVSQTPDVKRIQGDIADQL  225 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~-~~F~~~~wv~vs~~~~~~~l~~~il~~l  225 (1212)
                      +.+|+++++++...|.    ...-.-+-|+|..|.|||+.++.|....+.. ...+ .+.|.+-.......+..+|+.++
T Consensus        19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~~~~   97 (366)
T COG1474          19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKILNKL   97 (366)
T ss_pred             ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHHHHc
Confidence            7899999999988775    2223338899999999999999999986532 1222 67777778888999999999999


Q ss_pred             cCcc-cCCChhHHHHHHHHHHHc-CCcEE-EecCcccccc
Q 000945          226 GLYI-CEGSESERAMVLCGLLKK-GKKIL-VLDNIWTSLD  262 (1212)
Q Consensus       226 ~~~~-~~~~~~~~~~~l~~~L~~-~kr~L-VLDDVw~~~~  262 (1212)
                      +... .+....+....+.+.+.. ++.++ |||++.....
T Consensus        98 ~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~  137 (366)
T COG1474          98 GKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVD  137 (366)
T ss_pred             CCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhcc
Confidence            6433 345666777888888875 46667 9999987643

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.21  E-value=0.018  Score=69.98  Aligned_cols=63  Identities=32%  Similarity=0.463  Sum_probs=48.1

Q ss_pred             CcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCC---EEEEEEec
Q 000945          147 GYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCD---EVVFVEVS  209 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~---~~~wv~vs  209 (1212)
                      ....++|++..+..+.+.+.......+.|+|..|+||||+|+.+++.......+.   ..-|+.+.
T Consensus       152 ~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~  217 (615)
T TIGR02903       152 AFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVD  217 (615)
T ss_pred             cHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEe
Confidence            3445789998888888887766667899999999999999999999875444442   23566553

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.

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

Probab=97.21  E-value=0.00081  Score=68.91  Aligned_cols=47  Identities=23%  Similarity=0.304  Sum_probs=34.4

Q ss_pred             ccchHHHHHHHHHHhC---CCCceEEEEEecCCCchhHHHHHHHHHhhhc
Q 000945          151 FESRKSILNDALDALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL  197 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~  197 (1212)
                      ++||+++.+.+...+.   ....+.+-|+|..|+|||||++.++......
T Consensus         2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            6899999999999992   4567899999999999999999999988755

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.21  E-value=0.00093  Score=77.53  Aligned_cols=49  Identities=22%  Similarity=0.295  Sum_probs=38.3

Q ss_pred             CcccccchHHHHHH---HHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILND---ALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~---l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....++|++..+..   +.+++.......+-++|.+|+||||+|+.+.+...
T Consensus        10 ~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~   61 (413)
T PRK13342         10 TLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATD   61 (413)
T ss_pred             CHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            34457787766544   66677666777888999999999999999998654

>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=97.15  E-value=0.00027  Score=51.59  Aligned_cols=40  Identities=35%  Similarity=0.579  Sum_probs=25.5

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccch
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPP  306 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~  306 (1212)
                      .|++|++++|.|..+|..+++|.+|++|++++| .+..++.
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i~~   41 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNN-PISDISP   41 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSS-CCSBEGG
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCC-CCCCCcC
Confidence            366777777777777666777777777777777 5655543

...

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

Probab=97.07  E-value=4.4e-05  Score=92.16  Aligned_cols=119  Identities=22%  Similarity=0.262  Sum_probs=73.5

Q ss_pred             ccccceeecccc-ccceecccCcccccCcCccEEEEecC-CCccccC--chhhhhccCCCcEEEeccccccceeeccccc
Q 000945          617 FPNLETLELCAI-STEKIWCNQLAAVYSQNLTRLIVHGC-EKLKYLF--PSSMIRNFVQLEHLEICYCSSLESIVGKESG  692 (1212)
Q Consensus       617 ~~~L~~L~l~~~-~l~~~~~~~~~~~~l~~L~~L~L~~c-~~l~~l~--~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~  692 (1212)
                      .++|+.|.+.++ .+...+...+. ...++|+.|++++| ......+  .......+++|+.|++++|..+........ 
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l-  264 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALA-LKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSAL-  264 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHH-hhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHH-
Confidence            477888888887 55443321111 35788888888873 3322221  122345678888899988886555432111 


Q ss_pred             ccccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcc
Q 000945          693 EEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVK  742 (1212)
Q Consensus       693 ~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~  742 (1212)
                           ...+++|+.|.+.+|+.+..-........+++|++|++++|..+.
T Consensus       265 -----~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~  309 (482)
T KOG1947|consen  265 -----ASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLT  309 (482)
T ss_pred             -----HhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccch
Confidence                 112688999988888875443322223367889999999998764

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.05  E-value=0.0047  Score=73.98  Aligned_cols=112  Identities=16%  Similarity=0.073  Sum_probs=74.3

Q ss_pred             ccccchHHHHHHHHHHhC-----CCCceEEEEEecCCCchhHHHHHHHHHhhh---cCCCCE--EEEEEecCCCCHHHHH
Q 000945          149 EAFESRKSILNDALDALS-----NPNVNVIGLCGLGGIGKTTLAKIVFYQAKK---LKLCDE--VVFVEVSQTPDVKRIQ  218 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~-----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v---~~~F~~--~~wv~vs~~~~~~~l~  218 (1212)
                      ..+.||+++++.|...|.     .....++-|+|+.|.|||+.++.|.+....   +.....  .++|.+..-.+...+.
T Consensus       755 D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIY  834 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAY  834 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHH
Confidence            457899999999988776     223467889999999999999999887532   122222  3455555556777888


Q ss_pred             HHHHHHhcCcccC--CChhHHHHHHHHHHHc-CC-cEE-EecCcccc
Q 000945          219 GDIADQLGLYICE--GSESERAMVLCGLLKK-GK-KIL-VLDNIWTS  260 (1212)
Q Consensus       219 ~~il~~l~~~~~~--~~~~~~~~~l~~~L~~-~k-r~L-VLDDVw~~  260 (1212)
                      ..|..++......  ....+....+...+.. .+ ..+ |||+|...
T Consensus       835 qvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L  881 (1164)
T PTZ00112        835 QVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYL  881 (1164)
T ss_pred             HHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhh
Confidence            8888888443221  2333455556665532 12 335 99999855

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.03  E-value=0.00029  Score=72.20  Aligned_cols=217  Identities=20%  Similarity=0.164  Sum_probs=121.1

Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccc--hHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFR--IGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p--~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      ++-|.+.++.+...-.........+.++.||+.+|.+....  ..++.++|.|+.|+|+||.|.+......     ..+.
T Consensus        47 ~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp-----~p~~  121 (418)
T KOG2982|consen   47 LELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP-----LPLK  121 (418)
T ss_pred             hhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCc-----cccc
Confidence            33444444444443322222234567788888888777654  2457889999999999999875432210     0156


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcc-ccc-CCccc-cCCccEEeeccccCcccccchhhhccc
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLI-NLV-PSSAS-FKNLTTLELWYCQRLMNLVTSSTAKSL  931 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~-~lp-~~~~~-l~~L~~L~l~~c~~l~~l~~~~~~~~l  931 (1212)
                      +|+.|-+.+.. |.  |...-..+..+|.+++|.++.++--. .+. .+... -+.+++|+...|......-...+-.-.
T Consensus       122 nl~~lVLNgT~-L~--w~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~F  198 (418)
T KOG2982|consen  122 NLRVLVLNGTG-LS--WTQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIF  198 (418)
T ss_pred             ceEEEEEcCCC-CC--hhhhhhhhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhc
Confidence            88888887631 11  11112345677788888888752110 010 01111 246777777777544333222333455


Q ss_pred             ccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcC
Q 000945          932 VCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHR 1008 (1212)
Q Consensus       932 ~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~ 1008 (1212)
                      +++..+.+..|| +......     .....+|.+..|.+... ++.+...-..--.||+|..|.+.+.|....+-.+
T Consensus       199 pnv~sv~v~e~P-lK~~s~e-----k~se~~p~~~~LnL~~~-~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~  268 (418)
T KOG2982|consen  199 PNVNSVFVCEGP-LKTESSE-----KGSEPFPSLSCLNLGAN-NIDSWASVDALNGFPQLVDLRVSENPLSDPLRGG  268 (418)
T ss_pred             ccchheeeecCc-ccchhhc-----ccCCCCCcchhhhhccc-ccccHHHHHHHcCCchhheeeccCCcccccccCC
Confidence            678888888887 4443321     12233566666666553 2333322111124688999999888877766543

>PLN03150 hypothetical protein; Provisional

Probab=96.94  E-value=0.001  Score=81.29  Aligned_cols=39  Identities=18%  Similarity=0.057  Sum_probs=18.9

Q ss_pred             ccccCcccEEEEecCCCcccccCCccccCCccEEeeccc
Q 000945          878 DSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYC  916 (1212)
Q Consensus       878 ~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c  916 (1212)
                      ++.+++|+.|++++|...+.+|..++.+++|+.|++++|
T Consensus       462 ~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~N  500 (623)
T PLN03150        462 LGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGN  500 (623)
T ss_pred             HhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcCC
Confidence            344444455555544444444444445555555555544

>PRK10671 copA copper exporting ATPase; Provisional

Probab=96.89  E-value=0.002  Score=82.12  Aligned_cols=66  Identities=11%  Similarity=0.098  Sum_probs=60.2

Q ss_pred             cceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEEe
Q 000945         1115 TKQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVS 1182 (1212)
Q Consensus      1115 ~~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~~ 1182 (1212)
                      |+++++++|+ |+|++|++++.+++.+++||..+.+|.+  +.+|.+.+++..+.+.+++.|+.+++..
T Consensus         1 ~~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~~   67 (834)
T PRK10671          1 MSQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVSH   67 (834)
T ss_pred             CCeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCcccccc
Confidence            5688999998 9999999999999999999999999984  6777888999999999999999888864

>PF13173 AAA_14: AAA domain

Probab=96.88  E-value=0.0017  Score=61.47  Aligned_cols=82  Identities=26%  Similarity=0.364  Sum_probs=50.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      -+++.|.|+-|+|||||++.++.+..   .....+++...+........                .+....+.+....++
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~   62 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLAD----------------PDLLEYFLELIKPGK   62 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhh----------------hhhHHHHHHhhccCC
Confidence            46899999999999999999998654   22444555433221110000                002233334433346


Q ss_pred             cEEEecCccccccccccceee
Q 000945          250 KILVLDNIWTSLDLDKKLEIL  270 (1212)
Q Consensus       250 r~LVLDDVw~~~~~~~~Lr~L  270 (1212)
                      +++++|+|-...+|...++.+
T Consensus        63 ~~i~iDEiq~~~~~~~~lk~l   83 (128)
T PF13173_consen   63 KYIFIDEIQYLPDWEDALKFL   83 (128)
T ss_pred             cEEEEehhhhhccHHHHHHHH
Confidence            666999999888887755544

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=96.85  E-value=0.0075  Score=64.80  Aligned_cols=73  Identities=18%  Similarity=0.246  Sum_probs=61.4

Q ss_pred             ccccchHHHHHHHHHHhCCCCc---eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHh
Q 000945          149 EAFESRKSILNDALDALSNPNV---NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQL  225 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~~~~~---~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l  225 (1212)
                      ..+.+|+.++..+..++.+.+.   +.|-|+|-.|.|||.++|.+++...     ...+|+++-+.|..+.+..+|+.+.
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 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLN-----LENVWLNCVECFTYAILLEKILNKS   80 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcC-----CcceeeehHHhccHHHHHHHHHHHh
Confidence            3567899999999998885432   3347899999999999999999874     2358999999999999999999988


Q ss_pred             c
Q 000945          226 G  226 (1212)
Q Consensus       226 ~  226 (1212)
                      +
T Consensus        81 ~   81 (438)
T KOG2543|consen   81 Q   81 (438)
T ss_pred             c
Confidence            5

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

Probab=96.81  E-value=0.0043  Score=67.29  Aligned_cols=76  Identities=25%  Similarity=0.312  Sum_probs=49.4

Q ss_pred             HHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCC-CHHHHHHHHHHHhcCcccCCChhHHHHH
Q 000945          162 LDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTP-DVKRIQGDIADQLGLYICEGSESERAMV  240 (1212)
Q Consensus       162 ~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~~~~~~~~~~~~~  240 (1212)
                      -+++..+.+.-.-.||++|+||||||+.|-....  ..     |..+|-.+ +++++ ++|++..               
T Consensus        40 rr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~--~~-----f~~~sAv~~gvkdl-r~i~e~a---------------   96 (436)
T COG2256          40 RRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTN--AA-----FEALSAVTSGVKDL-REIIEEA---------------   96 (436)
T ss_pred             HHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhC--Cc-----eEEeccccccHHHH-HHHHHHH---------------
Confidence            3444466777778999999999999999998655  33     44555544 34443 3444322               


Q ss_pred             HHHHHHcCCcEE-EecCccccc
Q 000945          241 LCGLLKKGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       241 l~~~L~~~kr~L-VLDDVw~~~  261 (1212)
                       ++....|+|.+ .+|.|..-.
T Consensus        97 -~~~~~~gr~tiLflDEIHRfn  117 (436)
T COG2256          97 -RKNRLLGRRTILFLDEIHRFN  117 (436)
T ss_pred             -HHHHhcCCceEEEEehhhhcC
Confidence             22333368888 999987553

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=96.81  E-value=0.00045  Score=72.89  Aligned_cols=164  Identities=18%  Similarity=0.093  Sum_probs=92.9

Q ss_pred             cccceeeeeccccccccccc--cCcccccccceEeEeecCCccccchHHHh-------------hcCccceeEEEcccee
Q 000945          774 TSKLEELKLSGKDIAMICQS--QFPKHIFRNLKNLEVVNDESENFRIGFLE-------------RFHNLEKLELRWSSYK  838 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~--~~~~~~~~~L~~L~l~~~~~~~~p~~~l~-------------~l~~L~~L~l~c~~l~  838 (1212)
                      .|.|++|+||.|.+..-...  ..-+.++++|++|.+.++.++......++             .-+.|+.+..+.|.+.
T Consensus        91 ~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrle  170 (382)
T KOG1909|consen   91 CPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLE  170 (382)
T ss_pred             CCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccc
Confidence            45788888887766432211  11123467788888888777766554432             2466777777766665


Q ss_pred             EeccccchhhccccccccceEeeCCCccchhhhccC----CCCccccCcccEEEEecCCCcc----cccCCccccCCccE
Q 000945          839 EIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQD----SKLDSITENLESLEVWWCENLI----NLVPSSASFKNLTT  910 (1212)
Q Consensus       839 ~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~----~~~~~~l~~L~~L~l~~c~~l~----~lp~~~~~l~~L~~  910 (1212)
                      .-. ...+...++..+.|+.+.+..+.    |...+    ...+.++++|+.|++.+|..-.    .+...+..+++|+.
T Consensus       171 n~g-a~~~A~~~~~~~~leevr~~qN~----I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~E  245 (382)
T KOG1909|consen  171 NGG-ATALAEAFQSHPTLEEVRLSQNG----IRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRE  245 (382)
T ss_pred             ccc-HHHHHHHHHhccccceEEEeccc----ccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchhee
Confidence            422 11222344556778887776642    11111    2345677888888888765432    12223345677788


Q ss_pred             EeeccccCcccccch----hhhcccccccEEEecCcc
Q 000945          911 LELWYCQRLMNLVTS----STAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       911 L~l~~c~~l~~l~~~----~~~~~l~~L~~L~i~~c~  943 (1212)
                      |++++| .++.-...    .+-...++|+.|.+.+|.
T Consensus       246 l~l~dc-ll~~~Ga~a~~~al~~~~p~L~vl~l~gNe  281 (382)
T KOG1909|consen  246 LNLGDC-LLENEGAIAFVDALKESAPSLEVLELAGNE  281 (382)
T ss_pred             eccccc-ccccccHHHHHHHHhccCCCCceeccCcch
Confidence            888887 34332211    223345677777777765

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=96.80  E-value=0.00018  Score=87.25  Aligned_cols=131  Identities=17%  Similarity=0.158  Sum_probs=74.3

Q ss_pred             cccceeeeecccccc-ccccccCcccccccceEeEeecCCccccc-hHHHhhcCccceeEEEccceeEeccccchhhccc
Q 000945          774 TSKLEELKLSGKDIA-MICQSQFPKHIFRNLKNLEVVNDESENFR-IGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAE  851 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~-~l~~~~~~~~~~~~L~~L~l~~~~~~~~p-~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~  851 (1212)
                      -.+|++|+|+|...- .-|+. .....+|+|++|.+.+-.+..-. .....++|+|..||||..+++.+.       ++.
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~-kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl~-------GIS  192 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPK-KIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNLS-------GIS  192 (699)
T ss_pred             HHhhhhcCccccchhhccHHH-HHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCcH-------HHh
Confidence            357888888764322 11111 11134788888888883322211 233567888888888855555442       233


Q ss_pred             cccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCccc--c----cCCccccCCccEEeecc
Q 000945          852 MLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLIN--L----VPSSASFKNLTTLELWY  915 (1212)
Q Consensus       852 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~--l----p~~~~~l~~L~~L~l~~  915 (1212)
                      .+.+|+.|.+.+.+--..   .....+.+|++|+.||||.-.....  +    -.+...+|.|+.||.++
T Consensus       193 ~LknLq~L~mrnLe~e~~---~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSg  259 (699)
T KOG3665|consen  193 RLKNLQVLSMRNLEFESY---QDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSG  259 (699)
T ss_pred             ccccHHHHhccCCCCCch---hhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCC
Confidence            477777777776432111   1123456788888888886433221  1    12224477777777776

>PRK06893 DNA replication initiation factor; Validated

Probab=96.79  E-value=0.0018  Score=68.28  Aligned_cols=39  Identities=18%  Similarity=0.140  Sum_probs=29.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS  209 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs  209 (1212)
                      ....+.|||..|+|||+||+++.+....  ....+.|+.++
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~--~~~~~~y~~~~   76 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYLL--NQRTAIYIPLS   76 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHH--cCCCeEEeeHH
Confidence            3457899999999999999999998653  23445676653

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=96.75  E-value=0.00058  Score=78.46  Aligned_cols=85  Identities=22%  Similarity=0.292  Sum_probs=67.1

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK  345 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~  345 (1212)
                      +++.|||++|++.... .+..|.+|++|||++| .+..+|.--...+. |+.|.+++|.+.             .+..+.
T Consensus       188 ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN-~L~~vp~l~~~gc~-L~~L~lrnN~l~-------------tL~gie  251 (1096)
T KOG1859|consen  188 ALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYN-CLRHVPQLSMVGCK-LQLLNLRNNALT-------------TLRGIE  251 (1096)
T ss_pred             HhhhhccchhhhhhhH-HHHhcccccccccccc-hhccccccchhhhh-heeeeecccHHH-------------hhhhHH
Confidence            7888889988887776 7888888999999998 78888863344444 888888888775             577778


Q ss_pred             cCCCCCcceeeecccccCCCC
Q 000945          346 LLSHLTTLEIQICDAMILPKG  366 (1212)
Q Consensus       346 ~l~~L~~L~l~~~~~~~~p~~  366 (1212)
                      +|.+|++|++++|-+..+.+-
T Consensus       252 ~LksL~~LDlsyNll~~hseL  272 (1096)
T KOG1859|consen  252 NLKSLYGLDLSYNLLSEHSEL  272 (1096)
T ss_pred             hhhhhhccchhHhhhhcchhh
Confidence            888899999999987766554

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.72  E-value=0.0035  Score=66.55  Aligned_cols=55  Identities=15%  Similarity=0.224  Sum_probs=39.5

Q ss_pred             chHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec
Q 000945          153 SRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS  209 (1212)
Q Consensus       153 gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs  209 (1212)
                      +....++.+-+++....-..|-|+|..|+||||||+.+++...  ......+++.++
T Consensus        21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~--~~~~~~~~i~~~   75 (226)
T TIGR03420        21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAE--ERGKSAIYLPLA   75 (226)
T ss_pred             CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHH--hcCCcEEEEeHH
Confidence            3455666777766555567889999999999999999999765  334444555444

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.

>PLN03150 hypothetical protein; Provisional

Probab=96.68  E-value=0.0018  Score=79.19  Aligned_cols=88  Identities=19%  Similarity=0.133  Sum_probs=53.5

Q ss_pred             cceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccccc
Q 000945          856 VKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLT  935 (1212)
Q Consensus       856 L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~  935 (1212)
                      ++.|+|+++.    +....|..+..+++|+.|++++|...+.+|..++.+++|+.|++++|.--..+|  ..+..+++|+
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~  493 (623)
T PLN03150        420 IDGLGLDNQG----LRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIP--ESLGQLTSLR  493 (623)
T ss_pred             EEEEECCCCC----ccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCc--hHHhcCCCCC
Confidence            5556666543    222224556667777777777766666677666777777777777753222444  4456677777


Q ss_pred             EEEecCcchhhHhh
Q 000945          936 KLRIDGCRMLTEII  949 (1212)
Q Consensus       936 ~L~i~~c~~l~~~~  949 (1212)
                      .|++++|.....+|
T Consensus       494 ~L~Ls~N~l~g~iP  507 (623)
T PLN03150        494 ILNLNGNSLSGRVP  507 (623)
T ss_pred             EEECcCCcccccCC
Confidence            77777776444554

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=96.56  E-value=9.9e-05  Score=84.51  Aligned_cols=103  Identities=17%  Similarity=0.155  Sum_probs=60.0

Q ss_pred             ccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCc
Q 000945          799 IFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLD  878 (1212)
Q Consensus       799 ~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~  878 (1212)
                      -++.|+.|+|++|.+....  .+..++.|+.|||+.|.|..++.....      -..|+.|.|+++. ++.+     .++
T Consensus       185 ll~ale~LnLshNk~~~v~--~Lr~l~~LkhLDlsyN~L~~vp~l~~~------gc~L~~L~lrnN~-l~tL-----~gi  250 (1096)
T KOG1859|consen  185 LLPALESLNLSHNKFTKVD--NLRRLPKLKHLDLSYNCLRHVPQLSMV------GCKLQLLNLRNNA-LTTL-----RGI  250 (1096)
T ss_pred             HHHHhhhhccchhhhhhhH--HHHhcccccccccccchhccccccchh------hhhheeeeecccH-HHhh-----hhH
Confidence            4567777777777776654  467777777777777777666543321      1237777776632 4443     455


Q ss_pred             cccCcccEEEEecCCCcc--cccCCccccCCccEEeeccc
Q 000945          879 SITENLESLEVWWCENLI--NLVPSSASFKNLTTLELWYC  916 (1212)
Q Consensus       879 ~~l~~L~~L~l~~c~~l~--~lp~~~~~l~~L~~L~l~~c  916 (1212)
                      .+|.+|+.||+++|-..+  .+- .+..+..|+.|.+.++
T Consensus       251 e~LksL~~LDlsyNll~~hseL~-pLwsLs~L~~L~LeGN  289 (1096)
T KOG1859|consen  251 ENLKSLYGLDLSYNLLSEHSELE-PLWSLSSLIVLWLEGN  289 (1096)
T ss_pred             HhhhhhhccchhHhhhhcchhhh-HHHHHHHHHHHhhcCC
Confidence            666777777777642221  111 1234556666666664

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

Probab=96.54  E-value=0.0045  Score=75.75  Aligned_cols=50  Identities=32%  Similarity=0.430  Sum_probs=38.1

Q ss_pred             CCcccccchHHHHH---HHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILN---DALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~---~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|++..+.   .+.+++..+....+-+||++|+||||||+.+++...
T Consensus        25 ~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~   77 (725)
T PRK13341         25 RTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTR   77 (725)
T ss_pred             CcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            34556778877663   455566666777788999999999999999998754

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=96.54  E-value=0.00046  Score=72.79  Aligned_cols=92  Identities=21%  Similarity=0.208  Sum_probs=39.5

Q ss_pred             ccCCCcEEEeecCCCceeeecCcchh-ccccccccceeecccccccceeecc---cCCccccCCccEEEEecCCCCCcc-
Q 000945          436 GFLQLKHLHVQNNPFILFIVDSMAWV-RYNAFLLLESLVLHNLIHLEKICLG---QLRAESFYKLKIIKVRNCDKLKNI-  510 (1212)
Q Consensus       436 ~l~~L~~L~l~~~~~~~~l~~~~~~~-~~~~~~~L~~L~L~~~~~l~~i~~~---~~~~~~l~~L~~L~L~~c~~l~~l-  510 (1212)
                      .+++|+.|+|.+|.....  .+.... ..+.+++|+.|++++| .++.-...   ...-...|+|++|.+.+| .++.- 
T Consensus       211 ~~~~LevLdl~DNtft~e--gs~~LakaL~s~~~L~El~l~dc-ll~~~Ga~a~~~al~~~~p~L~vl~l~gN-eIt~da  286 (382)
T KOG1909|consen  211 HCPHLEVLDLRDNTFTLE--GSVALAKALSSWPHLRELNLGDC-LLENEGAIAFVDALKESAPSLEVLELAGN-EITRDA  286 (382)
T ss_pred             hCCcceeeecccchhhhH--HHHHHHHHhcccchheeeccccc-ccccccHHHHHHHHhccCCCCceeccCcc-hhHHHH
Confidence            567777777777632111  000000 1344556666666665 22210000   000123556666666664 22221 


Q ss_pred             --CchhhhccCCCccEEEEccCc
Q 000945          511 --FSFSFVRGLPQLQTLNVINCK  531 (1212)
Q Consensus       511 --~~~~~~~~L~~L~~L~l~~c~  531 (1212)
                        -....+...+.|+.|++++|.
T Consensus       287 ~~~la~~~~ek~dL~kLnLngN~  309 (382)
T KOG1909|consen  287 ALALAACMAEKPDLEKLNLNGNR  309 (382)
T ss_pred             HHHHHHHHhcchhhHHhcCCccc
Confidence              000123335566666666554

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

Probab=96.52  E-value=0.0049  Score=65.26  Aligned_cols=55  Identities=35%  Similarity=0.381  Sum_probs=38.9

Q ss_pred             CCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 000945          166 SNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQ  224 (1212)
Q Consensus       166 ~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~  224 (1212)
                      ..+.+..+-.||..|+||||||+.|-+..+-..    .-||..|-.-.-..=.++|+++
T Consensus       158 eq~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~  212 (554)
T KOG2028|consen  158 EQNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQ  212 (554)
T ss_pred             HcCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHH
Confidence            356788888999999999999999999876333    4567776554333334455543

>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=96.50  E-value=0.0025  Score=46.60  Aligned_cols=39  Identities=28%  Similarity=0.426  Sum_probs=23.6

Q ss_pred             cceEeEeecCCccccchHHHhhcCccceeEEEccceeEec
Q 000945          802 NLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIF  841 (1212)
Q Consensus       802 ~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~  841 (1212)
                      +|++|++++|.+..+|+. +.++++|+.|+++.|.+++++
T Consensus         2 ~L~~L~l~~N~i~~l~~~-l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPE-LSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             T-SEEEETSSS-SSHGGH-GTTCTTSSEEEETSSCCSBEG
T ss_pred             cceEEEccCCCCcccCch-HhCCCCCCEEEecCCCCCCCc
Confidence            466666666666666654 667777777777755565543

...

>PRK07261 topology modulation protein; Provisional

Probab=96.47  E-value=0.0091  Score=59.68  Aligned_cols=34  Identities=29%  Similarity=0.344  Sum_probs=25.0

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhhc-CCCCEEEE
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKKL-KLCDEVVF  205 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v~-~~F~~~~w  205 (1212)
                      .|.|+|++|.||||||+.+.....+. -+.|...|
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~   36 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHF   36 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEe
Confidence            48999999999999999997764321 23454444

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.44  E-value=0.22  Score=55.77  Aligned_cols=87  Identities=17%  Similarity=0.196  Sum_probs=49.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCH--HHHHHHHHHHhcCcccCC-ChhHHHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDV--KRIQGDIADQLGLYICEG-SESERAMVLCGLLK  246 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~--~~l~~~il~~l~~~~~~~-~~~~~~~~l~~~L~  246 (1212)
                      -.++.++|..|+||||++.++-.....+.....+++++ .+.|.+  ..-++...+.++...... +..+. .....++.
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit-~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l-~~~l~~l~  214 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLT-TDSYRIGGHEQLRIFGKILGVPVHAVKDGGDL-QLALAELR  214 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEe-cccccccHHHHHHHHHHHcCCceEecCCcccH-HHHHHHhc
Confidence            46899999999999999999988754222123444444 444532  233333344444443222 22222 33445566


Q ss_pred             cCCcEEEecCccc
Q 000945          247 KGKKILVLDNIWT  259 (1212)
Q Consensus       247 ~~kr~LVLDDVw~  259 (1212)
                      + +.++++|..-.
T Consensus       215 ~-~DlVLIDTaG~  226 (374)
T PRK14722        215 N-KHMVLIDTIGM  226 (374)
T ss_pred             C-CCEEEEcCCCC
Confidence            4 77778887643

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.43  E-value=0.088  Score=60.86  Aligned_cols=88  Identities=25%  Similarity=0.271  Sum_probs=46.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHH--HHHHHHHHhcCcccCCChhHHHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKR--IQGDIADQLGLYICEGSESERAMVLCGLLK  246 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~--l~~~il~~l~~~~~~~~~~~~~~~l~~~L~  246 (1212)
                      .-.+|+|+|.+|+||||++..+......+.....+..++. +.|..-.  -++.....++..............+.+++.
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdt-DtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~  427 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTT-DTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLR  427 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEec-ccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhc
Confidence            3579999999999999999998876542222233444433 3344321  111112222222222222222333444555


Q ss_pred             cCCcEEEecCcc
Q 000945          247 KGKKILVLDNIW  258 (1212)
Q Consensus       247 ~~kr~LVLDDVw  258 (1212)
                      + +.++++|..-
T Consensus       428 ~-~DLVLIDTaG  438 (559)
T PRK12727        428 D-YKLVLIDTAG  438 (559)
T ss_pred             c-CCEEEecCCC
Confidence            3 6666888764

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

Probab=96.36  E-value=0.00079  Score=78.53  Aligned_cols=176  Identities=20%  Similarity=0.147  Sum_probs=100.3

Q ss_pred             cccccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccc
Q 000945          614 KVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGE  693 (1212)
Q Consensus       614 l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~  693 (1212)
                      +..+.+|+.|++.+|.+..+-...   .++++|++|+|++ +.++.+.+   +..++.|+.|++++|. +..+..     
T Consensus        91 l~~~~~l~~l~l~~n~i~~i~~~l---~~~~~L~~L~ls~-N~I~~i~~---l~~l~~L~~L~l~~N~-i~~~~~-----  157 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIEKIENLL---SSLVNLQVLDLSF-NKITKLEG---LSTLTLLKELNLSGNL-ISDISG-----  157 (414)
T ss_pred             cccccceeeeeccccchhhcccch---hhhhcchheeccc-cccccccc---hhhccchhhheeccCc-chhccC-----
Confidence            456788889999888776654411   2688899999988 57777766   6778889999998887 655532     


Q ss_pred             cccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeee
Q 000945          694 EATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKV  773 (1212)
Q Consensus       694 ~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~  773 (1212)
                          ...+++|+.+++.++..-.. .... ...+.+|+.+.+.+... ..+.    .+                    ..
T Consensus       158 ----~~~l~~L~~l~l~~n~i~~i-e~~~-~~~~~~l~~l~l~~n~i-~~i~----~~--------------------~~  206 (414)
T KOG0531|consen  158 ----LESLKSLKLLDLSYNRIVDI-ENDE-LSELISLEELDLGGNSI-REIE----GL--------------------DL  206 (414)
T ss_pred             ----CccchhhhcccCCcchhhhh-hhhh-hhhccchHHHhccCCch-hccc----ch--------------------HH
Confidence                12266777777766532111 1100 12456666666666422 1110    00                    00


Q ss_pred             cccceeeeeccccccccccccCcccccc--cceEeEeecCCccccchHHHhhcCccceeEEEcccee
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFR--NLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYK  838 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~--~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~  838 (1212)
                      +..+..+++..|.+..+..    ...+.  .|+.+++++|.+...+. .+..+..+..|++..+.+.
T Consensus       207 ~~~l~~~~l~~n~i~~~~~----l~~~~~~~L~~l~l~~n~i~~~~~-~~~~~~~l~~l~~~~n~~~  268 (414)
T KOG0531|consen  207 LKKLVLLSLLDNKISKLEG----LNELVMLHLRELYLSGNRISRSPE-GLENLKNLPVLDLSSNRIS  268 (414)
T ss_pred             HHHHHHhhcccccceeccC----cccchhHHHHHHhcccCccccccc-cccccccccccchhhcccc
Confidence            2233333555555555532    11122  26777777776666542 2555666777776644443

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=96.33  E-value=0.017  Score=64.49  Aligned_cols=48  Identities=23%  Similarity=0.315  Sum_probs=39.3

Q ss_pred             cccccchHHHHHHHHHHhC-----CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          148 YEAFESRKSILNDALDALS-----NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L~-----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...++|+++.++.+..++.     ......+-++|+.|+||||||+.+.+...
T Consensus         3 ~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~   55 (305)
T TIGR00635         3 LAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMG   55 (305)
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4568899999998888775     23455678999999999999999998765

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=96.33  E-value=0.0092  Score=70.83  Aligned_cols=51  Identities=16%  Similarity=0.177  Sum_probs=42.0

Q ss_pred             CCCcccccchHHHHHHHHHHhCC----CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSN----PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~----~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.....++|+++.++.+.+|+..    ...+.+-|+|..|+||||+|+++.++..
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~   64 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG   64 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            44566789999999999988862    1267889999999999999999999763

>PRK08116 hypothetical protein; Validated

Probab=96.31  E-value=0.015  Score=62.76  Aligned_cols=75  Identities=23%  Similarity=0.205  Sum_probs=47.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCCc
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGKK  250 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~kr  250 (1212)
                      .-+-+||..|+|||.||.+|++...-  +--.++++.      ...+...|........     ......+.+.+.+ -.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~--~~~~v~~~~------~~~ll~~i~~~~~~~~-----~~~~~~~~~~l~~-~d  180 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIE--KGVPVIFVN------FPQLLNRIKSTYKSSG-----KEDENEIIRSLVN-AD  180 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHH--cCCeEEEEE------HHHHHHHHHHHHhccc-----cccHHHHHHHhcC-CC
Confidence            35789999999999999999998763  333445554      3445555554443211     1122334556664 56


Q ss_pred             EEEecCccc
Q 000945          251 ILVLDNIWT  259 (1212)
Q Consensus       251 ~LVLDDVw~  259 (1212)
                      +|||||+-.
T Consensus       181 lLviDDlg~  189 (268)
T PRK08116        181 LLILDDLGA  189 (268)
T ss_pred             EEEEecccC
Confidence            779999953

>PLN03025 replication factor C subunit; Provisional

Probab=96.31  E-value=0.018  Score=64.34  Aligned_cols=50  Identities=16%  Similarity=0.119  Sum_probs=40.5

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +.....++|.++.++.+..++..+...-+-++|..|+||||+|+.+-+..
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l   58 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHEL   58 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            34456678888888888877776666667799999999999999998875

>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=96.25  E-value=0.0055  Score=61.95  Aligned_cols=51  Identities=20%  Similarity=0.325  Sum_probs=33.8

Q ss_pred             CCCcccccchHHHHHHHHHHhC-----CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALS-----NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~-----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.....++|.+.-++.+--++.     .+.+.-+-.||++|+||||||+.|-+...
T Consensus        20 P~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~   75 (233)
T PF05496_consen   20 PKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELG   75 (233)
T ss_dssp             -SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT
T ss_pred             CCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccC
Confidence            3456677888776665432222     34577788999999999999999999876

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.

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=96.24  E-value=0.0057  Score=59.71  Aligned_cols=84  Identities=15%  Similarity=0.152  Sum_probs=55.9

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      ..+...++++.|++..+.    .+..++.|.+|.+.+|.+..+.+..-..+++|+.|.+..|++..+-..+.    +..+
T Consensus        41 ~d~~d~iDLtdNdl~~l~----~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~p----La~~  112 (233)
T KOG1644|consen   41 LDQFDAIDLTDNDLRKLD----NLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDP----LASC  112 (233)
T ss_pred             ccccceecccccchhhcc----cCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcch----hccC
Confidence            456667778777776663    23457788888888888888887777777888888888777655433221    1225


Q ss_pred             cccceEeeCCCc
Q 000945          854 TQVKSLKLWELS  865 (1212)
Q Consensus       854 ~~L~~L~l~~c~  865 (1212)
                      +.|++|.+-+++
T Consensus       113 p~L~~Ltll~Np  124 (233)
T KOG1644|consen  113 PKLEYLTLLGNP  124 (233)
T ss_pred             CccceeeecCCc
Confidence            666666665543

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=96.23  E-value=0.0014  Score=79.64  Aligned_cols=13  Identities=31%  Similarity=0.381  Sum_probs=8.6

Q ss_pred             cCCCcEEEecccc
Q 000945          669 FVQLEHLEICYCS  681 (1212)
Q Consensus       669 l~~L~~L~l~~~~  681 (1212)
                      -.+|++|+|+|..
T Consensus       121 r~nL~~LdI~G~~  133 (699)
T KOG3665|consen  121 RQNLQHLDISGSE  133 (699)
T ss_pred             HHhhhhcCccccc
Confidence            3577777777644

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.20  E-value=0.015  Score=56.45  Aligned_cols=89  Identities=28%  Similarity=0.246  Sum_probs=49.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC-
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK-  249 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k-  249 (1212)
                      ..+.|+|..|+||||+|+.+......  .....+++..+........... ...................+..+....+ 
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGP--PGGGVIYIDGEDILEEVLDQLL-LIIVGGKKASGSGELRLRLALALARKLKP   79 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCC--CCCCEEEECCEEccccCHHHHH-hhhhhccCCCCCHHHHHHHHHHHHHhcCC
Confidence            57899999999999999999886652  2223455544433332222221 1111111122233334445566665423 


Q ss_pred             cEEEecCcccccc
Q 000945          250 KILVLDNIWTSLD  262 (1212)
Q Consensus       250 r~LVLDDVw~~~~  262 (1212)
                      .++++|+++....
T Consensus        80 ~viiiDei~~~~~   92 (148)
T smart00382       80 DVLILDEITSLLD   92 (148)
T ss_pred             CEEEEECCcccCC
Confidence            3449999987754

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.

>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=96.16  E-value=0.0046  Score=58.01  Aligned_cols=23  Identities=43%  Similarity=0.452  Sum_probs=21.3

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ||.|.|+.|+||||+|+.+-+..
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            69999999999999999998865

...

>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=96.14  E-value=0.025  Score=58.78  Aligned_cols=36  Identities=28%  Similarity=0.422  Sum_probs=30.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEe
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEV  208 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~v  208 (1212)
                      -.+.|+|..|.|||||+..+.....  +.|++..+++-
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            3678999999999999999998766  88977766644

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=96.11  E-value=0.02  Score=65.19  Aligned_cols=49  Identities=18%  Similarity=0.224  Sum_probs=41.2

Q ss_pred             CcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....++|++..++.+..++..+....+-++|..|+||||+|+++.+...
T Consensus        13 ~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~   61 (337)
T PRK12402         13 LLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY   61 (337)
T ss_pred             cHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            3456789999999999988876666788999999999999999988654

>PRK12377 putative replication protein; Provisional

Probab=96.08  E-value=0.019  Score=60.66  Aligned_cols=76  Identities=21%  Similarity=0.183  Sum_probs=48.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKG  248 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~  248 (1212)
                      ....+.|+|..|+|||+||.+|.+...  ...-.++++++.      .+...|-......   .    ....+.+.+.+ 
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~--~~g~~v~~i~~~------~l~~~l~~~~~~~---~----~~~~~l~~l~~-  163 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLL--AKGRSVIVVTVP------DVMSRLHESYDNG---Q----SGEKFLQELCK-  163 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHH--HcCCCeEEEEHH------HHHHHHHHHHhcc---c----hHHHHHHHhcC-
Confidence            346789999999999999999999876  334445666554      3444443333111   1    11235556664 


Q ss_pred             CcEEEecCcccc
Q 000945          249 KKILVLDNIWTS  260 (1212)
Q Consensus       249 kr~LVLDDVw~~  260 (1212)
                      -.+|||||+-..
T Consensus       164 ~dLLiIDDlg~~  175 (248)
T PRK12377        164 VDLLVLDEIGIQ  175 (248)
T ss_pred             CCEEEEcCCCCC
Confidence            667799999544

>PRK08727 hypothetical protein; Validated

Probab=96.08  E-value=0.024  Score=60.02  Aligned_cols=40  Identities=23%  Similarity=0.307  Sum_probs=29.9

Q ss_pred             CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEe
Q 000945          167 NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEV  208 (1212)
Q Consensus       167 ~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~v  208 (1212)
                      ......|.|+|..|+|||+||+++.+...  ++.....|+.+
T Consensus        38 ~~~~~~l~l~G~~G~GKThL~~a~~~~~~--~~~~~~~y~~~   77 (233)
T PRK08727         38 GQSSDWLYLSGPAGTGKTHLALALCAAAE--QAGRSSAYLPL   77 (233)
T ss_pred             ccCCCeEEEECCCCCCHHHHHHHHHHHHH--HcCCcEEEEeH
Confidence            33445699999999999999999999765  33345566653

>PRK08084 DNA replication initiation factor; Provisional

Probab=96.05  E-value=0.024  Score=60.14  Aligned_cols=53  Identities=21%  Similarity=0.244  Sum_probs=36.1

Q ss_pred             HHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec
Q 000945          155 KSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS  209 (1212)
Q Consensus       155 ~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs  209 (1212)
                      ...+..+-.+........+-|||..|+|||+||+++.+...  ..-..+.++.+.
T Consensus        30 ~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~--~~~~~v~y~~~~   82 (235)
T PRK08084         30 DSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS--QRGRAVGYVPLD   82 (235)
T ss_pred             HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH--hCCCeEEEEEHH
Confidence            33444444444444556889999999999999999999765  223345566554

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.04  E-value=0.044  Score=60.60  Aligned_cols=101  Identities=11%  Similarity=0.104  Sum_probs=64.8

Q ss_pred             HHHHHHhCC-CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCE-EEEEEecCC-CCHHHHHHHHHHHhcCcccCCChh
Q 000945          159 NDALDALSN-PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDE-VVFVEVSQT-PDVKRIQGDIADQLGLYICEGSES  235 (1212)
Q Consensus       159 ~~l~~~L~~-~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~-~~wv~vs~~-~~~~~l~~~il~~l~~~~~~~~~~  235 (1212)
                      ..+++.+.- ..-..+.|+|..|+|||||++.+.+.... .+=+. ++|+.|.+. -.+..+++.+...+..........
T Consensus       121 ~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~-~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~  199 (380)
T PRK12608        121 MRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAA-NHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPD  199 (380)
T ss_pred             HhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHh-cCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHH
Confidence            347777662 33456799999999999999999987652 23345 477777655 467888888887665432111111


Q ss_pred             -------HHHHHHHHHHHcCCcEE-EecCcccc
Q 000945          236 -------ERAMVLCGLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       236 -------~~~~~l~~~L~~~kr~L-VLDDVw~~  260 (1212)
                             .........-..|++++ |+|++-.-
T Consensus       200 ~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~  232 (380)
T PRK12608        200 EHIRVAELVLERAKRLVEQGKDVVILLDSLTRL  232 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHH
Confidence                   11222233334579999 99998654

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

Probab=96.02  E-value=0.024  Score=70.94  Aligned_cols=50  Identities=22%  Similarity=0.272  Sum_probs=41.6

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++||+++++.+++.|......-+-+||..|+||||+|+.+.....
T Consensus       179 ~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~  228 (731)
T TIGR02639       179 GKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIA  228 (731)
T ss_pred             CCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            34456899999999999998755555567999999999999999998763

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.02  E-value=0.034  Score=62.68  Aligned_cols=50  Identities=18%  Similarity=0.197  Sum_probs=42.4

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|+++.++.+..++.......+-|+|..|+||||+|+.+.+...
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~   63 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY   63 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc
Confidence            34556789999999999998876677789999999999999999998754

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

Probab=96.02  E-value=0.027  Score=58.85  Aligned_cols=78  Identities=24%  Similarity=0.316  Sum_probs=52.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKG  248 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~  248 (1212)
                      ....+-|||..|+|||.|.+++++...-...=-.++++      +...+.+.+...+..        .....+++++.. 
T Consensus        33 ~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~------~~~~f~~~~~~~~~~--------~~~~~~~~~~~~-   97 (219)
T PF00308_consen   33 RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYL------SAEEFIREFADALRD--------GEIEEFKDRLRS-   97 (219)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEE------EHHHHHHHHHHHHHT--------TSHHHHHHHHCT-
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceee------cHHHHHHHHHHHHHc--------ccchhhhhhhhc-
Confidence            45568899999999999999999986532111123343      345566666666543        123557778875 


Q ss_pred             CcEEEecCccccc
Q 000945          249 KKILVLDNIWTSL  261 (1212)
Q Consensus       249 kr~LVLDDVw~~~  261 (1212)
                      -.+|++|||....
T Consensus        98 ~DlL~iDDi~~l~  110 (219)
T PF00308_consen   98 ADLLIIDDIQFLA  110 (219)
T ss_dssp             SSEEEEETGGGGT
T ss_pred             CCEEEEecchhhc
Confidence            8888999997653

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.

>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=95.92  E-value=0.11  Score=49.50  Aligned_cols=113  Identities=15%  Similarity=0.166  Sum_probs=76.7

Q ss_pred             cchHHH-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhhHHHHHHHHHHHHHHHHH
Q 000945            2 PHFIFS-ATAKVLGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEA   80 (1212)
Q Consensus         2 ae~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~i~~~l~~ae~~~~~~~~~v~~Wl~~lk~~~~~a   80 (1212)
                      ||.+++ +++.+++.+...+    ....+.....+.-+++|..++..|.-++++-+.-+.+.+..-+.=++++.+...++
T Consensus         3 ~eL~~gaalG~~~~eLlk~v----~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g   78 (147)
T PF05659_consen    3 AELVGGAALGAVFGELLKAV----IDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKG   78 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHH----HHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHH
Confidence            455544 4555554444444    33455556778888888999999998888877654444444477778888888888


Q ss_pred             hHhhhHHHHhhcccccCCCCChhHHHHHHHHHHHHHHHHHHHhhc
Q 000945           81 GKLIEDEEKEKKKCLKGLCPNLMNRYQLSKKAAWEVKAIAGLLEE  125 (1212)
Q Consensus        81 ed~ld~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~l~~i~~~  125 (1212)
                      +++++.+..       ....++...++.+++|+++.+.+.....-
T Consensus        79 ~~LV~k~sk-------~~r~n~~kk~~y~~Ki~~le~~l~~f~~v  116 (147)
T PF05659_consen   79 KELVEKCSK-------VRRWNLYKKPRYARKIEELEESLRRFIQV  116 (147)
T ss_pred             HHHHHHhcc-------ccHHHHHhhHhHHHHHHHHHHHHHHHhcc
Confidence            888875322       12235666778899999999998887653

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 [].

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=95.92  E-value=0.082  Score=56.40  Aligned_cols=92  Identities=20%  Similarity=0.273  Sum_probs=65.0

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhhhcC-----CCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC-CChhHHHHHH
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLK-----LCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE-GSESERAMVL  241 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~-----~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~-~~~~~~~~~l  241 (1212)
                      ....-+-|||..|.||||+++.-....-...     .+ .++.|......+..++-..|+.+++..... .+.......+
T Consensus        59 ~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~-PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~  137 (302)
T PF05621_consen   59 HRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERI-PVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVAKLEQQV  137 (302)
T ss_pred             cCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccc-cEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHHHHHHHH
Confidence            4566689999999999999999887643211     11 355667778899999999999999887533 3333334333


Q ss_pred             HHHHHc-CCcEEEecCcccc
Q 000945          242 CGLLKK-GKKILVLDNIWTS  260 (1212)
Q Consensus       242 ~~~L~~-~kr~LVLDDVw~~  260 (1212)
                      .+-++. +-|.||+|.+-+.
T Consensus       138 ~~llr~~~vrmLIIDE~H~l  157 (302)
T PF05621_consen  138 LRLLRRLGVRMLIIDEFHNL  157 (302)
T ss_pred             HHHHHHcCCcEEEeechHHH
Confidence            343432 3688899999765

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.87  E-value=0.026  Score=71.54  Aligned_cols=48  Identities=21%  Similarity=0.238  Sum_probs=40.0

Q ss_pred             cccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          148 YEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...++||+++++.+++.|......-+-+||.+|+|||++|+.+.....
T Consensus       178 ~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~  225 (821)
T CHL00095        178 LDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIV  225 (821)
T ss_pred             CCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            456899999999999999854444556999999999999999988753

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=95.84  E-value=0.045  Score=58.39  Aligned_cols=76  Identities=22%  Similarity=0.227  Sum_probs=52.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKG  248 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~  248 (1212)
                      ...-+.++|..|+|||.||.++-|+.. +..+. +.|++      ..++..+|......       .....++.+.++. 
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~s-v~f~~------~~el~~~Lk~~~~~-------~~~~~~l~~~l~~-  167 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL-KAGIS-VLFIT------APDLLSKLKAAFDE-------GRLEEKLLRELKK-  167 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCe-EEEEE------HHHHHHHHHHHHhc-------CchHHHHHHHhhc-
Confidence            566789999999999999999999987 44343 44443      45566666555432       2234456666764 


Q ss_pred             CcEEEecCcccc
Q 000945          249 KKILVLDNIWTS  260 (1212)
Q Consensus       249 kr~LVLDDVw~~  260 (1212)
                      =.+|||||+-..
T Consensus       168 ~dlLIiDDlG~~  179 (254)
T COG1484         168 VDLLIIDDIGYE  179 (254)
T ss_pred             CCEEEEecccCc
Confidence            677799999865

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.80  E-value=0.012  Score=55.26  Aligned_cols=36  Identities=25%  Similarity=0.203  Sum_probs=29.4

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEE
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVE  207 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~  207 (1212)
                      --|+|-||+|+||||+++.+-+..+.+ -|..--|++
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~-g~kvgGf~t   41 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREK-GYKVGGFIT   41 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhc-CceeeeEEe
Confidence            358999999999999999999988743 377766664

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.77  E-value=0.0047  Score=63.69  Aligned_cols=119  Identities=19%  Similarity=0.225  Sum_probs=67.5

Q ss_pred             eeeeecccceeeeeccccccccccccCcccccccceEeEeecCCcc-ccchHHHhhcCccceeEEEccceeEeccccchh
Q 000945          769 LVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESE-NFRIGFLERFHNLEKLELRWSSYKEIFSNEEIV  847 (1212)
Q Consensus       769 ~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~-~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~  847 (1212)
                      ++.+++|.|+.|+|+.|.+....... + .-..+|+.|-+.+..+. .-....+..+|.++.|+++-|++..+...+.-.
T Consensus        91 ~ile~lP~l~~LNls~N~L~s~I~~l-p-~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~  168 (418)
T KOG2982|consen   91 AILEQLPALTTLNLSCNSLSSDIKSL-P-LPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCI  168 (418)
T ss_pred             HHHhcCccceEeeccCCcCCCccccC-c-ccccceEEEEEcCCCCChhhhhhhhhcchhhhhhhhccchhhhhccccccc
Confidence            33455899999999998876654221 1 23568888888884432 112234677888888888866554433222100


Q ss_pred             hccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCC
Q 000945          848 EHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCE  893 (1212)
Q Consensus       848 ~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~  893 (1212)
                      +.+  -+.+++|+...|+...  |.....-...++++..+-+..|+
T Consensus       169 e~~--s~~v~tlh~~~c~~~~--w~~~~~l~r~Fpnv~sv~v~e~P  210 (418)
T KOG2982|consen  169 EDW--STEVLTLHQLPCLEQL--WLNKNKLSRIFPNVNSVFVCEGP  210 (418)
T ss_pred             ccc--chhhhhhhcCCcHHHH--HHHHHhHHhhcccchheeeecCc
Confidence            111  3567777777776333  22212222334566666666554

>PRK07952 DNA replication protein DnaC; Validated

Probab=95.72  E-value=0.072  Score=56.17  Aligned_cols=76  Identities=22%  Similarity=0.275  Sum_probs=47.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      ...+-++|.+|+|||+||.+|.+...-  .-..+++++      +..+...+-.... . ..    .....+.+.+.+ -
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~--~g~~v~~it------~~~l~~~l~~~~~-~-~~----~~~~~~l~~l~~-~  163 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLL--RGKSVLIIT------VADIMSAMKDTFS-N-SE----TSEEQLLNDLSN-V  163 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEE------HHHHHHHHHHHHh-h-cc----ccHHHHHHHhcc-C
Confidence            457889999999999999999998752  223445553      3444444443331 1 01    112235556664 6


Q ss_pred             cEEEecCcccc
Q 000945          250 KILVLDNIWTS  260 (1212)
Q Consensus       250 r~LVLDDVw~~  260 (1212)
                      -+||+||+-..
T Consensus       164 dlLvIDDig~~  174 (244)
T PRK07952        164 DLLVIDEIGVQ  174 (244)
T ss_pred             CEEEEeCCCCC
Confidence            77799999765

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=95.68  E-value=0.091  Score=58.43  Aligned_cols=115  Identities=18%  Similarity=0.184  Sum_probs=77.6

Q ss_pred             CcccccchHHHHHHHHHHhC----CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHH
Q 000945          147 GYEAFESRKSILNDALDALS----NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIA  222 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il  222 (1212)
                      ....+.||+.+++.+-+++.    ...-.-+.|.|..|.|||.+...||.+..-...=-.++.+.+..--....+..+|.
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            34567899999999988886    23566789999999999999999999865211111234443333344677888888


Q ss_pred             HHh-cCcccCCChhHHHHHHHHHHHcCC-cEE-EecCccccc
Q 000945          223 DQL-GLYICEGSESERAMVLCGLLKKGK-KIL-VLDNIWTSL  261 (1212)
Q Consensus       223 ~~l-~~~~~~~~~~~~~~~l~~~L~~~k-r~L-VLDDVw~~~  261 (1212)
                      +.+ .......+..+.+..+.+..+..| -|| |||.++.-.
T Consensus       228 ~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~  269 (529)
T KOG2227|consen  228 SSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLI  269 (529)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHh
Confidence            777 222222333566777777777644 356 999887653

>smart00763 AAA_PrkA PrkA AAA domain

Probab=95.65  E-value=0.015  Score=63.82  Aligned_cols=46  Identities=15%  Similarity=0.197  Sum_probs=40.3

Q ss_pred             cccchHHHHHHHHHHhCC------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          150 AFESRKSILNDALDALSN------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~~------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .++|.++.++++++++..      ...++++++|..|.||||||+.+-+...
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~  103 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLE  103 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            578999999999999862      3568899999999999999999998875

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

>PRK08939 primosomal protein DnaI; Reviewed

Probab=95.65  E-value=0.056  Score=59.37  Aligned_cols=91  Identities=22%  Similarity=0.223  Sum_probs=56.8

Q ss_pred             chHHHHHHHHHHhCC----CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCc
Q 000945          153 SRKSILNDALDALSN----PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLY  228 (1212)
Q Consensus       153 gr~~~~~~l~~~L~~----~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~  228 (1212)
                      +|....+...+++.+    ....-+-|+|..|+|||.||.++.+... +..+. +.|++++      .+..++-......
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~-~~g~~-v~~~~~~------~l~~~lk~~~~~~  206 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELA-KKGVS-STLLHFP------EFIRELKNSISDG  206 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCC-EEEEEHH------HHHHHHHHHHhcC
Confidence            444444555555541    1345788999999999999999999876 23333 4566554      4555554444211


Q ss_pred             ccCCChhHHHHHHHHHHHcCCcEEEecCcccc
Q 000945          229 ICEGSESERAMVLCGLLKKGKKILVLDNIWTS  260 (1212)
Q Consensus       229 ~~~~~~~~~~~~l~~~L~~~kr~LVLDDVw~~  260 (1212)
                          +    .....+++++ -.+|||||+-.+
T Consensus       207 ----~----~~~~l~~l~~-~dlLiIDDiG~e  229 (306)
T PRK08939        207 ----S----VKEKIDAVKE-APVLMLDDIGAE  229 (306)
T ss_pred             ----c----HHHHHHHhcC-CCEEEEecCCCc
Confidence                1    2234455664 777899999755

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=95.63  E-value=0.071  Score=56.64  Aligned_cols=91  Identities=21%  Similarity=0.298  Sum_probs=56.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCC-CEEEEEEecCCCC-HHHHHHHHHHHhcCcc-----c--CCChh----
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLC-DEVVFVEVSQTPD-VKRIQGDIADQLGLYI-----C--EGSES----  235 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F-~~~~wv~vs~~~~-~~~l~~~il~~l~~~~-----~--~~~~~----  235 (1212)
                      .-..++|+|-.|+||||||+.+++..+  .+| +.++++-+-+..+ +..+.+++.+.=..+.     .  .+...    
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~--~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  145 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIA--KAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARAR  145 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHH--hcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            345689999999999999999999887  345 4455556666554 5566666654311110     0  01111    


Q ss_pred             --HHHHHHHHHHH--cCCcEE-EecCccccc
Q 000945          236 --ERAMVLCGLLK--KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       236 --~~~~~l~~~L~--~~kr~L-VLDDVw~~~  261 (1212)
                        ..+-.+-++++  .|+.+| |+||+-.-.
T Consensus       146 ~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~a  176 (274)
T cd01133         146 VALTGLTMAEYFRDEEGQDVLLFIDNIFRFT  176 (274)
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeChhHHH
Confidence              12233455553  269999 999986543

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=95.59  E-value=0.05  Score=71.43  Aligned_cols=101  Identities=19%  Similarity=0.120  Sum_probs=65.0

Q ss_pred             cccchHHHHHHHHHHhCC-CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec-CCCCHHHHHHHHHHHhcC
Q 000945          150 AFESRKSILNDALDALSN-PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS-QTPDVKRIQGDIADQLGL  227 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~~-~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs-~~~~~~~l~~~il~~l~~  227 (1212)
                      +++-|.    .+++.|.. ...+++-|.|++|.||||++......      ++.++|+++. .+-+...+...++..+..
T Consensus        15 ~~~~R~----rl~~~l~~~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l~~   84 (903)
T PRK04841         15 NTVVRE----RLLAKLSGANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAALQQ   84 (903)
T ss_pred             ccCcch----HHHHHHhcccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHHHH
Confidence            445553    45555542 36789999999999999999987742      3368999996 455677777888777742


Q ss_pred             cccC--------------CChhHHHHHHHHHHHc-CCcEE-EecCcccc
Q 000945          228 YICE--------------GSESERAMVLCGLLKK-GKKIL-VLDNIWTS  260 (1212)
Q Consensus       228 ~~~~--------------~~~~~~~~~l~~~L~~-~kr~L-VLDDVw~~  260 (1212)
                      ....              .........+...+.. +..++ ||||+-..
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~  133 (903)
T PRK04841         85 ATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLI  133 (903)
T ss_pred             hcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcC
Confidence            1110              1112233344444443 46788 99999655

>TIGR03689 pup_AAA proteasome ATPase

Probab=95.57  E-value=0.044  Score=63.90  Aligned_cols=52  Identities=25%  Similarity=0.223  Sum_probs=39.6

Q ss_pred             cCCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          144 CSEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |......|.|.+..++.+.+.+.    .         ...+-|-++|..|.|||++|+++++...
T Consensus       177 p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~  241 (512)
T TIGR03689       177 PDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLA  241 (512)
T ss_pred             CCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhc
Confidence            44456668889988888877653    1         1234578999999999999999999865

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=95.55  E-value=0.029  Score=65.22  Aligned_cols=76  Identities=20%  Similarity=0.231  Sum_probs=47.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      ...+-|+|..|+|||+||+++++.......=-.++++.      ...+..++...+...        ....+++++++ -
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~------~~~~~~~~~~~~~~~--------~~~~~~~~~~~-~  200 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS------SEKFTNDFVNALRNN--------KMEEFKEKYRS-V  200 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE------HHHHHHHHHHHHHcC--------CHHHHHHHHHh-C
Confidence            35688999999999999999999876221011234443      233444555554321        13345566664 5


Q ss_pred             cEEEecCcccc
Q 000945          250 KILVLDNIWTS  260 (1212)
Q Consensus       250 r~LVLDDVw~~  260 (1212)
                      .+|||||+...
T Consensus       201 dlLiiDDi~~l  211 (405)
T TIGR00362       201 DLLLIDDIQFL  211 (405)
T ss_pred             CEEEEehhhhh
Confidence            67799999754

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).

>PRK06921 hypothetical protein; Provisional

Probab=95.55  E-value=0.052  Score=58.41  Aligned_cols=72  Identities=25%  Similarity=0.336  Sum_probs=44.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKG  248 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~  248 (1212)
                      ....+.++|..|+|||+||++|.+...-+. -..++|+...      .+...+...+          +......+.+.+ 
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~-g~~v~y~~~~------~l~~~l~~~~----------~~~~~~~~~~~~-  177 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKK-GVPVLYFPFV------EGFGDLKDDF----------DLLEAKLNRMKK-  177 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhc-CceEEEEEHH------HHHHHHHHHH----------HHHHHHHHHhcC-
Confidence            456789999999999999999999765221 2345666542      2222222211          111223445553 


Q ss_pred             CcEEEecCcc
Q 000945          249 KKILVLDNIW  258 (1212)
Q Consensus       249 kr~LVLDDVw  258 (1212)
                      --+|||||+.
T Consensus       178 ~dlLiIDDl~  187 (266)
T PRK06921        178 VEVLFIDDLF  187 (266)
T ss_pred             CCEEEEeccc
Confidence            5677999993

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=95.52  E-value=0.031  Score=62.34  Aligned_cols=68  Identities=19%  Similarity=0.281  Sum_probs=49.5

Q ss_pred             ccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHh----hhcCCCCEEEEEEe-cCCCCHHH
Q 000945          149 EAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQA----KKLKLCDEVVFVEV-SQTPDVKR  216 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~----~v~~~F~~~~wv~v-s~~~~~~~  216 (1212)
                      ..++|.+..++.+.+++..+.+ +.+-++|+.|+||||+|+.++...    ....|+|...|... .+...+..
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~   77 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD   77 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH
Confidence            4577888889999999876554 456799999999999999999853    22467787777652 33344444

>PRK06696 uridine kinase; Validated

Probab=95.50  E-value=0.018  Score=60.61  Aligned_cols=43  Identities=23%  Similarity=0.298  Sum_probs=34.5

Q ss_pred             chHHHHHHHHHHhC---CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          153 SRKSILNDALDALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       153 gr~~~~~~l~~~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|.+-+++|.+.+.   .+...+|+|.|.+|.||||+|+.+.....
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~   47 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIK   47 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35566667776664   45788999999999999999999998765

>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=95.49  E-value=0.029  Score=53.47  Aligned_cols=23  Identities=43%  Similarity=0.405  Sum_probs=21.0

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |-|+|..|+||||+|+.+.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~   23 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG   23 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc
Confidence            46899999999999999999875

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 ....

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=95.46  E-value=0.043  Score=55.10  Aligned_cols=74  Identities=28%  Similarity=0.326  Sum_probs=45.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      -.-+.|+|..|+|||.||.++-+...- .... +.|+.+      ..+...    +........    ...+.+++.+ -
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~-~g~~-v~f~~~------~~L~~~----l~~~~~~~~----~~~~~~~l~~-~  109 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIR-KGYS-VLFITA------SDLLDE----LKQSRSDGS----YEELLKRLKR-V  109 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHH-TT---EEEEEH------HHHHHH----HHCCHCCTT----HCHHHHHHHT-S
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhcc-CCcc-eeEeec------Cceecc----ccccccccc----hhhhcCcccc-c
Confidence            456899999999999999999887653 3333 455543      333333    332211111    2235567775 7


Q ss_pred             cEEEecCcccc
Q 000945          250 KILVLDNIWTS  260 (1212)
Q Consensus       250 r~LVLDDVw~~  260 (1212)
                      .+|||||+-..
T Consensus       110 dlLilDDlG~~  120 (178)
T PF01695_consen  110 DLLILDDLGYE  120 (178)
T ss_dssp             SCEEEETCTSS
T ss_pred             cEeccccccee
Confidence            88899998755

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.45  E-value=0.59  Score=54.06  Aligned_cols=39  Identities=26%  Similarity=0.272  Sum_probs=26.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEe
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEV  208 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~v  208 (1212)
                      -.+|.++|.+|+||||++..+-........-..++.|+.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~  259 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITL  259 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence            358999999999999988887655431122234555543

>PTZ00301 uridine kinase; Provisional

Probab=95.44  E-value=0.02  Score=59.00  Aligned_cols=26  Identities=31%  Similarity=0.560  Sum_probs=23.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+|||-|..|.||||||+.+.+...
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~   28 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELM   28 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHH
Confidence            46899999999999999999988764

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=95.38  E-value=0.017  Score=65.01  Aligned_cols=50  Identities=22%  Similarity=0.339  Sum_probs=40.5

Q ss_pred             CCcccccchHHHHHHHHHHhC-----CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALS-----NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~-----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|+++.++.+..++.     ......+-|+|+.|+||||+|+.+.+...
T Consensus        22 ~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~   76 (328)
T PRK00080         22 KSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMG   76 (328)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhC
Confidence            356678999999988876664     23456788999999999999999999765

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.24  E-value=0.09  Score=57.32  Aligned_cols=28  Identities=32%  Similarity=0.300  Sum_probs=24.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      .-.+|+|+|.+|+||||++..+......
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~  220 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVL  220 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3569999999999999999998876653

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=95.21  E-value=0.057  Score=62.70  Aligned_cols=74  Identities=16%  Similarity=0.210  Sum_probs=46.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      ..-+-|+|..|+|||+||+++.+....  .--.++++.      ...+...+...+...        .....++.+.. .
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~--~~~~v~yi~------~~~f~~~~~~~l~~~--------~~~~f~~~~~~-~  203 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRE--SGGKILYVR------SELFTEHLVSAIRSG--------EMQRFRQFYRN-V  203 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHH--cCCCEEEee------HHHHHHHHHHHHhcc--------hHHHHHHHccc-C
Confidence            356889999999999999999998762  222233432      234445555555321        12334555553 6


Q ss_pred             cEEEecCcccc
Q 000945          250 KILVLDNIWTS  260 (1212)
Q Consensus       250 r~LVLDDVw~~  260 (1212)
                      .+|++||+...
T Consensus       204 dvLiIDDiq~l  214 (445)
T PRK12422        204 DALFIEDIEVF  214 (445)
T ss_pred             CEEEEcchhhh
Confidence            67799998654

>PRK08181 transposase; Validated

Probab=95.19  E-value=0.064  Score=57.47  Aligned_cols=74  Identities=20%  Similarity=0.122  Sum_probs=45.8

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      -.-+-|+|..|+|||.||.++-+...  +..-.+.|+.+      ..+..++.....    ..    ....+.+++.+ -
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~--~~g~~v~f~~~------~~L~~~l~~a~~----~~----~~~~~l~~l~~-~  168 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALI--ENGWRVLFTRT------TDLVQKLQVARR----EL----QLESAIAKLDK-F  168 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHH--HcCCceeeeeH------HHHHHHHHHHHh----CC----cHHHHHHHHhc-C
Confidence            34589999999999999999998765  33334455543      445555433211    11    12234455653 5


Q ss_pred             cEEEecCcccc
Q 000945          250 KILVLDNIWTS  260 (1212)
Q Consensus       250 r~LVLDDVw~~  260 (1212)
                      .+||+||+-..
T Consensus       169 dLLIIDDlg~~  179 (269)
T PRK08181        169 DLLILDDLAYV  179 (269)
T ss_pred             CEEEEeccccc
Confidence            56699998644

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=95.18  E-value=0.053  Score=63.15  Aligned_cols=76  Identities=18%  Similarity=0.239  Sum_probs=48.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCC-EEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCD-EVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKG  248 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~-~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~  248 (1212)
                      ..-+-|||..|+|||+||+++.+.... .+.+ .++|++.      ..+..++...+...        .....+++....
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~-~~~~~~v~yi~~------~~f~~~~~~~~~~~--------~~~~f~~~~~~~  194 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQ-NEPDLRVMYITS------EKFLNDLVDSMKEG--------KLNEFREKYRKK  194 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH-hCCCCeEEEEEH------HHHHHHHHHHHhcc--------cHHHHHHHHHhc
Confidence            445899999999999999999998752 2333 3445443      34555665555321        122344455422


Q ss_pred             CcEEEecCcccc
Q 000945          249 KKILVLDNIWTS  260 (1212)
Q Consensus       249 kr~LVLDDVw~~  260 (1212)
                      -.+|++||+...
T Consensus       195 ~dvLlIDDi~~l  206 (440)
T PRK14088        195 VDVLLIDDVQFL  206 (440)
T ss_pred             CCEEEEechhhh
Confidence            556799999854

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=95.18  E-value=0.071  Score=60.96  Aligned_cols=52  Identities=25%  Similarity=0.280  Sum_probs=40.2

Q ss_pred             cCCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          144 CSEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +......+.|+++.++.+.+.+.    .         ...+-|-++|..|+||||+|+++.+...
T Consensus       117 p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~  181 (364)
T TIGR01242       117 PNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN  181 (364)
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCC
Confidence            34455678899999998887663    1         1234588999999999999999999765

Many proteins may score above the trusted cutoff because an internal

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.16  E-value=0.071  Score=65.35  Aligned_cols=50  Identities=22%  Similarity=0.379  Sum_probs=40.9

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceE-EEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNV-IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~v-i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....|+|.+..++.|.+++..+.+.- +-++|..|+||||+|+.+.+...
T Consensus        13 ~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Ln   63 (944)
T PRK14949         13 ATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLN   63 (944)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhcc
Confidence            345678899999988888887666554 47999999999999999998754

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.14  E-value=0.097  Score=61.19  Aligned_cols=50  Identities=20%  Similarity=0.328  Sum_probs=39.9

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..++.+...+..+.+ +.+-++|..|+||||+|+.+.+...
T Consensus        11 ~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~   61 (472)
T PRK14962         11 KTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLN   61 (472)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3456688998888888777776666 4578999999999999999987643

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

Probab=95.14  E-value=0.23  Score=58.20  Aligned_cols=46  Identities=17%  Similarity=0.297  Sum_probs=39.5

Q ss_pred             cccchHHHHHHHHHHhC------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          150 AFESRKSILNDALDALS------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +-||.++-++.|++.+-      +..-.++..+|+.|||||.+|+.|-.-..
T Consensus       412 DHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALn  463 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALN  463 (906)
T ss_pred             cccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhC
Confidence            35788999999999875      34678999999999999999999998655

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.13  E-value=0.084  Score=62.42  Aligned_cols=49  Identities=24%  Similarity=0.412  Sum_probs=39.7

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++|.+..++.+...+..+.+ +.+-++|+.|+||||+|+.+.+..
T Consensus        13 ~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L   62 (546)
T PRK14957         13 QSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCL   62 (546)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3455688999999988888876554 446789999999999999998754

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.04  E-value=0.83  Score=53.13  Aligned_cols=44  Identities=20%  Similarity=0.239  Sum_probs=30.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDV  214 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~  214 (1212)
                      -.||+++|..|+||||++..+......++.-..++.|+. +.|.+
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~-Dt~Ri  299 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTT-DSYRI  299 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeC-Cccch
Confidence            369999999999999999999986643322223444433 34543

>PRK05642 DNA replication initiation factor; Validated

Probab=95.03  E-value=0.036  Score=58.67  Aligned_cols=65  Identities=17%  Similarity=0.308  Sum_probs=42.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      ...+.|||..|+|||.||+++.+...-  .-..++|++..+      +...                 ...+.+++.+ -
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~--~~~~v~y~~~~~------~~~~-----------------~~~~~~~~~~-~   98 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQ--RGEPAVYLPLAE------LLDR-----------------GPELLDNLEQ-Y   98 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHh--CCCcEEEeeHHH------HHhh-----------------hHHHHHhhhh-C
Confidence            357899999999999999999886542  223456665432      1111                 1234555654 4


Q ss_pred             cEEEecCcccc
Q 000945          250 KILVLDNIWTS  260 (1212)
Q Consensus       250 r~LVLDDVw~~  260 (1212)
                      .+||+||+...
T Consensus        99 d~LiiDDi~~~  109 (234)
T PRK05642         99 ELVCLDDLDVI  109 (234)
T ss_pred             CEEEEechhhh
Confidence            56799999644

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=95.00  E-value=0.076  Score=61.93  Aligned_cols=78  Identities=18%  Similarity=0.148  Sum_probs=48.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      ..-+-|+|..|+|||+|++++.+.......=-.+++  ++    ...+...+...++..      ......+++++.+ -
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~y--v~----~~~f~~~~~~~l~~~------~~~~~~~~~~~~~-~  207 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSY--MS----GDEFARKAVDILQKT------HKEIEQFKNEICQ-N  207 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEE--EE----HHHHHHHHHHHHHHh------hhHHHHHHHHhcc-C
Confidence            355889999999999999999996652211112233  32    345667776666421      1223445566653 5


Q ss_pred             cEEEecCcccc
Q 000945          250 KILVLDNIWTS  260 (1212)
Q Consensus       250 r~LVLDDVw~~  260 (1212)
                      -+||+||+...
T Consensus       208 dvLiIDDiq~l  218 (450)
T PRK14087        208 DVLIIDDVQFL  218 (450)
T ss_pred             CEEEEeccccc
Confidence            56699999654

>PRK10865 protein disaggregation chaperone; Provisional

Probab=94.99  E-value=0.096  Score=66.44  Aligned_cols=49  Identities=18%  Similarity=0.224  Sum_probs=41.1

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++||+.+++.+++.|......-+-+||..|+||||+|+.+-...
T Consensus       175 ~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        175 GKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHh
Confidence            3456689999999999999985555556699999999999999998865

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

Probab=94.98  E-value=0.29  Score=57.73  Aligned_cols=45  Identities=22%  Similarity=0.286  Sum_probs=38.1

Q ss_pred             ccchHHHHHHHHHHhC------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          151 FESRKSILNDALDALS------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -+|.++-++.|++.|.      +-.-.++..||++|||||.||+.|-.-..
T Consensus       325 HYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~  375 (782)
T COG0466         325 HYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALG  375 (782)
T ss_pred             ccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhC
Confidence            3678888999999885      23457999999999999999999998665

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.96  E-value=0.081  Score=61.04  Aligned_cols=49  Identities=22%  Similarity=0.323  Sum_probs=40.0

Q ss_pred             CcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....|+|.+..++.+..++..+.+. .+-++|+.|+||||+|+.+-+...
T Consensus        14 ~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~   63 (397)
T PRK14955         14 KFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVN   63 (397)
T ss_pred             cHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhc
Confidence            4556889998888888888766654 477999999999999999887654

>PRK07667 uridine kinase; Provisional

Probab=94.96  E-value=0.029  Score=57.46  Aligned_cols=38  Identities=26%  Similarity=0.379  Sum_probs=30.1

Q ss_pred             HHHHHHHhC--CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          158 LNDALDALS--NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       158 ~~~l~~~L~--~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+.|++.+.  .....+|||-|.+|.||||+|+.+.....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~   42 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMK   42 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            345555554  34568999999999999999999998765

>PRK06547 hypothetical protein; Provisional

Probab=94.94  E-value=0.036  Score=55.14  Aligned_cols=35  Identities=26%  Similarity=0.209  Sum_probs=28.2

Q ss_pred             HHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          160 DALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       160 ~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+...+......+|+|.|..|.||||+|+.+.+..
T Consensus         5 ~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          5 LIAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34444445678899999999999999999998864

>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=94.94  E-value=0.022  Score=54.12  Aligned_cols=22  Identities=45%  Similarity=0.662  Sum_probs=20.5

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |+|.|+.|+||||+|+.+....
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            7899999999999999999875

...

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=94.89  E-value=0.02  Score=56.89  Aligned_cols=26  Identities=35%  Similarity=0.374  Sum_probs=23.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+|+|-||=|+||||||+.+-++..
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            46899999999999999999999876

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=94.89  E-value=0.024  Score=58.24  Aligned_cols=24  Identities=46%  Similarity=0.612  Sum_probs=22.6

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ||||.|.+|.||||+|+.+.....
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~   24 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILN   24 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            799999999999999999999776

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 ....

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=94.87  E-value=1.6  Score=50.42  Aligned_cols=86  Identities=27%  Similarity=0.224  Sum_probs=48.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCH--HHHHHHHHHHhcCcccCC----ChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDV--KRIQGDIADQLGLYICEG----SESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~--~~l~~~il~~l~~~~~~~----~~~~~~~~l~  242 (1212)
                      ...+|-++|..|+||||.|..+.....- ..+ .++.|+ .+.|..  ..-++.+.+.++......    +.........
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~-~g~-kV~lV~-~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al  170 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKK-KGL-KVGLVA-ADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGL  170 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHH-cCC-eEEEec-CCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            4678999999999999999999877652 222 233333 234444  333445556655443221    1112223333


Q ss_pred             HHHHcCCcEEEecCcc
Q 000945          243 GLLKKGKKILVLDNIW  258 (1212)
Q Consensus       243 ~~L~~~kr~LVLDDVw  258 (1212)
                      +++.. ..++|+|.--
T Consensus       171 ~~~~~-~DvVIIDTAG  185 (437)
T PRK00771        171 EKFKK-ADVIIVDTAG  185 (437)
T ss_pred             HHhhc-CCEEEEECCC
Confidence            44443 4555888653

>PRK06835 DNA replication protein DnaC; Validated

Probab=94.82  E-value=3.3  Score=46.03  Aligned_cols=76  Identities=17%  Similarity=0.225  Sum_probs=45.2

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      -.-+.++|..|+|||+||++|-+...-+ . -.++|+++.+      +...+...- .+  .  ..+... ..+.+.+ -
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~-g-~~V~y~t~~~------l~~~l~~~~-~~--~--~~~~~~-~~~~l~~-~  247 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDR-G-KSVIYRTADE------LIEILREIR-FN--N--DKELEE-VYDLLIN-C  247 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHC-C-CeEEEEEHHH------HHHHHHHHH-hc--c--chhHHH-HHHHhcc-C
Confidence            3779999999999999999999987522 2 2456655433      333332210 01  0  111111 1455553 5


Q ss_pred             cEEEecCcccc
Q 000945          250 KILVLDNIWTS  260 (1212)
Q Consensus       250 r~LVLDDVw~~  260 (1212)
                      -+|||||+-.+
T Consensus       248 DLLIIDDlG~e  258 (329)
T PRK06835        248 DLLIIDDLGTE  258 (329)
T ss_pred             CEEEEeccCCC
Confidence            67799999655

>PRK06526 transposase; Provisional

Probab=94.75  E-value=0.074  Score=56.71  Aligned_cols=26  Identities=31%  Similarity=0.192  Sum_probs=22.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.-+-|+|.+|+|||+||+++-+...
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~  123 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRAC  123 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHH
Confidence            45689999999999999999988765

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

Probab=94.75  E-value=0.091  Score=64.98  Aligned_cols=47  Identities=26%  Similarity=0.355  Sum_probs=38.9

Q ss_pred             cccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          148 YEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...++||+++++.+++.|....-.-+-++|..|+|||++|+.+....
T Consensus       185 ~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i  231 (758)
T PRK11034        185 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_pred             CCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999998875433444589999999999999999865

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.74  E-value=0.11  Score=62.19  Aligned_cols=48  Identities=19%  Similarity=0.392  Sum_probs=38.8

Q ss_pred             CcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHh
Q 000945          147 GYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ....++|.+..++.|.+++..+.+ +.+-++|..|+||||+|+.+-+..
T Consensus        14 ~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~L   62 (618)
T PRK14951         14 SFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSL   62 (618)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            455678988888888888876655 566899999999999999986543

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=94.73  E-value=0.11  Score=54.08  Aligned_cols=49  Identities=20%  Similarity=0.316  Sum_probs=38.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGD  220 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~  220 (1212)
                      .-+++-|+|.+|.||||+|..+.....  ..-..++|+.... |...++.+.
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~--~~g~~v~yi~~e~-~~~~rl~~~   59 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNAA--RQGKKVVYIDTEG-LSPERFKQI   59 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--hCCCeEEEEECCC-CCHHHHHHH
Confidence            357899999999999999998776554  3457889998876 777666553

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>TIGR00235 udk uridine kinase

Probab=94.66  E-value=0.026  Score=58.71  Aligned_cols=27  Identities=37%  Similarity=0.521  Sum_probs=23.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|+|+|..|.||||||+.+.....
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            457999999999999999999998654

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=94.63  E-value=0.047  Score=57.79  Aligned_cols=28  Identities=29%  Similarity=0.477  Sum_probs=25.5

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....+|||.|..|.|||||++.+.+..+
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~   58 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQ   58 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            5688999999999999999999998766

>PRK09183 transposase/IS protein; Provisional

Probab=94.63  E-value=0.15  Score=54.75  Aligned_cols=26  Identities=42%  Similarity=0.468  Sum_probs=22.2

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -..+.|+|..|+||||||.++.+...
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~  127 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAV  127 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence            34677999999999999999987654

>PHA00729 NTP-binding motif containing protein

Probab=94.63  E-value=0.046  Score=56.09  Aligned_cols=36  Identities=28%  Similarity=0.241  Sum_probs=29.5

Q ss_pred             HHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          159 NDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       159 ~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +.+++.+...+...|.|.|.+|+||||||..|-+..
T Consensus         6 k~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          6 KKIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            345666666667789999999999999999998864

>PRK05480 uridine/cytidine kinase; Provisional

Probab=94.58  E-value=0.033  Score=58.11  Aligned_cols=27  Identities=33%  Similarity=0.550  Sum_probs=24.1

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ....+|+|.|..|+||||||+.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999999865

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.58  E-value=0.036  Score=65.33  Aligned_cols=63  Identities=17%  Similarity=0.148  Sum_probs=47.5

Q ss_pred             CcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec
Q 000945          147 GYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS  209 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs  209 (1212)
                      ....++|.+..++.+..++..+.+ +.+-++|..|+||||+|+.+.+...-...+...||.|.+
T Consensus        12 ~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~s   75 (504)
T PRK14963         12 TFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECES   75 (504)
T ss_pred             CHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChh
Confidence            455678998888888888876554 456899999999999999999876533344556776654

>PRK05541 adenylylsulfate kinase; Provisional

Probab=94.54  E-value=0.043  Score=55.40  Aligned_cols=36  Identities=39%  Similarity=0.565  Sum_probs=29.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .-.+|.|+|+.|.||||+|+.+++...  ..+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~--~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLK--LKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHH--HcCCcEEEE
Confidence            345899999999999999999999876  456666665

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=94.51  E-value=0.2  Score=59.02  Aligned_cols=74  Identities=20%  Similarity=0.218  Sum_probs=46.8

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCC--EEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHc
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCD--EVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKK  247 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~--~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~  247 (1212)
                      ..-+-|+|..|+|||+||+++.+...  +.+.  .+.++..      ..+..++...+...        ....++++++.
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~--~~~~~~~v~yi~~------~~~~~~~~~~~~~~--------~~~~~~~~~~~  211 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYIL--EKNPNAKVVYVTS------EKFTNDFVNALRNN--------TMEEFKEKYRS  211 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH--HhCCCCeEEEEEH------HHHHHHHHHHHHcC--------cHHHHHHHHhc
Confidence            45688999999999999999999876  3332  2334332      23334444444211        12345566664


Q ss_pred             CCcEEEecCcccc
Q 000945          248 GKKILVLDNIWTS  260 (1212)
Q Consensus       248 ~kr~LVLDDVw~~  260 (1212)
                       -.+||+||+...
T Consensus       212 -~dlLiiDDi~~l  223 (450)
T PRK00149        212 -VDVLLIDDIQFL  223 (450)
T ss_pred             -CCEEEEehhhhh
Confidence             566699999754

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=94.45  E-value=0.16  Score=64.83  Aligned_cols=49  Identities=20%  Similarity=0.232  Sum_probs=40.6

Q ss_pred             CcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....++||+.+++.++..|....-.-+-+||..|+||||+|+.+..+..
T Consensus       171 ~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~  219 (852)
T TIGR03346       171 KLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIV  219 (852)
T ss_pred             CCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHh
Confidence            4456899999999999998755545566899999999999999888753

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.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=94.44  E-value=0.036  Score=56.06  Aligned_cols=27  Identities=44%  Similarity=0.519  Sum_probs=24.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+.+|||-|.+|.||||+|+.+++...
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~   33 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLG   33 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            467999999999999999999999776

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=94.44  E-value=0.2  Score=60.39  Aligned_cols=50  Identities=20%  Similarity=0.365  Sum_probs=40.1

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..++.|.+++..+.+ +.+-++|..|+||||+|+.+-+...
T Consensus        13 qtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLn   63 (830)
T PRK07003         13 KDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALN   63 (830)
T ss_pred             CcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3456788999999999998876553 4556999999999999998877653

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.42  E-value=1.9  Score=52.87  Aligned_cols=86  Identities=16%  Similarity=0.213  Sum_probs=48.2

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC--HHHHHHHHHHHhcCcccC-CChhHHHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD--VKRIQGDIADQLGLYICE-GSESERAMVLCGLLK  246 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~--~~~l~~~il~~l~~~~~~-~~~~~~~~~l~~~L~  246 (1212)
                      -.||+++|..|+||||.+.++-......+.-..+..++ .+.|.  ...-++...+.++..... .+..+... ..++++
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit-~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~-al~~~~  262 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLT-TDSFRIGALEQLRIYGRILGVPVHAVKDAADLRF-ALAALG  262 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEec-CcccchHHHHHHHHHHHhCCCCccccCCHHHHHH-HHHHhc
Confidence            36999999999999999988887653222122344443 33454  333334444455544332 23333333 334555


Q ss_pred             cCCcEEEecCcc
Q 000945          247 KGKKILVLDNIW  258 (1212)
Q Consensus       247 ~~kr~LVLDDVw  258 (1212)
                      + +.++++|=.-
T Consensus       263 ~-~D~VLIDTAG  273 (767)
T PRK14723        263 D-KHLVLIDTVG  273 (767)
T ss_pred             C-CCEEEEeCCC
Confidence            3 6666778554

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=94.41  E-value=0.05  Score=63.02  Aligned_cols=46  Identities=17%  Similarity=0.223  Sum_probs=40.4

Q ss_pred             cccchHHHHHHHHHHhC------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          150 AFESRKSILNDALDALS------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .++|.++.++.|++.|.      +..-.++.++|+.|+||||||+.+-+-.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le  128 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLME  128 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHH
Confidence            47899999999999883      55678999999999999999999998654

>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=94.39  E-value=0.19  Score=52.47  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=22.0

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|||.|..|.||||+|+.+.+...
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            589999999999999999998764

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

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

Probab=94.33  E-value=0.06  Score=55.81  Aligned_cols=52  Identities=21%  Similarity=0.296  Sum_probs=39.4

Q ss_pred             CCCcccccchHHHHHHHHHHhC-----CCCceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          145 SEGYEAFESRKSILNDALDALS-----NPNVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~-----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      +.....++|.++-++.+-=.+.     ...+.-|-++|++|+||||||.-|-|...+
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgv   78 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGV   78 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcC
Confidence            3445667888776666543333     456788999999999999999999998764

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=94.30  E-value=0.19  Score=60.31  Aligned_cols=49  Identities=22%  Similarity=0.394  Sum_probs=40.6

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++|.+..++.|.+++..+.+. .+-++|..|+||||+|+.+-+..
T Consensus        13 ~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~L   62 (709)
T PRK08691         13 KTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSL   62 (709)
T ss_pred             CCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            34667899999999999988866544 67899999999999999987754

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=94.30  E-value=0.014  Score=53.21  Aligned_cols=88  Identities=17%  Similarity=0.272  Sum_probs=62.0

Q ss_pred             ceeeeccCCccccccH---HHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhh
Q 000945          267 LEILSLVDSNIEQLPE---EMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQE  343 (1212)
Q Consensus       267 Lr~L~ls~~~i~~lp~---~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~  343 (1212)
                      +..++|+.+.+-.+++   .+....+|...+|++| .++.+|+....+..-+..|++.+|.+.            ..+.+
T Consensus        29 ~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N-~fk~fp~kft~kf~t~t~lNl~~neis------------dvPeE   95 (177)
T KOG4579|consen   29 LHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDN-GFKKFPKKFTIKFPTATTLNLANNEIS------------DVPEE   95 (177)
T ss_pred             hhhcccccchhhHHHHHHHHHhCCceEEEEecccc-hhhhCCHHHhhccchhhhhhcchhhhh------------hchHH
Confidence            4556777776665554   4445556666788888 788888875555557778888888773            45667


Q ss_pred             hhcCCCCCcceeeecccccCCCCc
Q 000945          344 LKLLSHLTTLEIQICDAMILPKGL  367 (1212)
Q Consensus       344 L~~l~~L~~L~l~~~~~~~~p~~~  367 (1212)
                      +..++.|+.+++.+|.+..+|+-+
T Consensus        96 ~Aam~aLr~lNl~~N~l~~~p~vi  119 (177)
T KOG4579|consen   96 LAAMPALRSLNLRFNPLNAEPRVI  119 (177)
T ss_pred             HhhhHHhhhcccccCccccchHHH
Confidence            777888888888888877777654

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=94.25  E-value=0.24  Score=58.23  Aligned_cols=50  Identities=20%  Similarity=0.329  Sum_probs=39.2

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..+..+...+..+.+ .-+-++|..|+||||+|+.+.+...
T Consensus        18 ~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Ln   68 (507)
T PRK06645         18 SNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVN   68 (507)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            3456678888888877776665543 4677999999999999999998754

>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=94.23  E-value=0.04  Score=45.27  Aligned_cols=23  Identities=39%  Similarity=0.504  Sum_probs=20.7

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +|+|.|..|.||||+|+.+-+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998873

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.

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=94.18  E-value=0.015  Score=52.97  Aligned_cols=88  Identities=17%  Similarity=0.278  Sum_probs=65.9

Q ss_pred             cceeeeccCCccccccHHHHhh-cccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQL-TQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL  344 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L-~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L  344 (1212)
                      +|...++++|.+..+|..|... .....|++++| .|..+|.+ +..+..|+.|+++.|.+.            ..+..+
T Consensus        54 el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~n-eisdvPeE-~Aam~aLr~lNl~~N~l~------------~~p~vi  119 (177)
T KOG4579|consen   54 ELTKISLSDNGFKKFPKKFTIKFPTATTLNLANN-EISDVPEE-LAAMPALRSLNLRFNPLN------------AEPRVI  119 (177)
T ss_pred             eEEEEecccchhhhCCHHHhhccchhhhhhcchh-hhhhchHH-HhhhHHhhhcccccCccc------------cchHHH
Confidence            5777899999999998887654 47888999999 89999998 899999999999998874            334444


Q ss_pred             hcCCCCCcceeeecccccCCCCc
Q 000945          345 KLLSHLTTLEIQICDAMILPKGL  367 (1212)
Q Consensus       345 ~~l~~L~~L~l~~~~~~~~p~~~  367 (1212)
                      ..|.+|-.|+...+....+|-|+
T Consensus       120 ~~L~~l~~Lds~~na~~eid~dl  142 (177)
T KOG4579|consen  120 APLIKLDMLDSPENARAEIDVDL  142 (177)
T ss_pred             HHHHhHHHhcCCCCccccCcHHH
Confidence            44556666666666555555553

>PRK06851 hypothetical protein; Provisional

Probab=94.18  E-value=0.48  Score=52.97  Aligned_cols=57  Identities=19%  Similarity=0.006  Sum_probs=39.4

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecC
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQ  210 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~  210 (1212)
                      .+..|++..   .+.++    .+--+++.|-|..|+|||||++.++.... ++-+++-++-|-+.
T Consensus       197 ~Tp~G~~s~---~~~l~----~~~~~~~~i~G~pG~GKstl~~~i~~~a~-~~G~~v~~~hC~~d  253 (367)
T PRK06851        197 ITPKGAVDF---VPSLT----EGVKNRYFLKGRPGTGKSTMLKKIAKAAE-ERGFDVEVYHCGFD  253 (367)
T ss_pred             cCCCcHHhh---HHhHh----cccceEEEEeCCCCCcHHHHHHHHHHHHH-hCCCeEEEEeCCCC
Confidence            344454433   44444    33457899999999999999999999875 35566666655543

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.16  E-value=0.17  Score=61.10  Aligned_cols=50  Identities=22%  Similarity=0.335  Sum_probs=40.3

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..++.+.+++..+.+ +.+-++|..|+||||+|+.+-+...
T Consensus        13 ~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~   63 (620)
T PRK14954         13 SKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVN   63 (620)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3456788999888888888876555 4478999999999999999887654

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=94.09  E-value=0.23  Score=52.44  Aligned_cols=47  Identities=19%  Similarity=0.315  Sum_probs=36.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQ  218 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~  218 (1212)
                      .-.++-|+|.+|.||||+|..+.....  ..-..++|++.. .++..++.
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~--~~~~~v~yi~~e-~~~~~r~~   68 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAA--KNGKKVIYIDTE-GLSPERFK   68 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--HCCCeEEEEECC-CCCHHHHH
Confidence            457899999999999999999877654  335778899876 67766654

>PRK08233 hypothetical protein; Provisional

Probab=94.08  E-value=0.04  Score=56.09  Aligned_cols=25  Identities=28%  Similarity=0.412  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..+|+|.|.+|.||||+|+.+....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998764

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.07  E-value=0.21  Score=59.32  Aligned_cols=49  Identities=20%  Similarity=0.297  Sum_probs=40.6

Q ss_pred             CCcccccchHHHHHHHHHHhCCCC-ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPN-VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~-~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++|.+..++.+..++..+. -+.+-++|..|+||||+|+.+-+..
T Consensus        12 ktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~L   61 (702)
T PRK14960         12 RNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCL   61 (702)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            446678999999999999988655 3567899999999999999987764

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

Probab=94.02  E-value=0.022  Score=66.52  Aligned_cols=84  Identities=26%  Similarity=0.402  Sum_probs=73.5

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK  345 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~  345 (1212)
                      .+..|++.+|.|..+...+..+.+|++|++++| .|..+..  +..+..|+.|++.+|.+.             .+..+.
T Consensus        96 ~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N-~I~~i~~--l~~l~~L~~L~l~~N~i~-------------~~~~~~  159 (414)
T KOG0531|consen   96 SLEALDLYDNKIEKIENLLSSLVNLQVLDLSFN-KITKLEG--LSTLTLLKELNLSGNLIS-------------DISGLE  159 (414)
T ss_pred             ceeeeeccccchhhcccchhhhhcchheecccc-ccccccc--hhhccchhhheeccCcch-------------hccCCc
Confidence            689999999999999877899999999999999 8988876  789999999999999985             456666


Q ss_pred             cCCCCCcceeeecccccCCC
Q 000945          346 LLSHLTTLEIQICDAMILPK  365 (1212)
Q Consensus       346 ~l~~L~~L~l~~~~~~~~p~  365 (1212)
                      .+..|+.+++.+|.+..+..
T Consensus       160 ~l~~L~~l~l~~n~i~~ie~  179 (414)
T KOG0531|consen  160 SLKSLKLLDLSYNRIVDIEN  179 (414)
T ss_pred             cchhhhcccCCcchhhhhhh
Confidence            78889999999998876665

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=94.00  E-value=0.16  Score=54.20  Aligned_cols=51  Identities=18%  Similarity=0.173  Sum_probs=38.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCC----CCEEEEEEecCCCCHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKL----CDEVVFVEVSQTPDVKRIQG  219 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~----F~~~~wv~vs~~~~~~~l~~  219 (1212)
                      .-.++.|+|..|.||||||..+.-.......    -..++|++....|+..++.+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~   72 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQ   72 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHH
Confidence            4578999999999999999998644322221    36889998888888766644

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 .

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=94.00  E-value=0.069  Score=67.46  Aligned_cols=51  Identities=20%  Similarity=0.229  Sum_probs=42.5

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ......++||+.++..+++.|......-+-+||.+|+||||+|+.+.....
T Consensus       183 ~~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~  233 (852)
T TIGR03345       183 EGKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIA  233 (852)
T ss_pred             CCCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHh
Confidence            344567899999999999998865555666999999999999999998753

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.97  E-value=0.23  Score=58.92  Aligned_cols=50  Identities=20%  Similarity=0.379  Sum_probs=40.7

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..++.|.+++..+.+. .+-++|..|+||||+|+.+-+...
T Consensus        13 qtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLn   63 (700)
T PRK12323         13 RDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLN   63 (700)
T ss_pred             CcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            34567889999999999988866544 567899999999999999887653

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=93.94  E-value=0.12  Score=49.51  Aligned_cols=39  Identities=23%  Similarity=0.260  Sum_probs=28.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecC
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQ  210 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~  210 (1212)
                      .+|+|+|.-|.|||||++.+.+... +..+...+......
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~-~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELK-RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH-HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh-HcCCceEEEEEccC
Confidence            4899999999999999999999876 24455555554443

>PRK06762 hypothetical protein; Provisional

Probab=93.91  E-value=0.05  Score=54.34  Aligned_cols=24  Identities=38%  Similarity=0.408  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|.|.|+.|.||||+|+.+.+..
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999865

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.90  E-value=0.33  Score=56.59  Aligned_cols=48  Identities=23%  Similarity=0.358  Sum_probs=38.6

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHH
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ....+++|.+..++.+.+.+..+.+. .+-++|..|+||||+|+.+-..
T Consensus        10 ~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~   58 (491)
T PRK14964         10 SSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLC   58 (491)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHH
Confidence            34567889988888887777766655 6889999999999999988664

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.87  E-value=0.29  Score=54.44  Aligned_cols=27  Identities=37%  Similarity=0.489  Sum_probs=23.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..++|+|+|.+|+||||++..+-....
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~  266 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH  266 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH
Confidence            347999999999999999999987654

>PRK10536 hypothetical protein; Provisional

Probab=93.86  E-value=0.14  Score=53.60  Aligned_cols=55  Identities=22%  Similarity=0.164  Sum_probs=41.9

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCE
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDE  202 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~  202 (1212)
                      .+..++.+|......++.++.+.  .+|.+.|..|.|||+||.++.-+.-....|+.
T Consensus        52 ~~~~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~k  106 (262)
T PRK10536         52 RDTSPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKDVDR  106 (262)
T ss_pred             cCCccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeE
Confidence            34556778888888888888753  58999999999999999998886432344443

>TIGR02012 tigrfam_recA protein RecA

Probab=93.83  E-value=0.24  Score=54.26  Aligned_cols=85  Identities=24%  Similarity=0.291  Sum_probs=53.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCccc------CCChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC------EGSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~------~~~~~~~~~~l~  242 (1212)
                      .-+++-|+|..|+||||||.++.....  ..=..++||..-..++..     .++.++.+..      ..+.++....+.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~--~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~  126 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQ--KAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAE  126 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--HcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            457889999999999999888665544  234567788776666653     3455554321      123344444444


Q ss_pred             HHHHcCCcEE-EecCcccc
Q 000945          243 GLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~~kr~L-VLDDVw~~  260 (1212)
                      ..++.+.--+ |+|.|-..
T Consensus       127 ~li~~~~~~lIVIDSv~al  145 (321)
T TIGR02012       127 TLVRSGAVDIIVVDSVAAL  145 (321)
T ss_pred             HHhhccCCcEEEEcchhhh
Confidence            4444433445 99987643

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.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=93.82  E-value=0.33  Score=48.13  Aligned_cols=40  Identities=30%  Similarity=0.392  Sum_probs=30.5

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD  213 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~  213 (1212)
                      ++.|+|..|.||||+|+.+-....  ..-..++|+.....+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIA--TKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHH--hcCCEEEEEECCcchH
Confidence            468999999999999999988765  3445667776655543

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=93.80  E-value=2.3  Score=54.24  Aligned_cols=45  Identities=20%  Similarity=0.311  Sum_probs=34.8

Q ss_pred             cccchHHHHHHHHHHhC-------CC--CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          150 AFESRKSILNDALDALS-------NP--NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~-------~~--~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .++|.+..++.+.+.+.       +.  ...++-++|..|+||||+|+.+.+..
T Consensus       569 ~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        569 RVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             eEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            36788888877777664       11  23578899999999999999999754

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.79  E-value=0.27  Score=58.23  Aligned_cols=50  Identities=18%  Similarity=0.320  Sum_probs=40.8

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..++.+.+++..+.+. .+-++|..|+||||+|+.+-+...
T Consensus        13 ~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~   63 (509)
T PRK14958         13 RCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLN   63 (509)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhc
Confidence            34567889999999999999766554 467999999999999999888653

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=93.75  E-value=0.24  Score=54.30  Aligned_cols=85  Identities=26%  Similarity=0.334  Sum_probs=53.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCccc------CCChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC------EGSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~------~~~~~~~~~~l~  242 (1212)
                      .-+++-|+|..|.||||||-.+.-...  ..-..++||..-..++..     .++.++.+..      ..+.++....+.
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~~--~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~  126 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEAQ--KLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIAD  126 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--HcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHH
Confidence            456888999999999999998765544  334678888877777753     3444444311      123344444444


Q ss_pred             HHHHcCCcEE-EecCcccc
Q 000945          243 GLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~~kr~L-VLDDVw~~  260 (1212)
                      ..++.+.--+ |+|.|-..
T Consensus       127 ~li~s~~~~lIVIDSvaal  145 (325)
T cd00983         127 SLVRSGAVDLIVVDSVAAL  145 (325)
T ss_pred             HHHhccCCCEEEEcchHhh
Confidence            4444434445 99987643

RecA couples ATP hydrolysis to DNA strand exchange.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=93.72  E-value=0.27  Score=53.66  Aligned_cols=85  Identities=22%  Similarity=0.297  Sum_probs=54.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCccc------CCChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC------EGSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~------~~~~~~~~~~l~  242 (1212)
                      .-+++-|+|..|+||||||-.+.....  +.-..++||.....++...     ++.++.+..      ..+.++....+.
T Consensus        52 ~G~ivEi~G~~ssGKttLaL~~ia~~q--~~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~~e  124 (322)
T PF00154_consen   52 RGRIVEIYGPESSGKTTLALHAIAEAQ--KQGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWIAE  124 (322)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH--HTT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHHHH
T ss_pred             cCceEEEeCCCCCchhhhHHHHHHhhh--cccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHHHH
Confidence            356899999999999999999998764  4457789999888777654     455555432      234445555555


Q ss_pred             HHHHcCCcEE-EecCcccc
Q 000945          243 GLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~~kr~L-VLDDVw~~  260 (1212)
                      .-++.+..-+ |+|.|-..
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            5566655556 88987654

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 ....

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=93.68  E-value=0.086  Score=59.19  Aligned_cols=51  Identities=16%  Similarity=0.092  Sum_probs=41.8

Q ss_pred             cCCCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHh
Q 000945          144 CSEGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+.....++|.++.++.+..++..+.. .++-++|..|+||||+|+++++..
T Consensus        16 rP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~   67 (316)
T PHA02544         16 RPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV   67 (316)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            345567788999999999998876554 566669999999999999999865

>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=93.67  E-value=0.31  Score=49.04  Aligned_cols=24  Identities=50%  Similarity=0.549  Sum_probs=21.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++.++|++|.||||+++.+.....
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~   25 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLK   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            788999999999999999988765

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.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=93.65  E-value=0.51  Score=49.94  Aligned_cols=49  Identities=20%  Similarity=0.234  Sum_probs=37.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCC------CEEEEEEecCCCCHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLC------DEVVFVEVSQTPDVKRIQG  219 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F------~~~~wv~vs~~~~~~~l~~  219 (1212)
                      .-.++.|+|..|.||||||..+--...  ..-      ..++|+.....|+..++.+
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~--~~~~~~g~~~~v~yi~~e~~~~~~rl~~   72 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQ--LPGELGGLEGKVVYIDTEGAFRPERLVQ   72 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhh--cccccCCCcceEEEEecCCCCCHHHHHH
Confidence            467899999999999999998865543  223      5678998888888766643

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.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=93.59  E-value=0.07  Score=54.64  Aligned_cols=63  Identities=21%  Similarity=0.197  Sum_probs=38.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE--Ee-----cCCCCHHHHH--HHHHHHhcCcccC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV--EV-----SQTPDVKRIQ--GDIADQLGLYICE  231 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv--~v-----s~~~~~~~l~--~~il~~l~~~~~~  231 (1212)
                      ....|-++||+|.||||..|.++.....+..=..++-+  .|     .-+-|+++..  ++.+++.+....+
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNG   89 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNG   89 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCc
Confidence            45578899999999999999999988733222222222  11     1233454433  4677776665443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=93.59  E-value=0.26  Score=59.40  Aligned_cols=50  Identities=20%  Similarity=0.349  Sum_probs=40.1

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....|+|.+..++.+.+.+..+.+. .+-++|..|+||||+|+.+.+...
T Consensus        13 ~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~   63 (647)
T PRK07994         13 QTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLN   63 (647)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhh
Confidence            34567889999898888888766654 356899999999999999987654

>PRK04040 adenylate kinase; Provisional

Probab=93.55  E-value=0.065  Score=54.34  Aligned_cols=25  Identities=32%  Similarity=0.518  Sum_probs=22.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|+|+|+.|+||||+++.+.....
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            5899999999999999999988763

>PRK03839 putative kinase; Provisional

Probab=93.54  E-value=0.059  Score=54.63  Aligned_cols=24  Identities=33%  Similarity=0.598  Sum_probs=21.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|.|.||.|.||||+|+.+.+...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999999764

>PRK09354 recA recombinase A; Provisional

Probab=93.47  E-value=0.23  Score=54.93  Aligned_cols=85  Identities=24%  Similarity=0.295  Sum_probs=54.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCccc------CCChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC------EGSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~------~~~~~~~~~~l~  242 (1212)
                      .-+++=|+|..|.||||||-++.-...  ..=..++||..-..++..     .++.++.+..      ..+.++....+.
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~~--~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~~  131 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEAQ--KAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIAD  131 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--HcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            456888999999999999998766544  334778898887777753     3455554321      123444444454


Q ss_pred             HHHHcCCcEE-EecCcccc
Q 000945          243 GLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~~kr~L-VLDDVw~~  260 (1212)
                      ..++.++--+ |+|.|-..
T Consensus       132 ~li~s~~~~lIVIDSvaaL  150 (349)
T PRK09354        132 TLVRSGAVDLIVVDSVAAL  150 (349)
T ss_pred             HHhhcCCCCEEEEeChhhh
Confidence            4444444445 99987643

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

Probab=93.45  E-value=0.077  Score=52.96  Aligned_cols=52  Identities=13%  Similarity=0.066  Sum_probs=41.4

Q ss_pred             ccCCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          143 MCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       143 ~~~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..+.....|+|.++.++.+--+-.++++.-+-|-||+|+||||=+..+....
T Consensus        21 YrP~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~L   72 (333)
T KOG0991|consen   21 YRPSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLAREL   72 (333)
T ss_pred             hCchHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHH
Confidence            3344566789998888877777778899999999999999999777666543

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=93.43  E-value=0.055  Score=54.39  Aligned_cols=23  Identities=39%  Similarity=0.625  Sum_probs=21.1

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ||+|.|..|.||||+|+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999864

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=93.34  E-value=0.15  Score=55.18  Aligned_cols=26  Identities=35%  Similarity=0.266  Sum_probs=22.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...-+-++|..|+||||+|+.+.+..
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            34557799999999999999998864

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.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=93.33  E-value=0.054  Score=55.92  Aligned_cols=23  Identities=43%  Similarity=0.650  Sum_probs=20.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ||||.|..|.||||||+.+.+-.
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999997754

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.

>cd01878 HflX HflX subfamily

Probab=93.30  E-value=0.2  Score=51.97  Aligned_cols=27  Identities=22%  Similarity=0.326  Sum_probs=23.8

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....|+|+|.+|+|||||.+.+.+..
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            456789999999999999999998864

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=93.27  E-value=0.073  Score=54.48  Aligned_cols=26  Identities=23%  Similarity=0.267  Sum_probs=23.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++.+|.|+|..|+||||+|+.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999998653

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.

>PRK13695 putative NTPase; Provisional

Probab=93.26  E-value=0.11  Score=52.28  Aligned_cols=34  Identities=32%  Similarity=0.317  Sum_probs=26.5

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .|+|.|.+|+|||||++.+++.... ..|....|+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~~-~G~~~~g~~   35 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLKE-EGYKVGGFY   35 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEE
Confidence            3789999999999999999987653 345555555

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=93.25  E-value=0.31  Score=57.85  Aligned_cols=76  Identities=20%  Similarity=0.240  Sum_probs=47.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      ...+-|||-.|+|||.|+++|.+.......--.+.++.      ...+..++...+...        ....+++++.+ -
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit------aeef~~el~~al~~~--------~~~~f~~~y~~-~  378 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS------SEEFTNEFINSIRDG--------KGDSFRRRYRE-M  378 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee------HHHHHHHHHHHHHhc--------cHHHHHHHhhc-C
Confidence            34589999999999999999999865211112234443      234444554444211        12345566664 5


Q ss_pred             cEEEecCcccc
Q 000945          250 KILVLDNIWTS  260 (1212)
Q Consensus       250 r~LVLDDVw~~  260 (1212)
                      -+||+||+...
T Consensus       379 DLLlIDDIq~l  389 (617)
T PRK14086        379 DILLVDDIQFL  389 (617)
T ss_pred             CEEEEehhccc
Confidence            67799999765

>cd01394 radB RadB

Probab=93.18  E-value=0.37  Score=50.63  Aligned_cols=43  Identities=19%  Similarity=0.264  Sum_probs=32.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD  213 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~  213 (1212)
                      .-.++-|.|.+|+||||+|..+.....  ..=..++|+.....++
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~--~~g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVETA--GQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEECCCCCH
Confidence            457899999999999999999876554  2234667887655554

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=93.17  E-value=0.11  Score=56.21  Aligned_cols=27  Identities=26%  Similarity=0.308  Sum_probs=23.0

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...-+|||.|..|+||||+|+.+-.-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999998876544

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.

>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=93.16  E-value=0.085  Score=51.11  Aligned_cols=24  Identities=46%  Similarity=0.582  Sum_probs=20.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|-++|+.|.||||+|+.+.....
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            578999999999999999987543

...

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=93.13  E-value=0.068  Score=48.54  Aligned_cols=23  Identities=43%  Similarity=0.455  Sum_probs=20.1

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |-|+|.+|+|||++|+.+..+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~   23 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLL   23 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999887765

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

>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=93.12  E-value=0.093  Score=50.62  Aligned_cols=34  Identities=38%  Similarity=0.342  Sum_probs=27.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .||-|.|..|.||||||++++....  ..-..+.++
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~--~~g~~~~~L   36 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLF--ARGIKVYLL   36 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHH--HTTS-EEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH--HcCCcEEEe
Confidence            5889999999999999999999876  333445555

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 ....

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=93.03  E-value=0.1  Score=59.85  Aligned_cols=51  Identities=25%  Similarity=0.299  Sum_probs=39.0

Q ss_pred             CCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ......+.|+++.++++.+.+.    .         ...+-|-++|..|+|||++|+++.+...
T Consensus       127 ~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~  190 (389)
T PRK03992        127 NVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN  190 (389)
T ss_pred             CCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhC
Confidence            3344567899999988877653    1         2345588999999999999999998764

>PRK10867 signal recognition particle protein; Provisional

Probab=92.90  E-value=5.3  Score=46.11  Aligned_cols=58  Identities=28%  Similarity=0.277  Sum_probs=35.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHH--HHHHHHHhcCc
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRI--QGDIADQLGLY  228 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l--~~~il~~l~~~  228 (1212)
                      ...+|.++|..|+||||.|-.+-....  .....++.+.-.+.|....+  ++...+..+..
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~--~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~  158 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLK--KKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVP  158 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH--HhcCCcEEEEEccccchHHHHHHHHHHhhcCCe
Confidence            467999999999999998777766544  22233444444455655432  23344555443

>PRK00625 shikimate kinase; Provisional

Probab=92.88  E-value=0.084  Score=52.57  Aligned_cols=24  Identities=38%  Similarity=0.504  Sum_probs=20.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|-++||.|+||||+|+.+-+...
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999977653

>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=92.86  E-value=0.26  Score=47.41  Aligned_cols=43  Identities=28%  Similarity=0.327  Sum_probs=31.9

Q ss_pred             EEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGD  220 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~  220 (1212)
                      |-++|..|+|||+||+.+.....     ....-+.++...+..++...
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~-----~~~~~i~~~~~~~~~dl~g~   44 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLG-----RPVIRINCSSDTTEEDLIGS   44 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHT-----CEEEEEE-TTTSTHHHHHCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh-----cceEEEEeccccccccceee
Confidence            46899999999999999998763     23344577888887776543

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.

>TIGR00003 copper ion binding protein

Probab=92.81  E-value=0.71  Score=36.61  Aligned_cols=60  Identities=13%  Similarity=0.127  Sum_probs=47.9

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcC
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLC 1176 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~ 1176 (1212)
                      +++.++|. ++|..|...+.+.+...+||....++...++++|..+   .+...+...+...+.
T Consensus         2 ~~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~   65 (68)
T TIGR00003         2 QKFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGY   65 (68)
T ss_pred             cEEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCC
Confidence            45678887 8999999999999999999999999999988887642   566666666655443

This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=92.79  E-value=0.2  Score=56.26  Aligned_cols=77  Identities=18%  Similarity=0.146  Sum_probs=49.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKG  248 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~  248 (1212)
                      ....+-|||..|.|||.|++++.|...  .+......++++.    .....+++..+..        ......+++. . 
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~--~~~~~a~v~y~~s----e~f~~~~v~a~~~--------~~~~~Fk~~y-~-  175 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEAL--ANGPNARVVYLTS----EDFTNDFVKALRD--------NEMEKFKEKY-S-  175 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHH--hhCCCceEEeccH----HHHHHHHHHHHHh--------hhHHHHHHhh-c-
Confidence            478899999999999999999999877  5555444455543    2223333333221        2344556666 4 


Q ss_pred             CcEEEecCccccc
Q 000945          249 KKILVLDNIWTSL  261 (1212)
Q Consensus       249 kr~LVLDDVw~~~  261 (1212)
                      -.+|++||++...
T Consensus       176 ~dlllIDDiq~l~  188 (408)
T COG0593         176 LDLLLIDDIQFLA  188 (408)
T ss_pred             cCeeeechHhHhc
Confidence            5566889988653

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.78  E-value=0.16  Score=57.89  Aligned_cols=49  Identities=24%  Similarity=0.349  Sum_probs=40.0

Q ss_pred             CcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....++|.+..++.+.+.+..+.+ +.+-++|..|+||||+|+.+.+...
T Consensus        14 ~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~   63 (363)
T PRK14961         14 YFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN   63 (363)
T ss_pred             chhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc
Confidence            455688999999988888876554 4678999999999999999988653

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=92.73  E-value=0.4  Score=57.29  Aligned_cols=53  Identities=23%  Similarity=0.196  Sum_probs=36.1

Q ss_pred             ccCCCcccccchHHHHHHHHHHh---CC---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          143 MCSEGYEAFESRKSILNDALDAL---SN---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       143 ~~~~~~~~i~gr~~~~~~l~~~L---~~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+......+.|.++.++++.+++   ..         ...+-+-++|..|.||||+|+++.+...
T Consensus        49 ~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~  113 (495)
T TIGR01241        49 KPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAG  113 (495)
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcC
Confidence            34445566778777766555433   21         1123477899999999999999988654

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.73  E-value=0.6  Score=51.88  Aligned_cols=87  Identities=23%  Similarity=0.236  Sum_probs=47.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCH--HHHHHHHHHHhcCcccC-CChhHHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDV--KRIQGDIADQLGLYICE-GSESERAMVLCGLL  245 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~--~~l~~~il~~l~~~~~~-~~~~~~~~~l~~~L  245 (1212)
                      ...+|.|+|..|+||||++..+-.....+.  ..+++|+. +.|..  ..-++...+.++..... .+..+....+ +++
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g--~~V~lIta-DtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al-~~l  280 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQN--RTVGFITT-DTFRSGAVEQFQGYADKLDVELIVATSPAELEEAV-QYM  280 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeC-CccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHH-HHH
Confidence            467999999999999999999877654222  23455544 44543  33344444444443222 2333333333 334


Q ss_pred             H--cCCcEEEecCccc
Q 000945          246 K--KGKKILVLDNIWT  259 (1212)
Q Consensus       246 ~--~~kr~LVLDDVw~  259 (1212)
                      +  ++..++++|-.-.
T Consensus       281 ~~~~~~D~VLIDTAGr  296 (407)
T PRK12726        281 TYVNCVDHILIDTVGR  296 (407)
T ss_pred             HhcCCCCEEEEECCCC
Confidence            3  2245557775543

>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=92.69  E-value=0.041  Score=33.22  Aligned_cols=18  Identities=33%  Similarity=0.639  Sum_probs=8.5

Q ss_pred             ceeeeccCCccccccHHH
Q 000945          267 LEILSLVDSNIEQLPEEM  284 (1212)
Q Consensus       267 Lr~L~ls~~~i~~lp~~i  284 (1212)
                      |++||+++|.++.+|.+|
T Consensus         2 L~~Ldls~n~l~~ip~~~   19 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSSF   19 (22)
T ss_dssp             ESEEEETSSEESEEGTTT
T ss_pred             ccEEECCCCcCEeCChhh
Confidence            444555555444444443

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 ....

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.68  E-value=0.013  Score=59.98  Aligned_cols=54  Identities=20%  Similarity=0.220  Sum_probs=23.2

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEE
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELR  833 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~  833 (1212)
                      +.+.+.|+..|+.+..+.    ....++.|..|.|+-|.+.++.+  +..|+.|++|+|.
T Consensus        18 l~~vkKLNcwg~~L~DIs----ic~kMp~lEVLsLSvNkIssL~p--l~rCtrLkElYLR   71 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDIS----ICEKMPLLEVLSLSVNKISSLAP--LQRCTRLKELYLR   71 (388)
T ss_pred             HHHhhhhcccCCCccHHH----HHHhcccceeEEeeccccccchh--HHHHHHHHHHHHH
Confidence            344555555555554442    12234444444444444444332  3344444444444

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=92.68  E-value=0.15  Score=49.70  Aligned_cols=34  Identities=24%  Similarity=0.225  Sum_probs=26.6

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      ||+|+|+.|.|||||++++....+. ..+...+.-
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~-~G~~V~viK   34 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKA-RGYRVATIK   34 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEEe
Confidence            6899999999999999999998762 345544443

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.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.66  E-value=0.57  Score=55.96  Aligned_cols=48  Identities=23%  Similarity=0.407  Sum_probs=39.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHHh
Q 000945          147 GYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ....++|.+..++.+..++..+.+. .+-++|..|+||||+|+.+-...
T Consensus        14 ~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (527)
T PRK14969         14 SFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSL   62 (527)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4556889999899888888866554 45799999999999999987765

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

Probab=92.65  E-value=0.36  Score=56.52  Aligned_cols=73  Identities=29%  Similarity=0.291  Sum_probs=48.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCC--CCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcC
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQT--PDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKG  248 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~--~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~  248 (1212)
                      .-|-|.|..|+|||+||+++++... +.+.-++.+|.+|.-  -.+.++|+.+-.-+                -+.+..+
T Consensus       432 ~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vf----------------se~~~~~  494 (952)
T KOG0735|consen  432 GNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNNVF----------------SEALWYA  494 (952)
T ss_pred             ccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHHHH----------------HHHHhhC
Confidence            4577999999999999999999887 556666666766642  23555655544332                2233332


Q ss_pred             CcEEEecCcccc
Q 000945          249 KKILVLDNIWTS  260 (1212)
Q Consensus       249 kr~LVLDDVw~~  260 (1212)
                      --+.||||+...
T Consensus       495 PSiIvLDdld~l  506 (952)
T KOG0735|consen  495 PSIIVLDDLDCL  506 (952)
T ss_pred             CcEEEEcchhhh
Confidence            344499999755

>TIGR00602 rad24 checkpoint protein rad24

Probab=92.64  E-value=0.13  Score=61.95  Aligned_cols=53  Identities=19%  Similarity=0.206  Sum_probs=42.7

Q ss_pred             ccCCCcccccchHHHHHHHHHHhCC-----CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          143 MCSEGYEAFESRKSILNDALDALSN-----PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       143 ~~~~~~~~i~gr~~~~~~l~~~L~~-----~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+.....+.|.++.++++..|+..     ....++.|+|..|.||||+++.+.+...
T Consensus        78 yrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        78 YKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3456677788999988888888863     2346799999999999999999998653

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.63  E-value=0.41  Score=54.05  Aligned_cols=25  Identities=28%  Similarity=0.216  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..+|.|+|.+|+||||+|..+-...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999987654

>PRK05439 pantothenate kinase; Provisional

Probab=92.58  E-value=1  Score=49.22  Aligned_cols=28  Identities=25%  Similarity=0.344  Sum_probs=24.2

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...-+|||-|..|+||||+|+.+..-..
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~  111 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLS  111 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4677999999999999999999887543

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=92.57  E-value=0.12  Score=50.99  Aligned_cols=27  Identities=26%  Similarity=0.357  Sum_probs=24.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+++|+|..|.|||||++.+.....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~   31 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALC   31 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHh
Confidence            467999999999999999999998765

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=92.56  E-value=0.038  Score=56.74  Aligned_cols=64  Identities=23%  Similarity=0.160  Sum_probs=34.7

Q ss_pred             cccCcccEEEEecC--CCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcc
Q 000945          879 SITENLESLEVWWC--ENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       879 ~~l~~L~~L~l~~c--~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      -.+++|+.|.++.+  .-...++.....+|+|++|++++ +.+..+-+..-+..+.+|..|++.+|+
T Consensus        62 P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~-Nki~~lstl~pl~~l~nL~~Ldl~n~~  127 (260)
T KOG2739|consen   62 PKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSG-NKIKDLSTLRPLKELENLKSLDLFNCS  127 (260)
T ss_pred             CCcchhhhhcccCCcccccccceehhhhCCceeEEeecC-CccccccccchhhhhcchhhhhcccCC
Confidence            34566677777665  33344444445557777777777 345443322333444455555555554

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=92.55  E-value=3  Score=47.81  Aligned_cols=43  Identities=30%  Similarity=0.289  Sum_probs=29.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDV  214 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~  214 (1212)
                      ...||.++|..|+||||+|..+....+- ..+  ++.+.-.+.|..
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~-~G~--kV~lV~~D~~R~  141 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQR-KGF--KPCLVCADTFRA  141 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH-CCC--CEEEEcCcccch
Confidence            3679999999999999999988776552 223  334433445554

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.

>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=92.55  E-value=0.086  Score=53.11  Aligned_cols=24  Identities=46%  Similarity=0.667  Sum_probs=21.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|+|.|..|.||||||+.+.....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~   24 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLR   24 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999998765

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=92.55  E-value=0.092  Score=53.54  Aligned_cols=26  Identities=31%  Similarity=0.497  Sum_probs=22.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.++||+|..|.||||||+.+-.=.
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhccc
Confidence            34579999999999999999987643

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=92.49  E-value=0.16  Score=51.34  Aligned_cols=66  Identities=20%  Similarity=0.251  Sum_probs=39.2

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLL  245 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L  245 (1212)
                      .|+|.|-||+||||+|..+-....-+.-|+. .=|....++++.       ++++.+.......+..+.++++.
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~V-LvVDaDpd~nL~-------~~LGve~~~~~lg~~~e~~~k~~   67 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNV-LVVDADPDSNLP-------EALGVEEPMKYLGGKRELLKKRT   67 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCceE-EEEeCCCCCChH-------HhcCCCCCCcccccHHHHHHHHh
Confidence            6899999999999999996655443332443 223444466643       45666554333444444444443

>TIGR00763 lon ATP-dependent protease La

Probab=92.49  E-value=1.3  Score=55.98  Aligned_cols=45  Identities=24%  Similarity=0.314  Sum_probs=36.7

Q ss_pred             ccchHHHHHHHHHHhC------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          151 FESRKSILNDALDALS------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++|.++.++.|.+++.      ...-.++.++|..|+||||+|+.+-+...
T Consensus       322 ~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~  372 (775)
T TIGR00763       322 HYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALN  372 (775)
T ss_pred             cCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            6788888888888664      22345799999999999999999998764

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.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=92.47  E-value=0.45  Score=52.49  Aligned_cols=59  Identities=22%  Similarity=0.301  Sum_probs=42.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhc----CCCCEEEEEEecCCCCHHHHHHHHHHHhcCc
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKL----KLCDEVVFVEVSQTPDVKRIQGDIADQLGLY  228 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~----~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~  228 (1212)
                      .-+++-|+|..|+|||||+..+.-.....    ..=..++||+.-..|+..++.+ +++.++.+
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d  157 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVD  157 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            45788899999999999997654322211    1124789999999999998864 56666544

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=92.45  E-value=4.9  Score=43.27  Aligned_cols=26  Identities=23%  Similarity=0.508  Sum_probs=23.9

Q ss_pred             CCCceEEEEEecCCCchhHHHHHHHH
Q 000945          167 NPNVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       167 ~~~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      |.+...|-|.|++-|||+||++.|=.
T Consensus       165 dp~~pTivVaG~PNVGKSSlv~~lT~  190 (346)
T COG1084         165 DPDLPTIVVAGYPNVGKSSLVRKLTT  190 (346)
T ss_pred             CCCCCeEEEecCCCCcHHHHHHHHhc
Confidence            56889999999999999999999976

>PRK06217 hypothetical protein; Validated

Probab=92.41  E-value=0.1  Score=53.02  Aligned_cols=24  Identities=29%  Similarity=0.364  Sum_probs=21.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|.|.|+.|.||||+|+.+-....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999998764

>PRK00889 adenylylsulfate kinase; Provisional

Probab=92.39  E-value=0.13  Score=51.88  Aligned_cols=27  Identities=30%  Similarity=0.420  Sum_probs=24.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|.|.|..|.||||+|+.+.....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~   29 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLR   29 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            346899999999999999999999765

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=92.38  E-value=0.79  Score=52.39  Aligned_cols=85  Identities=19%  Similarity=0.245  Sum_probs=45.8

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHH--HHHHHHhcCcccC-CChhHHHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQ--GDIADQLGLYICE-GSESERAMVLCGLLK  246 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~--~~il~~l~~~~~~-~~~~~~~~~l~~~L~  246 (1212)
                      -.+|+++|..|+||||++..+-........-+...+++ .+.|.+..+.  ....+-++..... .+..+. ......+.
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~-~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl-~~al~~l~  268 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLT-TDSYRIGGHEQLRIYGKLLGVSVRSIKDIADL-QLMLHELR  268 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEe-cCCcchhHHHHHHHHHHHcCCceecCCCHHHH-HHHHHHhc
Confidence            46999999999999999998876432222223444443 3445543332  2233344433322 222232 23344555


Q ss_pred             cCCcEEEecCc
Q 000945          247 KGKKILVLDNI  257 (1212)
Q Consensus       247 ~~kr~LVLDDV  257 (1212)
                      + +.+..+|-.
T Consensus       269 ~-~d~VLIDTa  278 (420)
T PRK14721        269 G-KHMVLIDTV  278 (420)
T ss_pred             C-CCEEEecCC
Confidence            3 555566753

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.36  E-value=0.6  Score=52.92  Aligned_cols=89  Identities=16%  Similarity=0.049  Sum_probs=48.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcC-CCCEEEEEEecCCCCHHHHH--HHHHHHhcCcccCC-ChhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK-LCDEVVFVEVSQTPDVKRIQ--GDIADQLGLYICEG-SESERAMVLCGL  244 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~-~F~~~~wv~vs~~~~~~~l~--~~il~~l~~~~~~~-~~~~~~~~l~~~  244 (1212)
                      .-.+|.++|..|+||||.+..+-....... .-...+.+--.+.|......  +...+.++...... +..+....+ .+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L-~~  251 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEI-TQ  251 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHH-HH
Confidence            346999999999999999998877654221 12234444334456554432  23333344432222 222332222 33


Q ss_pred             HHcCCcEEEecCccc
Q 000945          245 LKKGKKILVLDNIWT  259 (1212)
Q Consensus       245 L~~~kr~LVLDDVw~  259 (1212)
                      +. +..++++|..-.
T Consensus       252 ~~-~~DlVLIDTaGr  265 (388)
T PRK12723        252 SK-DFDLVLVDTIGK  265 (388)
T ss_pred             hC-CCCEEEEcCCCC
Confidence            43 255558887643

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=92.33  E-value=0.78  Score=46.80  Aligned_cols=36  Identities=22%  Similarity=0.214  Sum_probs=27.2

Q ss_pred             HHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          160 DALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       160 ~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+.+.+..+.+ ..+-++|..|+||||+|+.+-+...
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~   39 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALL   39 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHc
Confidence            34455555555 5688999999999999999877653

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.

>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=92.30  E-value=0.17  Score=50.18  Aligned_cols=66  Identities=14%  Similarity=0.273  Sum_probs=38.2

Q ss_pred             cchHHHHHHHHHHhC---CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec-CCCCHHHHHHHHH
Q 000945          152 ESRKSILNDALDALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS-QTPDVKRIQGDIA  222 (1212)
Q Consensus       152 ~gr~~~~~~l~~~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs-~~~~~~~l~~~il  222 (1212)
                      +|....+.++++.+.   ..+..|+ |+|-.|.||+.+|+.|++.-.  ..  ..-||.|. ..++...+-.+++
T Consensus         2 iG~s~~m~~~~~~~~~~a~~~~pVl-I~GE~GtGK~~lA~~IH~~s~--r~--~~pfi~vnc~~~~~~~~e~~LF   71 (168)
T PF00158_consen    2 IGESPAMKRLREQAKRAASSDLPVL-ITGETGTGKELLARAIHNNSP--RK--NGPFISVNCAALPEELLESELF   71 (168)
T ss_dssp             S--SHHHHHHHHHHHHHTTSTS-EE-EECSTTSSHHHHHHHHHHCST--TT--TS-EEEEETTTS-HHHHHHHHH
T ss_pred             EeCCHHHHHHHHHHHHHhCCCCCEE-EEcCCCCcHHHHHHHHHHhhh--cc--cCCeEEEehhhhhcchhhhhhh
Confidence            456666666666554   4455555 999999999999999999533  11  12344442 2344444444444

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 ....

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=92.25  E-value=0.16  Score=60.22  Aligned_cols=49  Identities=24%  Similarity=0.333  Sum_probs=40.4

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ....+++|++..++.+.+++..+.+. .+-++|+.|+||||+|+.+-+..
T Consensus        13 ~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L   62 (605)
T PRK05896         13 HNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAI   62 (605)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            44667889999999999988755444 67799999999999999988765

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=92.20  E-value=0.57  Score=54.05  Aligned_cols=101  Identities=19%  Similarity=0.262  Sum_probs=63.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCcc----cCCChh--------
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLYI----CEGSES--------  235 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~~----~~~~~~--------  235 (1212)
                      .=..++|+|-.|+|||||+..+-+.... .+-+.++++-+-+..+ +..+..++...-..+.    ...+++        
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~~-~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a  220 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNISK-QHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRV  220 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHh-hCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHH
Confidence            3456899999999999999888876653 3678999988876654 5566666654321110    011111        


Q ss_pred             -HHHHHHHHHHHc--CCcEE-EecCccccccccccceeeecc
Q 000945          236 -ERAMVLCGLLKK--GKKIL-VLDNIWTSLDLDKKLEILSLV  273 (1212)
Q Consensus       236 -~~~~~l~~~L~~--~kr~L-VLDDVw~~~~~~~~Lr~L~ls  273 (1212)
                       ..+..+-++++.  ||.+| ++||+-.-.+   .+|...+.
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLl~~DslTR~A~---A~REisl~  259 (461)
T PRK12597        221 VLTGLTIAEYLRDEEKEDVLLFIDNIFRFVQ---AGSEVSGL  259 (461)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEeccchHHHH---HHHHHHHh
Confidence             123345566642  69999 9999865433   45555443

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.15  E-value=0.18  Score=58.07  Aligned_cols=50  Identities=20%  Similarity=0.300  Sum_probs=40.8

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..+..+..++..+.+. .+-++|..|+||||+|+.+.+...
T Consensus        15 ~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Ln   65 (484)
T PRK14956         15 QFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN   65 (484)
T ss_pred             CCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            34566889988888888888876654 578999999999999999988643

>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]

Probab=92.06  E-value=0.35  Score=59.08  Aligned_cols=63  Identities=17%  Similarity=0.267  Sum_probs=56.1

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cC-HHHHHHHHHhhcCceEE
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---ID-AVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d-~~~~~~~l~k~~~~~~~ 1180 (1212)
                      +++.+.|+ |+|..|..++. ++.+++||..+.++...++++|..+   .+ +..+..++++.++.+..
T Consensus         2 ~~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~~~   69 (713)
T COG2217           2 RETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAGYSARL   69 (713)
T ss_pred             ceeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHHhcCccccc
Confidence            35678887 99999999999 9999999999999999999998865   56 78999999999997765

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=92.03  E-value=0.14  Score=47.53  Aligned_cols=68  Identities=19%  Similarity=0.152  Sum_probs=38.6

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHc
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKK  247 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~  247 (1212)
                      .-|-|.|.+|+||||+|+.|-....    |   -|+++|+--..+.+...-=++.  +....+++...+.|...+..
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~~----~---~~i~isd~vkEn~l~~gyDE~y--~c~i~DEdkv~D~Le~~m~~   75 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKTG----L---EYIEISDLVKENNLYEGYDEEY--KCHILDEDKVLDELEPLMIE   75 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHhC----C---ceEehhhHHhhhcchhcccccc--cCccccHHHHHHHHHHHHhc
Confidence            4577999999999999999986443    2   3777775333322222211111  01113444555666666654

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=92.01  E-value=0.4  Score=48.83  Aligned_cols=23  Identities=48%  Similarity=0.585  Sum_probs=20.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      ..+|||.||.|.||||.|+..-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            36899999999999999998766

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=91.98  E-value=0.13  Score=52.18  Aligned_cols=25  Identities=28%  Similarity=0.320  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|+|+.|+||||+|+.+.....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999987643

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.

>CHL00181 cbbX CbbX; Provisional

Probab=91.95  E-value=0.32  Score=53.10  Aligned_cols=38  Identities=26%  Similarity=0.242  Sum_probs=25.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS  209 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs  209 (1212)
                      .|-++|..|+||||+|+.+.........-...-|+.|+
T Consensus        61 ~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~   98 (287)
T CHL00181         61 HMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVT   98 (287)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEec
Confidence            47789999999999999998764321211222366666

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.94  E-value=0.023  Score=55.74  Aligned_cols=87  Identities=13%  Similarity=0.132  Sum_probs=46.6

Q ss_pred             ccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccccc
Q 000945          619 NLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTT  698 (1212)
Q Consensus       619 ~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  698 (1212)
                      .++.++-+++.+...-...+  ..++.++.|.+.+|..+.+---..+-+-.++|+.|+|++|+.|++-+.       ...
T Consensus       102 ~IeaVDAsds~I~~eGle~L--~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL-------~~L  172 (221)
T KOG3864|consen  102 KIEAVDASDSSIMYEGLEHL--RDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGL-------ACL  172 (221)
T ss_pred             eEEEEecCCchHHHHHHHHH--hccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHH-------HHH
Confidence            35555555553332221111  146677777777776665421111122356777777777777665432       133


Q ss_pred             ccCCccceeecccCCc
Q 000945          699 FVFPKVTFLKLWNLSE  714 (1212)
Q Consensus       699 ~~~~~L~~L~l~~~~~  714 (1212)
                      ..|++|+.|.|.++|.
T Consensus       173 ~~lknLr~L~l~~l~~  188 (221)
T KOG3864|consen  173 LKLKNLRRLHLYDLPY  188 (221)
T ss_pred             HHhhhhHHHHhcCchh
Confidence            4466666666666654

>PRK14974 cell division protein FtsY; Provisional

Probab=91.92  E-value=2.1  Score=47.52  Aligned_cols=57  Identities=30%  Similarity=0.317  Sum_probs=34.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHH--HHHHHHHHhcCc
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKR--IQGDIADQLGLY  228 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~--l~~~il~~l~~~  228 (1212)
                      ...+|.++|+.|+||||++..+....+- ..+. ++.+ -.+.|....  -++.....++..
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~-~g~~-V~li-~~Dt~R~~a~eqL~~~a~~lgv~  197 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKK-NGFS-VVIA-AGDTFRAGAIEQLEEHAERLGVK  197 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHH-cCCe-EEEe-cCCcCcHHHHHHHHHHHHHcCCc
Confidence            4679999999999999988888766542 3342 2333 234454432  233445555543

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.92  E-value=0.035  Score=54.52  Aligned_cols=69  Identities=16%  Similarity=0.110  Sum_probs=39.2

Q ss_pred             CCCCccccCcccEEEEecCCCcccccC--CccccCCccEEeeccccCcccccchhhhcccccccEEEecCcc
Q 000945          874 DSKLDSITENLESLEVWWCENLINLVP--SSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       874 ~~~~~~~l~~L~~L~l~~c~~l~~lp~--~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      +...+..+++++.|.+.+|..+...--  -.+-.++|+.|+|++|+.+++-. ...+..+++|+.|.|++-+
T Consensus       117 Gle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~G-L~~L~~lknLr~L~l~~l~  187 (221)
T KOG3864|consen  117 GLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGG-LACLLKLKNLRRLHLYDLP  187 (221)
T ss_pred             HHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhH-HHHHHHhhhhHHHHhcCch
Confidence            344455566666666666665543210  01235677777777777777642 2344556666666666544

>PRK13531 regulatory ATPase RavA; Provisional

Probab=91.92  E-value=0.23  Score=57.05  Aligned_cols=44  Identities=20%  Similarity=0.209  Sum_probs=36.0

Q ss_pred             cccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          150 AFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +++||++.++.++..+..+  .-|-|+|..|+||||+|+.+-....
T Consensus        21 ~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~~   64 (498)
T PRK13531         21 GLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQ   64 (498)
T ss_pred             hccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHhc
Confidence            4789999999888877643  3467899999999999999998654

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=91.92  E-value=0.57  Score=50.22  Aligned_cols=57  Identities=25%  Similarity=0.377  Sum_probs=41.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCC----CCEEEEEEecCCCCHHHHHHHHHHHhc
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKL----CDEVVFVEVSQTPDVKRIQGDIADQLG  226 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~----F~~~~wv~vs~~~~~~~l~~~il~~l~  226 (1212)
                      .-.|.=|+|..|+|||.|+-.+.=...+...    =..++||+....|...++. +|++..+
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~   97 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFG   97 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTT
T ss_pred             CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccc
Confidence            3568889999999999999877655433222    2458999999999999986 4666544

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 ....

>TIGR03263 guanyl_kin guanylate kinase

Probab=91.87  E-value=0.12  Score=52.55  Aligned_cols=24  Identities=33%  Similarity=0.551  Sum_probs=21.6

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++|.|+|..|.||||||+.+.+..
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            479999999999999999999843

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.

>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=91.85  E-value=0.1  Score=50.75  Aligned_cols=24  Identities=33%  Similarity=0.520  Sum_probs=21.4

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ||.|+|..|.||||+|+.+-....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999987653

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=91.84  E-value=0.67  Score=53.11  Aligned_cols=100  Identities=16%  Similarity=0.206  Sum_probs=63.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCcc-------cCCChh------
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLYI-------CEGSES------  235 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~~-------~~~~~~------  235 (1212)
                      -..++|.|-.|+|||||+..+-.... +.+-+.++|+-+-+..+ +..+.+++...=..+.       .+....      
T Consensus       138 GQr~~Ifg~~G~GKt~l~~~~~~~~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~  216 (449)
T TIGR03305       138 GGKAGLFGGAGVGKTVLLTEMIHNMV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG  216 (449)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHH
Confidence            45689999999999999999866543 23458899998877664 5566666654311110       011111      


Q ss_pred             HHHHHHHHHHHc--CCcEE-EecCccccccccccceeeecc
Q 000945          236 ERAMVLCGLLKK--GKKIL-VLDNIWTSLDLDKKLEILSLV  273 (1212)
Q Consensus       236 ~~~~~l~~~L~~--~kr~L-VLDDVw~~~~~~~~Lr~L~ls  273 (1212)
                      ..+..+-++++.  |+.+| ++||+-+-.+   .+|.+.+.
T Consensus       217 ~~a~tiAEyfrd~~G~~VLl~~DslTR~A~---A~REisl~  254 (449)
T TIGR03305       217 HTALTMAEYFRDDEKQDVLLLIDNIFRFIQ---AGSEVSGL  254 (449)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecChHHHHH---HHHHHHHH
Confidence            123446666664  79999 9999875543   45555443

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.

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.78  E-value=0.87  Score=55.37  Aligned_cols=49  Identities=22%  Similarity=0.390  Sum_probs=39.8

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceE-EEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNV-IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~v-i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....|+|.+..++.+..++..+.+.- +-++|.-|+||||+|+.+-...
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l   63 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTI   63 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            345568899999999999988766554 6799999999999998877654

>PRK00131 aroK shikimate kinase; Reviewed

Probab=91.76  E-value=0.14  Score=51.60  Aligned_cols=25  Identities=28%  Similarity=0.409  Sum_probs=22.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..|.|+|+.|.||||+|+.+.....
T Consensus         5 ~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          5 PNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999998763

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=91.74  E-value=0.22  Score=52.72  Aligned_cols=27  Identities=22%  Similarity=0.290  Sum_probs=23.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....+-|+|..|+|||+||+++++...
T Consensus        41 ~~~~~~l~G~~G~GKT~La~ai~~~~~   67 (227)
T PRK08903         41 ADRFFYLWGEAGSGRSHLLQALVADAS   67 (227)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            456788999999999999999999764

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=91.74  E-value=0.76  Score=52.59  Aligned_cols=97  Identities=18%  Similarity=0.243  Sum_probs=59.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCH-HHHHHHHHHHhcCcc----cCCChh--------
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDV-KRIQGDIADQLGLYI----CEGSES--------  235 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~-~~l~~~il~~l~~~~----~~~~~~--------  235 (1212)
                      .-..++|+|..|+|||||++.+.+...    -+..+++-+.+..+. ..+..+.+..-+.+.    ...+++        
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            456789999999999999999998654    356777777776654 355555554322210    011111        


Q ss_pred             -HHHHHHHHHHH-cCCcEE-EecCccccccccccceeeec
Q 000945          236 -ERAMVLCGLLK-KGKKIL-VLDNIWTSLDLDKKLEILSL  272 (1212)
Q Consensus       236 -~~~~~l~~~L~-~~kr~L-VLDDVw~~~~~~~~Lr~L~l  272 (1212)
                       ..+..+-++++ .||.+| ++||+-.-.+   .+|...+
T Consensus       233 ~~~a~tiAEyfrd~G~~Vll~~DslTr~A~---A~REisl  269 (442)
T PRK08927        233 AYLTLAIAEYFRDQGKDVLCLMDSVTRFAM---AQREIGL  269 (442)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCcHHHHh---hhhHHHH
Confidence             12233445553 469999 9999875533   3444443

>PRK13949 shikimate kinase; Provisional

Probab=91.73  E-value=0.15  Score=50.71  Aligned_cols=25  Identities=40%  Similarity=0.377  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-|.|+||.|.||||+|+.+-+...
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3589999999999999999988664

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=91.73  E-value=0.13  Score=49.47  Aligned_cols=20  Identities=40%  Similarity=0.728  Sum_probs=18.7

Q ss_pred             EEEEEecCCCchhHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVF  191 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vy  191 (1212)
                      .|+|-|.+|+||||+++.+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999987

>TIGR00959 ffh signal recognition particle protein

Probab=91.72  E-value=10  Score=43.86  Aligned_cols=44  Identities=30%  Similarity=0.293  Sum_probs=29.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDV  214 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~  214 (1212)
                      ...+|.++|..|+||||.|..+......+.  ..++.+.-.+.|..
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~~~~--g~kV~lV~~D~~R~  141 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLKKKQ--GKKVLLVACDLYRP  141 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhC--CCeEEEEeccccch
Confidence            467999999999999999888776643112  23444433344544

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.

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=91.71  E-value=0.046  Score=56.16  Aligned_cols=39  Identities=23%  Similarity=0.156  Sum_probs=20.4

Q ss_pred             ccccCcccEEEEecCCCcccccC----CccccCCccEEeecccc
Q 000945          878 DSITENLESLEVWWCENLINLVP----SSASFKNLTTLELWYCQ  917 (1212)
Q Consensus       878 ~~~l~~L~~L~l~~c~~l~~lp~----~~~~l~~L~~L~l~~c~  917 (1212)
                      +..+.+|..|++.+|.... +-.    .+..+++|++|+-..+.
T Consensus       112 l~~l~nL~~Ldl~n~~~~~-l~dyre~vf~ll~~L~~LD~~dv~  154 (260)
T KOG2739|consen  112 LKELENLKSLDLFNCSVTN-LDDYREKVFLLLPSLKYLDGCDVD  154 (260)
T ss_pred             hhhhcchhhhhcccCCccc-cccHHHHHHHHhhhhccccccccC
Confidence            3445556666666664432 100    12346777777766553

>PRK03846 adenylylsulfate kinase; Provisional

Probab=91.70  E-value=0.15  Score=52.59  Aligned_cols=28  Identities=29%  Similarity=0.290  Sum_probs=24.4

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..-.+|+|+|+.|.||||||+.+.....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~   49 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALH   49 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3567999999999999999999998653

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=91.68  E-value=0.24  Score=55.05  Aligned_cols=46  Identities=17%  Similarity=0.202  Sum_probs=38.4

Q ss_pred             ccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          149 EAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..|+|.++.+..++-.+.+....-+.|.|..|.|||||++.+-.-.
T Consensus         4 ~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             cccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            4578999988888777777666777899999999999999997643

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.

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=91.68  E-value=0.74  Score=47.69  Aligned_cols=54  Identities=17%  Similarity=0.180  Sum_probs=39.6

Q ss_pred             ccCCCcccccchHHHHHHHHHH----hCCCCceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          143 MCSEGYEAFESRKSILNDALDA----LSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       143 ~~~~~~~~i~gr~~~~~~l~~~----L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      ........++|.+.+++.+++=    +......-+-+||..|.|||++++++.+...-
T Consensus        21 ~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~   78 (249)
T PF05673_consen   21 PDPIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYAD   78 (249)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhh
Confidence            3445566677888888887653    22334555667999999999999999987653

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=91.68  E-value=0.2  Score=49.04  Aligned_cols=24  Identities=38%  Similarity=0.556  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .++.|.|+.|+||+||+++++++.
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            578899999999999999999965

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=91.63  E-value=0.8  Score=52.68  Aligned_cols=101  Identities=20%  Similarity=0.268  Sum_probs=61.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCcc-------cCCChh-----
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLYI-------CEGSES-----  235 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~~-------~~~~~~-----  235 (1212)
                      .-..++|.|-.|+|||||+..+-....... =+.++++-|-+..+ +..+.++++..=..+.       ......     
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            345689999999999999998876655322 25677887776654 5666676665321110       011111     


Q ss_pred             -HHHHHHHHHHH--cCCcEE-EecCccccccccccceeeecc
Q 000945          236 -ERAMVLCGLLK--KGKKIL-VLDNIWTSLDLDKKLEILSLV  273 (1212)
Q Consensus       236 -~~~~~l~~~L~--~~kr~L-VLDDVw~~~~~~~~Lr~L~ls  273 (1212)
                       ..+..+-++++  +||.+| ++||+-.-.+   .+|.+.+.
T Consensus       222 ~~~a~tiAEyfrd~~G~~VLll~DslTR~A~---A~REisl~  260 (463)
T PRK09280        222 ALTGLTMAEYFRDVEGQDVLLFIDNIFRFTQ---AGSEVSAL  260 (463)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecchHHHHH---HHHHHHHh
Confidence             12334556663  379999 9999865433   45555443

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=91.59  E-value=4.6  Score=51.81  Aligned_cols=45  Identities=24%  Similarity=0.320  Sum_probs=36.3

Q ss_pred             cccchHHHHHHHHHHhCC-------C--CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          150 AFESRKSILNDALDALSN-------P--NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~~-------~--~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .++|.+..++.+.+.+..       .  ...++-++|..|+|||++|+.+-...
T Consensus       566 ~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l  619 (852)
T TIGR03346       566 RVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL  619 (852)
T ss_pred             ccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            478999989888887752       1  24568899999999999999999864

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=91.54  E-value=0.32  Score=45.58  Aligned_cols=28  Identities=32%  Similarity=0.169  Sum_probs=24.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      .-.+|.+.|.-|.||||++|.+.....+
T Consensus        21 ~~~~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        21 FGTVVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            3458999999999999999999987653

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.

>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=91.54  E-value=0.16  Score=47.29  Aligned_cols=23  Identities=30%  Similarity=0.345  Sum_probs=20.3

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |.|+|..|+|||||.+.+.+...
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            78999999999999999998654

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.

>CHL00176 ftsH cell division protein; Validated

Probab=91.51  E-value=0.41  Score=58.21  Aligned_cols=48  Identities=25%  Similarity=0.315  Sum_probs=32.1

Q ss_pred             cccccchHHHHHH---HHHHhCCC---------CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          148 YEAFESRKSILND---ALDALSNP---------NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       148 ~~~i~gr~~~~~~---l~~~L~~~---------~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+.|.++.+++   ++..+.+.         -.+-|-++|..|.|||++|+++.+...
T Consensus       182 f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~  241 (638)
T CHL00176        182 FRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAE  241 (638)
T ss_pred             HHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3345565555544   44444422         123578999999999999999988654

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

Probab=91.46  E-value=0.29  Score=56.36  Aligned_cols=52  Identities=25%  Similarity=0.275  Sum_probs=38.5

Q ss_pred             cCCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          144 CSEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |......|.|.+..+++|-+.+.    .         ....-+-++|..|.||||+|++|.+...
T Consensus       178 p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~  242 (438)
T PTZ00361        178 PLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETS  242 (438)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhC
Confidence            34455667888888877766553    1         1234577999999999999999999765

>PRK13975 thymidylate kinase; Provisional

Probab=91.45  E-value=0.15  Score=52.47  Aligned_cols=25  Identities=36%  Similarity=0.460  Sum_probs=22.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+.|+||||+|+.+.....
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~   27 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLN   27 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999999775

>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=91.42  E-value=0.11  Score=47.76  Aligned_cols=27  Identities=37%  Similarity=0.383  Sum_probs=18.5

Q ss_pred             EEEEecCCCchhHHHHHHHHHhhhcCCCC
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAKKLKLCD  201 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~v~~~F~  201 (1212)
                      |-|+|..|+||||+|+.+-....  ..|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~--~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLG--LSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT----EE
T ss_pred             EeeECCCccHHHHHHHHHHHHcC--Ccee
Confidence            45899999999999999998765  5564

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=91.40  E-value=0.14  Score=52.10  Aligned_cols=23  Identities=26%  Similarity=0.197  Sum_probs=20.5

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ||.|+|+.|+||||+|+.+-...
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999997754

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=91.39  E-value=0.15  Score=52.98  Aligned_cols=26  Identities=35%  Similarity=0.433  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+|+|+|..|.||||||+.+....
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999999853

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=91.38  E-value=1.4  Score=47.22  Aligned_cols=53  Identities=23%  Similarity=0.301  Sum_probs=42.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQ  224 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~  224 (1212)
                      .-+++-|+|..|.||||+|-+++-...  ..-..++||+.-..|++.++.. |...
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~aq--~~g~~a~fIDtE~~l~p~r~~~-l~~~  111 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANAQ--KPGGKAAFIDTEHALDPERAKQ-LGVD  111 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHhh--cCCCeEEEEeCCCCCCHHHHHH-HHHh
Confidence            467888999999999999999887665  4455899999999999988744 3443

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=91.37  E-value=0.17  Score=45.15  Aligned_cols=22  Identities=36%  Similarity=0.365  Sum_probs=20.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVF  191 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vy  191 (1212)
                      -..++|+|..|.|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4679999999999999999975

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

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=91.37  E-value=0.15  Score=52.03  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|.|+|+.|.|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            378999999999999999997754

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=91.36  E-value=0.96  Score=48.13  Aligned_cols=93  Identities=19%  Similarity=0.188  Sum_probs=59.4

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhh--cCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCcc-----cCCChh------
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKK--LKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLYI-----CEGSES------  235 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v--~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~~-----~~~~~~------  235 (1212)
                      =..++|.|-.|+|||||+..|-++...  +.+-+.++++-+-+..+ +..+..++.+.=..+.     ...++.      
T Consensus        69 GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~  148 (276)
T cd01135          69 GQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERII  148 (276)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHH
Confidence            456899999999999999998876531  23357889998887654 5667666665321110     001111      


Q ss_pred             --HHHHHHHHHHHc--CCcEE-EecCcccccc
Q 000945          236 --ERAMVLCGLLKK--GKKIL-VLDNIWTSLD  262 (1212)
Q Consensus       236 --~~~~~l~~~L~~--~kr~L-VLDDVw~~~~  262 (1212)
                        -.+..+-++++.  ||++| ++||+-.-.+
T Consensus       149 a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~A~  180 (276)
T cd01135         149 TPRMALTTAEYLAYEKGKHVLVILTDMTNYAE  180 (276)
T ss_pred             HHHHHHHHHHHHHhccCCeEEEEEcChhHHHH
Confidence              123335555553  58999 9999876543

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.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=91.36  E-value=0.14  Score=48.96  Aligned_cols=23  Identities=39%  Similarity=0.564  Sum_probs=20.5

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|.|+|..|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999999754

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.

>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=91.31  E-value=0.26  Score=48.81  Aligned_cols=34  Identities=41%  Similarity=0.342  Sum_probs=25.6

Q ss_pred             EEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEE
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVE  207 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~  207 (1212)
                      |-|-|..|+|||||++.+.+..+- ..+...-|.+
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~-~~~~v~Gf~t   35 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK-KGLPVGGFYT   35 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH-TCGGEEEEEE
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc-cCCccceEEe
Confidence            678999999999999999988752 2455555654

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.

>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=91.30  E-value=0.16  Score=49.84  Aligned_cols=23  Identities=35%  Similarity=0.476  Sum_probs=20.5

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |.|+|+.|.||||+|+.+.....
T Consensus         2 i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999987653

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.

>PRK13947 shikimate kinase; Provisional

Probab=91.28  E-value=0.16  Score=50.95  Aligned_cols=24  Identities=42%  Similarity=0.397  Sum_probs=21.4

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -|.|+||.|+||||+|+.+-+...
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg   26 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLS   26 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999988654

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=91.22  E-value=0.17  Score=47.81  Aligned_cols=24  Identities=42%  Similarity=0.418  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +.|-++|..|.|||||+|++-...
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            467899999999999999998864

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

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=91.19  E-value=0.3  Score=54.30  Aligned_cols=49  Identities=14%  Similarity=0.218  Sum_probs=41.5

Q ss_pred             CcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....|+|.++.+..++....+..+.-|-|.|..|.||||+|+.+|+-..
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            3556889999888888888887777777999999999999999988643

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=91.18  E-value=0.71  Score=51.42  Aligned_cols=59  Identities=19%  Similarity=0.247  Sum_probs=42.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcC----CCCEEEEEEecCCCCHHHHHHHHHHHhcCc
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK----LCDEVVFVEVSQTPDVKRIQGDIADQLGLY  228 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~~  228 (1212)
                      .-.++-|+|..|+|||+||..+.-......    .=..++||+.-..|...++. +|++.++.+
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~~  184 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGLN  184 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCCC
Confidence            467888999999999999987764332111    11378999999999998874 556666543

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=91.14  E-value=0.18  Score=47.94  Aligned_cols=25  Identities=36%  Similarity=0.586  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..|+.|+|.+|+||||+.+.+-...
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5789999999999999998877654

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=91.10  E-value=0.16  Score=49.70  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=20.1

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +|.|.|+.|.||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            46789999999999999998753

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=91.10  E-value=1.1  Score=51.05  Aligned_cols=47  Identities=11%  Similarity=0.200  Sum_probs=37.3

Q ss_pred             cccccchHHHHHHHHHHhCCCC----------ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          148 YEAFESRKSILNDALDALSNPN----------VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L~~~~----------~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...|+|.+..++.+.+++..+.          .+-+-++|+.|+||||+|+.+-...
T Consensus         4 f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l   60 (394)
T PRK07940          4 WDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAAL   60 (394)
T ss_pred             hhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            3457898888888888887542          4557799999999999999987653

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=91.08  E-value=0.72  Score=52.53  Aligned_cols=89  Identities=20%  Similarity=0.305  Sum_probs=55.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCcc----cCCChh--------
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLYI----CEGSES--------  235 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~~----~~~~~~--------  235 (1212)
                      .-..++|+|..|.|||||++.+.+...    .+..+++-+.+..+ +..+.++++..-+...    ...+++        
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            345699999999999999999986433    36778787877665 4556666654322110    011111        


Q ss_pred             -HHHHHHHHHHH-cCCcEE-EecCccccc
Q 000945          236 -ERAMVLCGLLK-KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       236 -~~~~~l~~~L~-~~kr~L-VLDDVw~~~  261 (1212)
                       ..+..+-++++ .|+.+| ++||+-.-.
T Consensus       237 ~~~A~tiAEyfrd~G~~VLl~~DslTR~A  265 (444)
T PRK08972        237 CETATTIAEYFRDQGLNVLLLMDSLTRYA  265 (444)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEEcChHHHH
Confidence             11223444442 369999 999987553

>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=91.04  E-value=0.53  Score=48.07  Aligned_cols=56  Identities=27%  Similarity=0.315  Sum_probs=37.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHH--HHHHHHHHHhcCcc
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVK--RIQGDIADQLGLYI  229 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~--~l~~~il~~l~~~~  229 (1212)
                      +||.+||..|+||||.+-++......+  =..++.|+ .+.|.+-  .-++...+.++...
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis-~D~~R~ga~eQL~~~a~~l~vp~   59 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALIS-ADTYRIGAVEQLKTYAEILGVPF   59 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEE-ESTSSTHHHHHHHHHHHHHTEEE
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhc--cccceeec-CCCCCccHHHHHHHHHHHhcccc
Confidence            689999999999998888877766633  33445555 4556543  44456667776653

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 ....

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

Probab=91.03  E-value=1.3  Score=55.49  Aligned_cols=46  Identities=20%  Similarity=0.283  Sum_probs=38.5

Q ss_pred             cccchHHHHHHHHHHhC------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          150 AFESRKSILNDALDALS------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+|.++.++.|++++.      .....++.++|..|+||||+|+.+.....
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~  374 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATG  374 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999998876      13456899999999999999999998654

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=91.01  E-value=1.1  Score=49.92  Aligned_cols=59  Identities=22%  Similarity=0.217  Sum_probs=42.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhc----CCCCEEEEEEecCCCCHHHHHHHHHHHhcCc
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKL----KLCDEVVFVEVSQTPDVKRIQGDIADQLGLY  228 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~----~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~  228 (1212)
                      .-+++=|+|..|+|||+|+..+.=.....    ..-..++||+.-..|+..++.+ |++.++.+
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d  187 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMD  187 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            45778899999999999998764322211    1125789999999999998755 56666543

>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=91.01  E-value=1.6  Score=45.94  Aligned_cols=62  Identities=15%  Similarity=0.215  Sum_probs=50.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHhHhhhH
Q 000945           25 RNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIED   86 (1212)
Q Consensus        25 ~~~~~~~~~~~~~~~~L~~~l~~i~~~l~~ae~~~~~~~~~v~~Wl~~lk~~~~~aed~ld~   86 (1212)
                      -.|...+.-++.|++-++.+|..+|.||+..-+..+...+..+++..++...||++|-++|.
T Consensus       310 ~rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyevEYVVDa  371 (402)
T PF12061_consen  310 GRYSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEVEYVVDA  371 (402)
T ss_pred             ccccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhheeeeeeh
Confidence            34556677889999999999999999998874332333444999999999999999999983

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=90.99  E-value=0.4  Score=52.37  Aligned_cols=38  Identities=26%  Similarity=0.280  Sum_probs=26.2

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS  209 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs  209 (1212)
                      -+-++|..|.||||+|+.+..............|+.++
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            46799999999999998887765422222223466666

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.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=90.96  E-value=1.8  Score=44.51  Aligned_cols=26  Identities=31%  Similarity=0.376  Sum_probs=23.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      ..|.|.|.-|.||||+|+.+.+....
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            47999999999999999999987663

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.

>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=90.93  E-value=0.34  Score=49.30  Aligned_cols=51  Identities=29%  Similarity=0.298  Sum_probs=35.9

Q ss_pred             hHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          154 RKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       154 r~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      +..+-...++.|.  +..++.+.|..|.|||.||-+.--+.-....|+..+++
T Consensus         5 ~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~   55 (205)
T PF02562_consen    5 KNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIIT   55 (205)
T ss_dssp             -SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEE
T ss_pred             CCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            3444556666666  56799999999999999999887766555889988887

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=90.93  E-value=0.24  Score=51.51  Aligned_cols=29  Identities=24%  Similarity=0.300  Sum_probs=25.8

Q ss_pred             CCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          166 SNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       166 ~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+.++++|+++|.-|.|||||.+++....
T Consensus        18 ~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        18 DKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             hhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999999998764

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=90.92  E-value=0.24  Score=48.04  Aligned_cols=28  Identities=29%  Similarity=0.476  Sum_probs=24.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhc
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKL  197 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~  197 (1212)
                      ..|++|+|+-|.|||||...+-...+.+
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L~~~   29 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKLKAR   29 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHHHhC
Confidence            4699999999999999999998887743

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=90.92  E-value=0.52  Score=50.65  Aligned_cols=34  Identities=26%  Similarity=0.271  Sum_probs=28.6

Q ss_pred             HHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          162 LDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       162 ~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -+++...++.+|+|.|..|.|||||+..+-+...
T Consensus        96 r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~  129 (290)
T PRK10463         96 RARFAARKQLVLNLVSSPGSGKTTLLTETLMRLK  129 (290)
T ss_pred             HHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3444456899999999999999999999998765

>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=90.90  E-value=0.89  Score=46.94  Aligned_cols=86  Identities=21%  Similarity=0.397  Sum_probs=53.6

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCC-CHHHHHHHHHHHhcCcc-------cCCChhH------
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTP-DVKRIQGDIADQLGLYI-------CEGSESE------  236 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~~-------~~~~~~~------  236 (1212)
                      ..++|+|..|+|||+|++.+-+...    =+..+++.+.+.. .+.++.+++...-..+.       ..+....      
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~~----~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~   91 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQD----ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPY   91 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHCT----TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhccc----ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhc
Confidence            5789999999999999999988764    3555888887764 45666666644311110       0111110      


Q ss_pred             HHHHHHHHHH-cCCcEE-EecCcccc
Q 000945          237 RAMVLCGLLK-KGKKIL-VLDNIWTS  260 (1212)
Q Consensus       237 ~~~~l~~~L~-~~kr~L-VLDDVw~~  260 (1212)
                      ..-.+-++++ .||.+| ++||+-.-
T Consensus        92 ~a~t~AEyfrd~G~dVlli~Dsltr~  117 (215)
T PF00006_consen   92 TALTIAEYFRDQGKDVLLIIDSLTRW  117 (215)
T ss_dssp             HHHHHHHHHHHTTSEEEEEEETHHHH
T ss_pred             cchhhhHHHhhcCCceeehhhhhHHH
Confidence            1222333333 369999 99998544

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 ....

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=90.90  E-value=0.29  Score=49.73  Aligned_cols=37  Identities=32%  Similarity=0.286  Sum_probs=29.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEe
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEV  208 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~v  208 (1212)
                      .++|-|+|..|+|||||++.+..+..  ..|...++.+.
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~--~~~~~~v~~TT   38 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFP--DKFGRVVSHTT   38 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHST--TTEEEEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcc--cccccceeecc
Confidence            46889999999999999999999766  67855444433

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 ....

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=90.85  E-value=0.21  Score=49.89  Aligned_cols=26  Identities=31%  Similarity=0.307  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...|.|+|+.|.||||+|+.+-+...
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcC
Confidence            34699999999999999999998653

>PRK09087 hypothetical protein; Validated

Probab=90.81  E-value=0.19  Score=52.77  Aligned_cols=27  Identities=37%  Similarity=0.345  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....+.|||..|+|||||++.+.+...
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~~   69 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKSD   69 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhcC
Confidence            346789999999999999999887643

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=90.80  E-value=0.15  Score=53.77  Aligned_cols=25  Identities=36%  Similarity=0.356  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-|.|+|++|+|||||+..+..+..
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~   30 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEF   30 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcC
Confidence            4689999999999999999988644

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=90.78  E-value=0.21  Score=50.33  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=21.6

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++|-+.|+.|.||||+|+.+-...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999997764

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>TIGR01287 nifH nitrogenase iron protein

Probab=90.76  E-value=0.16  Score=55.65  Aligned_cols=25  Identities=32%  Similarity=0.480  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.|+|+|-||+||||+|..+---..
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La   25 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALA   25 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHH
Confidence            4799999999999999988766443

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.

>PRK06620 hypothetical protein; Validated

Probab=90.72  E-value=0.18  Score=52.31  Aligned_cols=24  Identities=29%  Similarity=0.192  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..+-|||..|+|||+||+++.+..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            568999999999999999987754

>PRK13946 shikimate kinase; Provisional

Probab=90.71  E-value=0.21  Score=50.79  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=22.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..|.++||.|.||||+|+.+-+...
T Consensus        11 ~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         11 RTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4699999999999999999998764

>PLN02796 D-glycerate 3-kinase

Probab=90.68  E-value=0.2  Score=55.05  Aligned_cols=27  Identities=37%  Similarity=0.437  Sum_probs=24.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..-+|||.|..|.||||||+.+.....
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL~  125 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLFN  125 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHhc
Confidence            456899999999999999999998765

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=90.66  E-value=0.19  Score=54.12  Aligned_cols=35  Identities=26%  Similarity=0.272  Sum_probs=27.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEe
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEV  208 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~v  208 (1212)
                      ++|+|+|.+|.|||||+..+-...+  +.. .++-|..
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~--~~G-~V~~IKh   36 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLS--GRG-RVGTVKH   36 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH--hCC-CEEEEEE
Confidence            5899999999999999999999876  333 3555533

>CHL00095 clpC Clp protease ATP binding subunit

Probab=90.62  E-value=9.3  Score=48.90  Aligned_cols=45  Identities=22%  Similarity=0.290  Sum_probs=34.5

Q ss_pred             cccchHHHHHHHHHHhC-------CC--CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          150 AFESRKSILNDALDALS-------NP--NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~-------~~--~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|+|.+..++.+.+.+.       +.  ...++-++|..|+|||+||+.+-+..
T Consensus       510 ~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l  563 (821)
T CHL00095        510 RIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF  563 (821)
T ss_pred             cCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            47788988888877764       11  24456689999999999999987643

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=90.59  E-value=1  Score=51.57  Aligned_cols=90  Identities=17%  Similarity=0.207  Sum_probs=50.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCc-----ccC-CChh------H
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLY-----ICE-GSES------E  236 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~-----~~~-~~~~------~  236 (1212)
                      .-..++|+|..|+|||||++.+.....   ....++|..--+.-++..+....+......     ... ....      .
T Consensus       164 ~Gqri~I~G~SGsGKTTLL~~Ia~l~~---pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~  240 (450)
T PRK06002        164 AGQRIGIFAGSGVGKSTLLAMLARADA---FDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPL  240 (450)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCC---CCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHH
Confidence            345799999999999999998876443   122333433223445555555554443211     111 1111      1


Q ss_pred             HHHHHHHHHH-cCCcEE-EecCccccc
Q 000945          237 RAMVLCGLLK-KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       237 ~~~~l~~~L~-~~kr~L-VLDDVw~~~  261 (1212)
                      .+..+-++++ .|+.+| ++||+-.-.
T Consensus       241 ~a~~iAEyfrd~G~~Vll~~DslTr~A  267 (450)
T PRK06002        241 TATAIAEYFRDRGENVLLIVDSVTRFA  267 (450)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchHHHH
Confidence            1222344443 369999 999986553

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=90.53  E-value=0.18  Score=50.03  Aligned_cols=23  Identities=30%  Similarity=0.628  Sum_probs=20.4

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|+++|.+|+|||||++.+.++.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998754

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>PTZ00185 ATPase alpha subunit; Provisional

Probab=90.50  E-value=1.3  Score=51.07  Aligned_cols=93  Identities=17%  Similarity=0.175  Sum_probs=56.2

Q ss_pred             ceEEEEEecCCCchhHHH-HHHHHHhhh-----cCCCCEEEEEEecCCCCHHHHHHHHHHHhc-Cccc-----CCCh--h
Q 000945          170 VNVIGLCGLGGIGKTTLA-KIVFYQAKK-----LKLCDEVVFVEVSQTPDVKRIQGDIADQLG-LYIC-----EGSE--S  235 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA-~~vyn~~~v-----~~~F~~~~wv~vs~~~~~~~l~~~il~~l~-~~~~-----~~~~--~  235 (1212)
                      -..++|.|-.|+|||||| -.|-|...+     .++-+.++++-+.+..+...=..+.+++-+ .+..     ..++  .
T Consensus       189 GQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~  268 (574)
T PTZ00185        189 GQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAG  268 (574)
T ss_pred             CCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHH
Confidence            446899999999999997 566666533     135578899999887764443444444433 1100     0111  1


Q ss_pred             H------HHHHHHHHHH-cCCcEE-EecCcccccc
Q 000945          236 E------RAMVLCGLLK-KGKKIL-VLDNIWTSLD  262 (1212)
Q Consensus       236 ~------~~~~l~~~L~-~~kr~L-VLDDVw~~~~  262 (1212)
                      .      ....+-+.++ +||.+| |+||+-+-.+
T Consensus       269 ~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~A~  303 (574)
T PTZ00185        269 LQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQAV  303 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEcCchHHHH
Confidence            0      1222334442 369999 9999876543

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.49  E-value=0.027  Score=57.78  Aligned_cols=82  Identities=26%  Similarity=0.236  Sum_probs=57.8

Q ss_pred             ccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccc
Q 000945          853 LTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       853 l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      +.+.+.|+.++|. |..|     .....++.||.|.++-| ++.++.+ +..++.|++|+|.. +.+.++-+...+++++
T Consensus        18 l~~vkKLNcwg~~-L~DI-----sic~kMp~lEVLsLSvN-kIssL~p-l~rCtrLkElYLRk-N~I~sldEL~YLknlp   88 (388)
T KOG2123|consen   18 LENVKKLNCWGCG-LDDI-----SICEKMPLLEVLSLSVN-KISSLAP-LQRCTRLKELYLRK-NCIESLDELEYLKNLP   88 (388)
T ss_pred             HHHhhhhcccCCC-ccHH-----HHHHhcccceeEEeecc-ccccchh-HHHHHHHHHHHHHh-cccccHHHHHHHhcCc
Confidence            4566777777774 4444     23456788888888863 4555532 46778888888877 4677776667778888


Q ss_pred             cccEEEecCcc
Q 000945          933 CLTKLRIDGCR  943 (1212)
Q Consensus       933 ~L~~L~i~~c~  943 (1212)
                      +|+.|.|..++
T Consensus        89 sLr~LWL~ENP   99 (388)
T KOG2123|consen   89 SLRTLWLDENP   99 (388)
T ss_pred             hhhhHhhccCC
Confidence            89988888776

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=90.45  E-value=0.94  Score=50.18  Aligned_cols=58  Identities=19%  Similarity=0.216  Sum_probs=40.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcC----CCCEEEEEEecCCCCHHHHHHHHHHHhcC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK----LCDEVVFVEVSQTPDVKRIQGDIADQLGL  227 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~  227 (1212)
                      .-.++-|+|..|.||||||..+.-......    .-..++|+.....|+..++ .++++.++.
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            467899999999999999998765332211    1236799988888888875 334555443

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).

>PRK06761 hypothetical protein; Provisional

Probab=90.44  E-value=0.3  Score=52.43  Aligned_cols=33  Identities=27%  Similarity=0.268  Sum_probs=26.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEE
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVV  204 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~  204 (1212)
                      .+|.|.|..|.||||+|+.+++... ...++..+
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~-~~g~~v~~   36 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILS-QNGIEVEL   36 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcC-cCceEEEE
Confidence            5799999999999999999999865 23444444

>PRK13768 GTPase; Provisional

Probab=90.43  E-value=0.2  Score=53.68  Aligned_cols=25  Identities=32%  Similarity=0.348  Sum_probs=21.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|+|.||+||||++..+..-..
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~   27 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLE   27 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHH
Confidence            5789999999999999988877654

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

Probab=90.39  E-value=1.1  Score=51.86  Aligned_cols=51  Identities=18%  Similarity=0.178  Sum_probs=39.4

Q ss_pred             CCcccccchHHHHHHHHHHhC---C---------CCceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          146 EGYEAFESRKSILNDALDALS---N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~---~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      .....+-|.+....++.+++.   .         ..-+=|-++|+.|.|||.||+++-+...|
T Consensus       187 v~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~v  249 (802)
T KOG0733|consen  187 VSFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGV  249 (802)
T ss_pred             cchhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCC
Confidence            345667888888888877765   1         12334668999999999999999998875

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=90.36  E-value=0.19  Score=44.67  Aligned_cols=24  Identities=46%  Similarity=0.552  Sum_probs=21.1

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++.|.|.+|+||||+|..+-....
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l~   24 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAALA   24 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            478899999999999999888765

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>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=90.35  E-value=0.15  Score=30.78  Aligned_cols=17  Identities=35%  Similarity=0.331  Sum_probs=8.3

Q ss_pred             ccEEEEecCCCcccccCC
Q 000945          884 LESLEVWWCENLINLVPS  901 (1212)
Q Consensus       884 L~~L~l~~c~~l~~lp~~  901 (1212)
                      |++|++++| .++.+|++
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 44445443

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 ....

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=90.34  E-value=0.23  Score=47.62  Aligned_cols=26  Identities=27%  Similarity=0.356  Sum_probs=22.8

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+++|+|..|.|||||.+.+.....
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~~~   36 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGLLP   36 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTSSH
T ss_pred             CCEEEEEccCCCccccceeeeccccc
Confidence            35899999999999999999988654

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

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

Probab=90.33  E-value=0.57  Score=53.85  Aligned_cols=99  Identities=21%  Similarity=0.281  Sum_probs=55.4

Q ss_pred             hHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCC-CCHHHHHHHHHHHhcCcccCC
Q 000945          154 RKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQT-PDVKRIQGDIADQLGLYICEG  232 (1212)
Q Consensus       154 r~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~~~~~~  232 (1212)
                      |..-..++++.+..... ++.|.|+=++||||+++.+-.... ..    .+++..-+. ++-..+ .+.+...       
T Consensus        22 ~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~-~~----~iy~~~~d~~~~~~~l-~d~~~~~-------   87 (398)
T COG1373          22 RRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLL-EE----IIYINFDDLRLDRIEL-LDLLRAY-------   87 (398)
T ss_pred             HHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCC-cc----eEEEEecchhcchhhH-HHHHHHH-------
Confidence            33445556665554333 999999999999999965554332 11    444432221 111111 1111111       


Q ss_pred             ChhHHHHHHHHHHHcCCcEEEecCccccccccccceeeeccCC
Q 000945          233 SESERAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDS  275 (1212)
Q Consensus       233 ~~~~~~~~l~~~L~~~kr~LVLDDVw~~~~~~~~Lr~L~ls~~  275 (1212)
                            ..+...   +|.|++||.|.....|+..+++|--.++
T Consensus        88 ------~~~~~~---~~~yifLDEIq~v~~W~~~lk~l~d~~~  121 (398)
T COG1373          88 ------IELKER---EKSYIFLDEIQNVPDWERALKYLYDRGN  121 (398)
T ss_pred             ------HHhhcc---CCceEEEecccCchhHHHHHHHHHcccc
Confidence                  011111   2456699999999999997777755554

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=90.33  E-value=1.3  Score=46.76  Aligned_cols=48  Identities=15%  Similarity=0.174  Sum_probs=31.5

Q ss_pred             CceEEEEEecCCCchhHHH-HHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLA-KIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDI  221 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA-~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~i  221 (1212)
                      .-.++.|.|..|.||||+| |.+|+-.+  .. ..+++++  -+-+...+.+.+
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~--~g-~~~~yi~--~e~~~~~~~~~~   71 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFLQ--NG-YSVSYVS--TQLTTTEFIKQM   71 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHh--CC-CcEEEEe--CCCCHHHHHHHH
Confidence            3459999999999999997 66666433  22 3445555  333455666655

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=90.31  E-value=0.23  Score=49.75  Aligned_cols=25  Identities=20%  Similarity=0.235  Sum_probs=22.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+++|+|..|.||||+++.+.....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~   28 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFS   28 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999999765

>COG4240 Predicted kinase [General function prediction only]

Probab=90.31  E-value=1.4  Score=44.20  Aligned_cols=80  Identities=14%  Similarity=0.179  Sum_probs=48.9

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcC-----cccCCChhHHHHHHH
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGL-----YICEGSESERAMVLC  242 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~-----~~~~~~~~~~~~~l~  242 (1212)
                      ++--++||.|.-|.||||+|-.||+....+.. +..+-....+-|-...-+-.++++...     ...+..+..+...+.
T Consensus        48 grPli~gisGpQGSGKStls~~i~~~L~~kg~-ert~~lSLDDlYlthadrl~La~q~npllq~RGlpGTHD~tlglnVL  126 (300)
T COG4240          48 GRPLIVGISGPQGSGKSTLSALIVRLLAAKGL-ERTATLSLDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGLNVL  126 (300)
T ss_pred             CCceEEEeecCCCCchhhHHHHHHHHHHHhcc-cceEEeehhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHHHHH
Confidence            35678999999999999999999998875443 455555444444444444455555411     122334444444455


Q ss_pred             HHHHcC
Q 000945          243 GLLKKG  248 (1212)
Q Consensus       243 ~~L~~~  248 (1212)
                      +.+.++
T Consensus       127 nai~~g  132 (300)
T COG4240         127 NAIARG  132 (300)
T ss_pred             HHHhcC
Confidence            555543

>PLN02348 phosphoribulokinase

Probab=90.30  E-value=0.26  Score=54.94  Aligned_cols=29  Identities=28%  Similarity=0.332  Sum_probs=25.6

Q ss_pred             CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          167 NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       167 ~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+..-+|||.|..|.||||+|+.+.+...
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~Lg   74 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTSVFG   74 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            35678999999999999999999998764

>PRK14530 adenylate kinase; Provisional

Probab=90.22  E-value=0.24  Score=51.83  Aligned_cols=23  Identities=30%  Similarity=0.203  Sum_probs=20.7

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|.|+|+.|.||||+|+.+....
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999997654

>PRK08149 ATP synthase SpaL; Validated

Probab=90.21  E-value=0.89  Score=51.94  Aligned_cols=89  Identities=15%  Similarity=0.238  Sum_probs=55.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCC-CCHHHHHHHHHHHhcCcc-----cCCC--hh-----
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQT-PDVKRIQGDIADQLGLYI-----CEGS--ES-----  235 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~~~-----~~~~--~~-----  235 (1212)
                      .-..++|+|..|.|||||++.+.+...    -+..+...|... -++..+..+.+.......     ...+  ..     
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            445789999999999999999987543    345555556544 356666666665433210     1111  11     


Q ss_pred             -HHHHHHHHHHH-cCCcEE-EecCccccc
Q 000945          236 -ERAMVLCGLLK-KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       236 -~~~~~l~~~L~-~~kr~L-VLDDVw~~~  261 (1212)
                       ..+..+-++++ .||.+| ++||+-.-.
T Consensus       226 ~~~a~tiAE~fr~~G~~Vll~~DslTr~A  254 (428)
T PRK08149        226 ALVATTVAEYFRDQGKRVVLFIDSMTRYA  254 (428)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEccchHHHH
Confidence             12333444443 369999 999987554

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=90.14  E-value=0.8  Score=55.66  Aligned_cols=77  Identities=14%  Similarity=0.086  Sum_probs=50.5

Q ss_pred             cccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcC
Q 000945          148 YEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGL  227 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~  227 (1212)
                      ...+.|+++.++.+...+... .. +-++|+.|+||||+|+.+.+... .+.|...+++..+. -+...+.+.+...++.
T Consensus        17 ~~~viG~~~a~~~l~~a~~~~-~~-~ll~G~pG~GKT~la~~la~~l~-~~~~~~~~~~~n~~-~~~~~~~~~v~~~~g~   92 (608)
T TIGR00764        17 IDQVIGQEEAVEIIKKAAKQK-RN-VLLIGEPGVGKSMLAKAMAELLP-DEELEDILVYPNPE-DPNMPRIVEVPAGEGR   92 (608)
T ss_pred             HhhccCHHHHHHHHHHHHHcC-CC-EEEECCCCCCHHHHHHHHHHHcC-chhheeEEEEeCCC-CCchHHHHHHHHhhch
Confidence            345778888777666666544 34 44999999999999999998654 22344444333332 3455667777776654


Q ss_pred             c
Q 000945          228 Y  228 (1212)
Q Consensus       228 ~  228 (1212)
                      +
T Consensus        93 ~   93 (608)
T TIGR00764        93 E   93 (608)
T ss_pred             H
Confidence            4

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

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=90.14  E-value=0.27  Score=50.18  Aligned_cols=25  Identities=20%  Similarity=0.388  Sum_probs=22.3

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3589999999999999999998864

>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=90.12  E-value=0.31  Score=47.73  Aligned_cols=25  Identities=40%  Similarity=0.583  Sum_probs=23.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|+|+|..|.|||||+..+.....
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l~   26 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPALS   26 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5899999999999999999998765

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.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=90.11  E-value=0.79  Score=51.63  Aligned_cols=75  Identities=24%  Similarity=0.248  Sum_probs=45.3

Q ss_pred             cccchHHHHHHHHHHhCCC--------------CceEEEEEecCCCchhHHHHHHHHHhhhcC-CCCEEEEEEecC-CCC
Q 000945          150 AFESRKSILNDALDALSNP--------------NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK-LCDEVVFVEVSQ-TPD  213 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~~~--------------~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~-~F~~~~wv~vs~-~~~  213 (1212)
                      .|+|.++.++.+.-.+...              ..+-|-++|..|+||||+|+.+-....+.- +++..-|..+.. ..+
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~d   92 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   92 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccCC
Confidence            3678888777775444321              135688999999999999999988764210 112222222211 125


Q ss_pred             HHHHHHHHHHH
Q 000945          214 VKRIQGDIADQ  224 (1212)
Q Consensus       214 ~~~l~~~il~~  224 (1212)
                      +..+.+.+.+.
T Consensus        93 vE~i~r~l~e~  103 (441)
T TIGR00390        93 VESMVRDLTDA  103 (441)
T ss_pred             HHHHHHHHHHH
Confidence            66777766654

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.

>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=90.06  E-value=0.43  Score=48.21  Aligned_cols=43  Identities=21%  Similarity=0.156  Sum_probs=31.3

Q ss_pred             cccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHH
Q 000945          148 YEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      ...|.|.+..+..+.-....  ..=|-|+|..|+|||++|+.+-.
T Consensus         2 f~dI~GQe~aKrAL~iAAaG--~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    2 FSDIVGQEEAKRALEIAAAG--GHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             TCCSSSTHHHHHHHHHHHHC--C--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhhcCcHHHHHHHHHHHcC--CCCeEEECCCCCCHHHHHHHHHH
Confidence            45678888777766655543  46788999999999999999875

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.

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

Probab=90.05  E-value=0.41  Score=54.73  Aligned_cols=52  Identities=23%  Similarity=0.173  Sum_probs=38.7

Q ss_pred             cCCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          144 CSEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |......|.|.+..+++|.+.+.    .         ...+-|-++|..|.||||+|+++.+...
T Consensus       140 p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~  204 (398)
T PTZ00454        140 PDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTT  204 (398)
T ss_pred             CCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcC
Confidence            34455667888888877766542    1         1345688999999999999999998754

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=90.05  E-value=0.2  Score=48.75  Aligned_cols=24  Identities=42%  Similarity=0.498  Sum_probs=21.4

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ||.|+|..|.||||+|+.+-....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            578999999999999999988764

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=90.05  E-value=0.25  Score=48.68  Aligned_cols=87  Identities=21%  Similarity=0.292  Sum_probs=63.2

Q ss_pred             ccccceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchh
Q 000945          263 LDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQ  342 (1212)
Q Consensus       263 ~~~~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~  342 (1212)
                      |.+....+||++|.+..++ .+..+..|.+|.+++| .|..|.+.+-..+.+|..|.+.+|.+...          ..+.
T Consensus        40 ~~d~~d~iDLtdNdl~~l~-~lp~l~rL~tLll~nN-rIt~I~p~L~~~~p~l~~L~LtnNsi~~l----------~dl~  107 (233)
T KOG1644|consen   40 TLDQFDAIDLTDNDLRKLD-NLPHLPRLHTLLLNNN-RITRIDPDLDTFLPNLKTLILTNNSIQEL----------GDLD  107 (233)
T ss_pred             cccccceecccccchhhcc-cCCCccccceEEecCC-cceeeccchhhhccccceEEecCcchhhh----------hhcc
Confidence            3335667888888887765 3667888999999999 88888888555667799999999887511          1245


Q ss_pred             hhhcCCCCCcceeeecccc
Q 000945          343 ELKLLSHLTTLEIQICDAM  361 (1212)
Q Consensus       343 ~L~~l~~L~~L~l~~~~~~  361 (1212)
                      .|..++.|++|.+-.|...
T Consensus       108 pLa~~p~L~~Ltll~Npv~  126 (233)
T KOG1644|consen  108 PLASCPKLEYLTLLGNPVE  126 (233)
T ss_pred             hhccCCccceeeecCCchh
Confidence            5666677777777666544

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

Probab=89.99  E-value=1.1  Score=56.34  Aligned_cols=45  Identities=24%  Similarity=0.362  Sum_probs=34.9

Q ss_pred             cccchHHHHHHHHHHhC-------CC--CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          150 AFESRKSILNDALDALS-------NP--NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~-------~~--~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .++|.+..++.+.+.+.       +.  ...++-++|+.|+|||+||+.+....
T Consensus       455 ~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       455 KIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             ceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            46788888888777665       11  24467899999999999999998855

>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=89.98  E-value=0.73  Score=47.58  Aligned_cols=24  Identities=33%  Similarity=0.493  Sum_probs=22.2

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|.|.|+-|+||||+|+.+.+...
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~   25 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLE   25 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998765

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=89.97  E-value=0.51  Score=57.15  Aligned_cols=79  Identities=11%  Similarity=0.056  Sum_probs=58.0

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQL  225 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l  225 (1212)
                      .....+.|.++.++.+...+...  ..+-|+|..|.||||+|+.+..... ..+|+...|...+. -+...+.+.++.+.
T Consensus        28 ~~~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~-~~~~~~~~~~~np~-~~~~~~~~~v~~~~  103 (637)
T PRK13765         28 RLIDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLP-KEELQDILVYPNPE-DPNNPKIRTVPAGK  103 (637)
T ss_pred             ccHHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcC-hHhHHHheEeeCCC-cchHHHHHHHHHhc
Confidence            34556889888888777766644  3688999999999999999887643 34567788876643 46677778887766


Q ss_pred             cCc
Q 000945          226 GLY  228 (1212)
Q Consensus       226 ~~~  228 (1212)
                      +..
T Consensus       104 G~~  106 (637)
T PRK13765        104 GKQ  106 (637)
T ss_pred             CHH
Confidence            543

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=89.97  E-value=0.34  Score=44.58  Aligned_cols=23  Identities=39%  Similarity=0.644  Sum_probs=20.9

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |.+.|.||+||||+|..+.....
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~   24 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLA   24 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            78999999999999999988765

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=89.93  E-value=1.7  Score=49.80  Aligned_cols=101  Identities=19%  Similarity=0.214  Sum_probs=64.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcC--CCC---------EEEEEEecCCCCHHHHHHHHHHHhc-Cccc----CC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK--LCD---------EVVFVEVSQTPDVKRIQGDIADQLG-LYIC----EG  232 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~--~F~---------~~~wv~vs~~~~~~~l~~~il~~l~-~~~~----~~  232 (1212)
                      .-..+||.|-.|+|||||+..|-+.....+  -.|         .++++-+.+...+.....+.+..-+ .+..    ..
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            345689999999999999999888764210  123         6777788888777777777676554 2210    01


Q ss_pred             Chh---------HHHHHHHHHHH--cCCcEE-EecCccccccccccceeeec
Q 000945          233 SES---------ERAMVLCGLLK--KGKKIL-VLDNIWTSLDLDKKLEILSL  272 (1212)
Q Consensus       233 ~~~---------~~~~~l~~~L~--~~kr~L-VLDDVw~~~~~~~~Lr~L~l  272 (1212)
                      +++         -.+..+-++++  +||.+| ++||+-.-.+   .+|.+.+
T Consensus       220 sd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr~A~---A~REisl  268 (466)
T TIGR01040       220 ANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSSYAD---ALREVSA  268 (466)
T ss_pred             CCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHHHHH---HHHHHHH
Confidence            111         12334666666  479999 9999865432   4454444

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=89.92  E-value=0.19  Score=50.01  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=19.5

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.|+|..|.||||+|+.+-...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998764

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.

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=89.91  E-value=0.24  Score=45.83  Aligned_cols=21  Identities=24%  Similarity=0.409  Sum_probs=19.8

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |+|+|+.|+|||||.+.+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999984

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>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=89.91  E-value=0.24  Score=53.30  Aligned_cols=25  Identities=44%  Similarity=0.418  Sum_probs=19.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..|-|.|.+|.||||+|+.+.....
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~   26 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLE   26 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHH
Confidence            3578999999999999999999766

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=89.91  E-value=0.22  Score=54.58  Aligned_cols=24  Identities=29%  Similarity=0.349  Sum_probs=20.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++|+|+|=||+||||+|-.+---.
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~L   25 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAAL   25 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            589999999999999997765533

>PRK13236 nitrogenase reductase; Reviewed

Probab=89.84  E-value=0.26  Score=54.38  Aligned_cols=26  Identities=35%  Similarity=0.606  Sum_probs=22.4

Q ss_pred             CCCceEEEEEecCCCchhHHHHHHHH
Q 000945          167 NPNVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       167 ~~~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      +++.+||.+.|=|||||||+|-.+--
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~   28 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLA   28 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHH
Confidence            56789999999999999999876544

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=89.83  E-value=0.24  Score=51.78  Aligned_cols=89  Identities=20%  Similarity=0.341  Sum_probs=47.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEE---ecC--CCCHHHHHHHHHHHhcCcc-------cCCChhH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVE---VSQ--TPDVKRIQGDIADQLGLYI-------CEGSESE  236 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~---vs~--~~~~~~l~~~il~~l~~~~-------~~~~~~~  236 (1212)
                      .-.++||||-.|.||||+|+.|-.=..  -. ...++..   +..  .....+-..++++.++...       .+.+-.+
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~--pt-~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQ  114 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEE--PT-SGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQ  114 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcC--CC-CceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchh
Confidence            456899999999999999999987543  12 2233321   111  1223344455666665432       1223333


Q ss_pred             HHHH-HHHHHHcCCcEEEecCcccc
Q 000945          237 RAMV-LCGLLKKGKKILVLDNIWTS  260 (1212)
Q Consensus       237 ~~~~-l~~~L~~~kr~LVLDDVw~~  260 (1212)
                      ++.. |.+.|.-+-+++|.|.--..
T Consensus       115 rQRi~IARALal~P~liV~DEpvSa  139 (268)
T COG4608         115 RQRIGIARALALNPKLIVADEPVSA  139 (268)
T ss_pred             hhhHHHHHHHhhCCcEEEecCchhh
Confidence            3332 33334432455588865433

>cd03114 ArgK-like The function of this protein family is unkown

Probab=89.81  E-value=0.21  Score=48.40  Aligned_cols=24  Identities=38%  Similarity=0.664  Sum_probs=20.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|++.|.+|+||||++..+.....
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~~   24 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITALR   24 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHH
Confidence            489999999999999999987654

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=89.80  E-value=0.28  Score=46.51  Aligned_cols=45  Identities=31%  Similarity=0.378  Sum_probs=35.1

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcc
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYI  229 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~  229 (1212)
                      +|.|-|.+|.||||+|+.+-++...+         +|    +--.+.++|+++.+...
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~---------~v----saG~iFR~~A~e~gmsl   46 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK---------LV----SAGTIFREMARERGMSL   46 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc---------ee----eccHHHHHHHHHcCCCH
Confidence            68999999999999999999987633         12    23467788888887753

>PRK13948 shikimate kinase; Provisional

Probab=89.76  E-value=0.29  Score=49.13  Aligned_cols=27  Identities=22%  Similarity=0.276  Sum_probs=23.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....|.++||.|.||||+++.+-+...
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            456789999999999999999988654

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=89.75  E-value=0.54  Score=50.85  Aligned_cols=44  Identities=30%  Similarity=0.343  Sum_probs=29.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVK  215 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~  215 (1212)
                      ..++|.++|.+|+||||.+..+.....  ..-..+++++ .+.|...
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~--~~g~~V~li~-~D~~r~~  114 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLK--KQGKSVLLAA-GDTFRAA  114 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH--hcCCEEEEEe-CCCCCHH
Confidence            568999999999999999888876654  2222344443 3345443

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=89.73  E-value=0.79  Score=49.51  Aligned_cols=53  Identities=26%  Similarity=0.289  Sum_probs=33.6

Q ss_pred             HHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHH
Q 000945          158 LNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRI  217 (1212)
Q Consensus       158 ~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l  217 (1212)
                      .+.++.++.. +. -|-++|..|+||||+|+.+.....     ....+++.+.+.+...+
T Consensus        11 ~~~~l~~l~~-g~-~vLL~G~~GtGKT~lA~~la~~lg-----~~~~~i~~~~~~~~~dl   63 (262)
T TIGR02640        11 TSRALRYLKS-GY-PVHLRGPAGTGKTTLAMHVARKRD-----RPVMLINGDAELTTSDL   63 (262)
T ss_pred             HHHHHHHHhc-CC-eEEEEcCCCCCHHHHHHHHHHHhC-----CCEEEEeCCccCCHHHH
Confidence            4455555543 23 345899999999999999987332     22345566665555444

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).

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=89.68  E-value=1  Score=51.03  Aligned_cols=87  Identities=24%  Similarity=0.253  Sum_probs=48.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCC--ChhHHHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEG--SESERAMVLCGLLK  246 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~--~~~~~~~~l~~~L~  246 (1212)
                      .-.++-|.|.+|+|||||+..+.....  ..-..++|+...+.  ...+. .-++.++......  ........+.+.+.
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~~a--~~g~~VlYvs~EEs--~~qi~-~Ra~rlg~~~~~l~l~~e~~le~I~~~i~  155 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAARLA--KRGGKVLYVSGEES--PEQIK-LRADRLGISTENLYLLAETNLEDILASIE  155 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--hcCCeEEEEECCcC--HHHHH-HHHHHcCCCcccEEEEccCcHHHHHHHHH
Confidence            356899999999999999998877654  22345667655432  33322 2234454332210  01112334444444


Q ss_pred             c-CCcEEEecCcccc
Q 000945          247 K-GKKILVLDNIWTS  260 (1212)
Q Consensus       247 ~-~kr~LVLDDVw~~  260 (1212)
                      . +-+++|+|.+-..
T Consensus       156 ~~~~~lVVIDSIq~l  170 (372)
T cd01121         156 ELKPDLVIIDSIQTV  170 (372)
T ss_pred             hcCCcEEEEcchHHh
Confidence            3 2455599987543

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.

>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=89.68  E-value=0.24  Score=51.77  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=19.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++|+|.|-||+||||++..+-.-.
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~l   24 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAAL   24 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHH
Confidence            479999999999999987765533

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=89.67  E-value=0.27  Score=56.21  Aligned_cols=28  Identities=21%  Similarity=0.137  Sum_probs=24.5

Q ss_pred             CCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          167 NPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       167 ~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..-++.|+|+|..|.||||||+++.+..
T Consensus       216 ~~~~~~IvI~G~~gsGKTTL~~~La~~~  243 (399)
T PRK08099        216 PFFVRTVAILGGESSGKSTLVNKLANIF  243 (399)
T ss_pred             hCCCcEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3468899999999999999999998753

>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=89.65  E-value=0.29  Score=51.69  Aligned_cols=22  Identities=32%  Similarity=0.305  Sum_probs=19.4

Q ss_pred             EEecCCCchhHHHHHHHHHhhh
Q 000945          175 LCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       175 I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      |+||+|.||||+++.+++....
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~   22 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLES   22 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTT
T ss_pred             CCCCCCCCHHHHHHHHHHHHHh
Confidence            6899999999999999998763

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=89.62  E-value=0.48  Score=54.37  Aligned_cols=49  Identities=29%  Similarity=0.520  Sum_probs=40.3

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++|.+..++.+.+.+.++... .+-++|..|+||||+|+.+-+..
T Consensus        14 ~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l   63 (367)
T PRK14970         14 QTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKI   63 (367)
T ss_pred             CcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34566789999999999998765554 78899999999999999996654

>PLN02318 phosphoribulokinase/uridine kinase

Probab=89.60  E-value=0.35  Score=56.59  Aligned_cols=27  Identities=30%  Similarity=0.538  Sum_probs=24.1

Q ss_pred             CCCceEEEEEecCCCchhHHHHHHHHH
Q 000945          167 NPNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       167 ~~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .+.+.+|||.|..|.||||||+.+...
T Consensus        62 ~~~riIIGIaGpSGSGKTTLAk~Lagl   88 (656)
T PLN02318         62 NDGIILVGVAGPSGAGKTVFTEKVLNF   88 (656)
T ss_pred             CCCeEEEEEECCCCCcHHHHHHHHHhh
Confidence            456889999999999999999999864

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=89.58  E-value=0.24  Score=54.16  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=20.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++|+|+|=||+||||+|-.+---.
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~L   25 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAAL   25 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            589999999999999998766533

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=89.58  E-value=0.27  Score=50.75  Aligned_cols=25  Identities=24%  Similarity=0.413  Sum_probs=21.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .-.+|+|+|..|+|||||.+.|-.=
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4467999999999999999998763

>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=89.55  E-value=0.67  Score=48.41  Aligned_cols=41  Identities=27%  Similarity=0.394  Sum_probs=28.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD  213 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~  213 (1212)
                      +.|+|+|-|||||+|.|+.+---..  ..-..++-|=+..+.|
T Consensus         1 r~IAiYGKGGIGKST~~~Nlsaala--~~G~kVl~iGCDPK~D   41 (273)
T PF00142_consen    1 RKIAIYGKGGIGKSTTASNLSAALA--EMGKKVLQIGCDPKAD   41 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHH--HTT--EEEEEESSSST
T ss_pred             CeEEEEcCCCcccChhhhHHHHHHH--hccceeeEecccCCCc
Confidence            4699999999999999999877655  2234555554444333

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 ....

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=89.54  E-value=1.3  Score=43.82  Aligned_cols=80  Identities=19%  Similarity=0.183  Sum_probs=51.2

Q ss_pred             EEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHc--CCc
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKK--GKK  250 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~--~kr  250 (1212)
                      +-|.|-.|.||||+|...-..     ....++++.-.+.+|.. +++.|..............+....+.+.+.+  +..
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~e-m~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~   75 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDDE-MAERIARHRKRRPAHWRTIETPRDLVSALKELDPGD   75 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCHH-HHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCC
Confidence            568999999999999987543     23567788777778763 6666665444443344444444556666643  133


Q ss_pred             EEEecCcc
Q 000945          251 ILVLDNIW  258 (1212)
Q Consensus       251 ~LVLDDVw  258 (1212)
                      ++++|.+-
T Consensus        76 ~VLIDclt   83 (169)
T cd00544          76 VVLIDCLT   83 (169)
T ss_pred             EEEEEcHh
Confidence            45889764

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.

>PRK04182 cytidylate kinase; Provisional

Probab=89.52  E-value=0.3  Score=49.48  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=21.7

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|.|.|+.|.||||+|+.+.+...
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg   25 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999988654

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=89.46  E-value=2.2  Score=45.38  Aligned_cols=47  Identities=17%  Similarity=0.366  Sum_probs=33.3

Q ss_pred             CceEEEEEecCCCchhHHHHH-HHHHhhhcCCCCEEEEEEecCCCCHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKI-VFYQAKKLKLCDEVVFVEVSQTPDVKRIQGD  220 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~-vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~  220 (1212)
                      .-+++-|.|.+|.||||+|.. +|+-.+   .-+.++|++..+  +...+.+.
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~---~ge~~lyvs~ee--~~~~i~~~   67 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ---MGEPGIYVALEE--HPVQVRRN   67 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHH---cCCcEEEEEeeC--CHHHHHHH
Confidence            467899999999999999976 566543   246677877654  44445444

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=89.46  E-value=0.3  Score=48.89  Aligned_cols=24  Identities=38%  Similarity=0.353  Sum_probs=21.3

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|-|.|.+|.||||+|+.+-+...
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~   25 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLG   25 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999999843

>TIGR00750 lao LAO/AO transport system ATPase

Probab=89.45  E-value=0.39  Score=53.06  Aligned_cols=38  Identities=26%  Similarity=0.430  Sum_probs=29.6

Q ss_pred             HHHHHHHhC--CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          158 LNDALDALS--NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       158 ~~~l~~~L~--~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+++-+.  .....+|+|.|.+|.|||||+..+.....
T Consensus        20 ~~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~~~   59 (300)
T TIGR00750        20 AKQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMELR   59 (300)
T ss_pred             HHHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            344555554  35688999999999999999999887654

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.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=89.44  E-value=0.26  Score=51.81  Aligned_cols=27  Identities=33%  Similarity=0.407  Sum_probs=23.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||.+.++.-.+
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g~l~   53 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAGLLK   53 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            457899999999999999999998554

>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=89.44  E-value=0.26  Score=27.49  Aligned_cols=17  Identities=18%  Similarity=0.278  Sum_probs=9.6

Q ss_pred             CCccEEEeccCCCccccC
Q 000945          989 PSLEDLFVIECPKMKIFS 1006 (1212)
Q Consensus       989 ~sL~~L~i~~C~~l~~lp 1006 (1212)
                      ++|+.|++++|. ++++|
T Consensus         1 ~~L~~L~l~~n~-L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNR-LTSLP   17 (17)
T ss_dssp             TT-SEEEETSS---SSE-
T ss_pred             CccCEEECCCCC-CCCCc
Confidence            467888888886 66665

...

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=89.40  E-value=0.44  Score=52.88  Aligned_cols=47  Identities=15%  Similarity=0.229  Sum_probs=36.9

Q ss_pred             CcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHH
Q 000945          147 GYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ....|+|.++.++.++-.+.+.+..-+-+.|..|+||||+|+.+-.-
T Consensus         6 ~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~l   52 (334)
T PRK13407          6 PFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAAL   52 (334)
T ss_pred             CHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHH
Confidence            35568899988887776555445556889999999999999998664

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=89.36  E-value=1.2  Score=41.98  Aligned_cols=106  Identities=21%  Similarity=0.186  Sum_probs=38.2

Q ss_pred             hHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCccc
Q 000945          818 IGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLIN  897 (1212)
Q Consensus       818 ~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~  897 (1212)
                      ...|.++++|+.+.+. +.+..+..     ..+..+++|+.+.+.+  .+..+.   ...+.++++|+.+.+.+  .+..
T Consensus         5 ~~~F~~~~~l~~i~~~-~~~~~I~~-----~~F~~~~~l~~i~~~~--~~~~i~---~~~F~~~~~l~~i~~~~--~~~~   71 (129)
T PF13306_consen    5 NNAFYNCSNLESITFP-NTIKKIGE-----NAFSNCTSLKSINFPN--NLTSIG---DNAFSNCKSLESITFPN--NLKS   71 (129)
T ss_dssp             TTTTTT-TT--EEEET-ST--EE-T-----TTTTT-TT-SEEEESS--TTSCE----TTTTTT-TT-EEEEETS--TT-E
T ss_pred             HHHHhCCCCCCEEEEC-CCeeEeCh-----hhcccccccccccccc--cccccc---eeeeecccccccccccc--cccc
Confidence            3344555555555543 22333321     1223344555555544  233332   12344555566666643  3333


Q ss_pred             ccCCc-cccCCccEEeeccccCcccccchhhhcccccccEEEec
Q 000945          898 LVPSS-ASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRID  940 (1212)
Q Consensus       898 lp~~~-~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~  940 (1212)
                      ++... ..+++|+.+.+..  ++..++... +.+. .|+.+.+.
T Consensus        72 i~~~~F~~~~~l~~i~~~~--~~~~i~~~~-f~~~-~l~~i~~~  111 (129)
T PF13306_consen   72 IGDNAFSNCTNLKNIDIPS--NITEIGSSS-FSNC-NLKEINIP  111 (129)
T ss_dssp             E-TTTTTT-TTECEEEETT--T-BEEHTTT-TTT--T--EEE-T
T ss_pred             cccccccccccccccccCc--cccEEchhh-hcCC-CceEEEEC
Confidence            43322 2356666666643  344443322 2333 55555543

>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=89.36  E-value=0.41  Score=46.49  Aligned_cols=34  Identities=24%  Similarity=0.425  Sum_probs=28.6

Q ss_pred             HHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          158 LNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       158 ~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+++.+++.+   +++.++|..|+|||||...+..+.
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            5667777754   789999999999999999999865

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.

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=89.28  E-value=0.26  Score=49.73  Aligned_cols=21  Identities=48%  Similarity=0.627  Sum_probs=19.5

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      +|+|.|+.|.||||+|+.+-+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999876

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=89.25  E-value=0.27  Score=53.75  Aligned_cols=25  Identities=32%  Similarity=0.456  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++|+|.|-||+||||+|-.+-.-..
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La   26 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALA   26 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHH
Confidence            5789999999999999988766543

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.

>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=89.25  E-value=1  Score=47.58  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=21.5

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ||||.|-.|.||||+|+.+....+
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~   24 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFA   24 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999887654

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.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=89.24  E-value=1.6  Score=52.42  Aligned_cols=49  Identities=18%  Similarity=0.245  Sum_probs=38.6

Q ss_pred             CcccccchHHHHHHHHHHhCCCC-ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALSNPN-VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~-~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....|+|.+..++.|.+++..+. ...+-++|..|+||||+|+.+-+...
T Consensus        14 sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~   63 (624)
T PRK14959         14 TFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALN   63 (624)
T ss_pred             CHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhcc
Confidence            45567888888888888777654 35677899999999999999887654

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

Probab=89.20  E-value=6  Score=48.57  Aligned_cols=42  Identities=24%  Similarity=0.319  Sum_probs=33.3

Q ss_pred             ccchHHHHHHHHHHhC-------C--CCceEEEEEecCCCchhHHHHHHHH
Q 000945          151 FESRKSILNDALDALS-------N--PNVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~-------~--~~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      |+|.++.++.+.+.+.       +  ..+.+.-.+|+-|||||-||+.+-.
T Consensus       493 ViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~  543 (786)
T COG0542         493 VIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAE  543 (786)
T ss_pred             eeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHH
Confidence            6888999988888775       1  2456677899999999988887766

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=89.14  E-value=0.28  Score=49.17  Aligned_cols=25  Identities=28%  Similarity=0.276  Sum_probs=21.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..|.|+|+.|.||||+|+.+-....
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg   27 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALG   27 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3588999999999999999988653

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=89.05  E-value=0.27  Score=53.14  Aligned_cols=24  Identities=29%  Similarity=0.447  Sum_probs=21.4

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|||.|..|.||||+++.+..-..
T Consensus         1 iigI~G~sGsGKSTl~~~L~~ll~   24 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSLFG   24 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhhC
Confidence            589999999999999999987653

This enzyme 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.

>PRK06936 type III secretion system ATPase; Provisional

Probab=89.05  E-value=1.4  Score=50.41  Aligned_cols=89  Identities=21%  Similarity=0.312  Sum_probs=54.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCcc----cCCChh---H----
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLYI----CEGSES---E----  236 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~~----~~~~~~---~----  236 (1212)
                      .-..++|+|..|+|||||.+.+.+...    -+.++++-+.+..+ +..+....+..-+.+.    ...+++   .    
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            445799999999999999999998654    36778887877654 4444444333211110    001111   1    


Q ss_pred             --HHHHHHHHHH-cCCcEE-EecCccccc
Q 000945          237 --RAMVLCGLLK-KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       237 --~~~~l~~~L~-~~kr~L-VLDDVw~~~  261 (1212)
                        .+..+-++++ .||++| ++||+-.-.
T Consensus       237 ~~~a~tiAEyfrd~G~~Vll~~DslTR~A  265 (439)
T PRK06936        237 GFVATSIAEYFRDQGKRVLLLMDSVTRFA  265 (439)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhHHH
Confidence              1223444443 369999 999986553

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=89.00  E-value=2.4  Score=44.99  Aligned_cols=47  Identities=21%  Similarity=0.245  Sum_probs=33.8

Q ss_pred             CceEEEEEecCCCchhHHHHHH-HHHhhhcCCCCEEEEEEecCCCCHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIV-FYQAKKLKLCDEVVFVEVSQTPDVKRIQGD  220 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~v-yn~~~v~~~F~~~~wv~vs~~~~~~~l~~~  220 (1212)
                      .-+++.|+|..|.||||+|..+ |+-.+  . =..++|++..+.+  ..+.+.
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~--~-g~~~~y~~~e~~~--~~~~~~   71 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGALK--Q-GKKVYVITTENTS--KSYLKQ   71 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHHh--C-CCEEEEEEcCCCH--HHHHHH
Confidence            4678999999999999999997 55443  2 2567888776543  444444

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=88.99  E-value=0.3  Score=48.54  Aligned_cols=21  Identities=33%  Similarity=0.328  Sum_probs=17.8

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |+|.|..|.|||||++.+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999976

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=88.95  E-value=0.75  Score=50.54  Aligned_cols=46  Identities=22%  Similarity=0.380  Sum_probs=28.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRI  217 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l  217 (1212)
                      .++|-+.|.|||||||+|-+.-=...  +......-|.+-.-.++..+
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA--~~g~kvLlvStDPAhsL~d~   47 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLA--ESGKKVLLVSTDPAHSLGDV   47 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHH--HcCCcEEEEEeCCCCchHhh
Confidence            46888999999999999988333333  22344455544444444443

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=88.93  E-value=0.33  Score=48.64  Aligned_cols=35  Identities=23%  Similarity=0.228  Sum_probs=27.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .-.|+.|+|..|.|||||.|.+..=+.+.   ...+|+
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE~~~---~G~I~i   61 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLEEPD---SGSITV   61 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCcCCC---CceEEE
Confidence            45689999999999999999987644432   456666

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=88.91  E-value=0.49  Score=56.68  Aligned_cols=49  Identities=27%  Similarity=0.430  Sum_probs=38.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....++|.+..++.+...+......-|-|+|..|+||||+|+.+++..+
T Consensus        63 ~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~  111 (531)
T TIGR02902        63 SFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAK  111 (531)
T ss_pred             CHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhh
Confidence            3456889988888888776644444557899999999999999998643

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=88.87  E-value=0.56  Score=53.69  Aligned_cols=49  Identities=22%  Similarity=0.363  Sum_probs=39.9

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++|.+..++.+.+++..+.. ..+-++|..|+||||+|+.+....
T Consensus        11 ~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l   60 (355)
T TIGR02397        11 QTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKAL   60 (355)
T ss_pred             CcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3455678999999999998876554 356789999999999999988764

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=88.79  E-value=3  Score=50.71  Aligned_cols=100  Identities=21%  Similarity=0.127  Sum_probs=67.8

Q ss_pred             HHHHHHHhCC-CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecC-CCCHHHHHHHHHHHhcCcccC----
Q 000945          158 LNDALDALSN-PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQ-TPDVKRIQGDIADQLGLYICE----  231 (1212)
Q Consensus       158 ~~~l~~~L~~-~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~~~----  231 (1212)
                      ...+++.|.. .+.+.+-|..+.|.|||||+-.-....   ..=..+.|....+ +-|..++.+.+++.++.-...    
T Consensus        24 R~rL~~~L~~~~~~RL~li~APAGfGKttl~aq~~~~~---~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~~  100 (894)
T COG2909          24 RPRLLDRLRRANDYRLILISAPAGFGKTTLLAQWRELA---ADGAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGDE  100 (894)
T ss_pred             cHHHHHHHhcCCCceEEEEeCCCCCcHHHHHHHHHHhc---CcccceeEeecCCccCCHHHHHHHHHHHHHHhCccccHH
Confidence            3567777764 489999999999999999998876522   2235689998864 567889999998888643221    


Q ss_pred             ----------CChhHHHHHHHHHHHc-CCcEE-EecCcccc
Q 000945          232 ----------GSESERAMVLCGLLKK-GKKIL-VLDNIWTS  260 (1212)
Q Consensus       232 ----------~~~~~~~~~l~~~L~~-~kr~L-VLDDVw~~  260 (1212)
                                .+.....+.+...|.+ .+... ||||.--.
T Consensus       101 a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli  141 (894)
T COG2909         101 AQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLI  141 (894)
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEecccccc
Confidence                      1222345555555543 24545 99996544

>COG3899 Predicted ATPase [General function prediction only]

Probab=88.78  E-value=1.3  Score=56.37  Aligned_cols=45  Identities=27%  Similarity=0.350  Sum_probs=39.8

Q ss_pred             ccchHHHHHHHHHHhC---CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          151 FESRKSILNDALDALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++||+.+.+.|...+.   .+.-.|+.+.|-.|||||+|++.|.....
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~   49 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPIT   49 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHh
Confidence            6899999999988775   45677999999999999999999999766

>PRK12678 transcription termination factor Rho; Provisional

Probab=88.73  E-value=1.9  Score=50.27  Aligned_cols=95  Identities=19%  Similarity=0.164  Sum_probs=53.4

Q ss_pred             HHHHhC-CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE-EecCCCC-HHHHHHHHHHHhcCcc----cCCC
Q 000945          161 ALDALS-NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV-EVSQTPD-VKRIQGDIADQLGLYI----CEGS  233 (1212)
Q Consensus       161 l~~~L~-~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv-~vs~~~~-~~~l~~~il~~l~~~~----~~~~  233 (1212)
                      +++++. -..-....|+|..|+|||||++.|-|.... .+=++.++| -|.+... +..+.+.    +..+.    ....
T Consensus       406 vIDll~PIGkGQR~LIvgpp~aGKTtLL~~IAn~i~~-n~~~~~~ivvLIgERpeEVtdm~rs----VkgeVVasT~D~p  480 (672)
T PRK12678        406 VIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAITT-NNPECHLMVVLVDERPEEVTDMQRS----VKGEVIASTFDRP  480 (672)
T ss_pred             eeeeecccccCCEeEEeCCCCCCHHHHHHHHHHHHhh-cCCCeEEEEEEEeCchhhHHHHHHh----ccceEEEECCCCC
Confidence            444444 123456789999999999999999997652 344555554 4444433 3333333    31111    0011


Q ss_pred             ------hhHHHHHHHHHH-HcCCcEE-EecCcccc
Q 000945          234 ------ESERAMVLCGLL-KKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       234 ------~~~~~~~l~~~L-~~~kr~L-VLDDVw~~  260 (1212)
                            .-...-.+-+++ ..|+.+| ++|++-..
T Consensus       481 ~~~~~~~a~~ai~~Ae~fre~G~dVlillDSlTR~  515 (672)
T PRK12678        481 PSDHTTVAELAIERAKRLVELGKDVVVLLDSITRL  515 (672)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCchHH
Confidence                  112233344555 3479999 99997644

>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional

Probab=88.71  E-value=0.6  Score=53.31  Aligned_cols=26  Identities=35%  Similarity=0.524  Sum_probs=23.8

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      --||+|+|..|.|||||+..+....+
T Consensus         5 ~~~i~i~G~~gsGKTTl~~~l~~~l~   30 (369)
T PRK14490          5 PFEIAFCGYSGSGKTTLITALVRRLS   30 (369)
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHHh
Confidence            35899999999999999999999876

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

Probab=88.67  E-value=0.65  Score=50.21  Aligned_cols=54  Identities=26%  Similarity=0.240  Sum_probs=41.2

Q ss_pred             cccCCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          142 LMCSEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       142 ~~~~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..|......|-|-++++++|-+...    +         +.-+=|-.||++|.|||-||++|-|+..
T Consensus       144 e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~  210 (406)
T COG1222         144 EKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTD  210 (406)
T ss_pred             cCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccC
Confidence            3456667778888988888776553    1         2344467899999999999999999766

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=88.66  E-value=0.38  Score=48.23  Aligned_cols=23  Identities=43%  Similarity=0.576  Sum_probs=20.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +|+|.|+.|.||||+|+.+-+..
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            79999999999999999997754

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

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

Probab=88.66  E-value=0.51  Score=48.28  Aligned_cols=52  Identities=23%  Similarity=0.285  Sum_probs=40.6

Q ss_pred             CCCcccccchHHHHHH---HHHHhCCC------CceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          145 SEGYEAFESRKSILND---ALDALSNP------NVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~---l~~~L~~~------~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      ......++|.++.+.+   |++.|.+.      ..+-|-.+|..|.|||.+|+++-|..++
T Consensus       117 ~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kv  177 (368)
T COG1223         117 DITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKV  177 (368)
T ss_pred             cccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCC
Confidence            4455667888877644   77777743      4667889999999999999999998774

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=88.64  E-value=0.35  Score=48.86  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=22.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998754

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=88.64  E-value=0.74  Score=51.75  Aligned_cols=51  Identities=18%  Similarity=0.103  Sum_probs=41.6

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.....++|.+...+.+...+..+.+ ..+-|+|.-|+||||+|+.+-...-
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Ll   70 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHIL   70 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHc
Confidence            44566789999999999998876654 3588999999999999998887653

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=88.63  E-value=2.4  Score=48.74  Aligned_cols=101  Identities=19%  Similarity=0.276  Sum_probs=61.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCcc-------cCCChhH----
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLYI-------CEGSESE----  236 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~~-------~~~~~~~----  236 (1212)
                      .-..++|.|-.|+|||||+..+-..... ++=+.++++-|-+.-+ +..+.+++...=....       .......    
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~~-~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a  220 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIAK-EHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRV  220 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHHh-cCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            3456899999999999999998776542 2224777777766543 5666666654211110       0111111    


Q ss_pred             --HHHHHHHHHHc--CCcEE-EecCccccccccccceeeecc
Q 000945          237 --RAMVLCGLLKK--GKKIL-VLDNIWTSLDLDKKLEILSLV  273 (1212)
Q Consensus       237 --~~~~l~~~L~~--~kr~L-VLDDVw~~~~~~~~Lr~L~ls  273 (1212)
                        .+..+-++++.  |+.+| |+||+-+-.+   .+|.+.+.
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLll~DslTR~A~---A~REisl~  259 (461)
T TIGR01039       221 ALTGLTMAEYFRDEQGQDVLLFIDNIFRFTQ---AGSEVSAL  259 (461)
T ss_pred             HHHHHHHHHHHHHhcCCeeEEEecchhHHHH---HHHHHHHh
Confidence              23445666643  69999 9999875543   45555443

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.

>cd01862 Rab7 Rab7 subfamily

Probab=88.61  E-value=0.28  Score=49.23  Aligned_cols=22  Identities=27%  Similarity=0.395  Sum_probs=19.7

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998775

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>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=88.60  E-value=0.32  Score=27.19  Aligned_cols=10  Identities=50%  Similarity=0.477  Sum_probs=4.2

Q ss_pred             CccEEeeccc
Q 000945          907 NLTTLELWYC  916 (1212)
Q Consensus       907 ~L~~L~l~~c  916 (1212)
                      +|+.|+|++|
T Consensus         2 ~L~~L~l~~n   11 (17)
T PF13504_consen    2 NLRTLDLSNN   11 (17)
T ss_dssp             T-SEEEETSS
T ss_pred             ccCEEECCCC
Confidence            3444444444

...

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=88.58  E-value=0.52  Score=50.96  Aligned_cols=43  Identities=30%  Similarity=0.384  Sum_probs=37.6

Q ss_pred             CcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHH
Q 000945          147 GYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKI  189 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~  189 (1212)
                      ..-||-+|..+..--+++|.++++..|.+.|.+|.|||-||-+
T Consensus       222 ~vwGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALa  264 (436)
T COG1875         222 EVWGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALA  264 (436)
T ss_pred             hhhccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHH
Confidence            3456778888888889999999999999999999999988765

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=88.57  E-value=0.34  Score=48.40  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=21.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      .-.+++|+|..|.|||||.+.+..
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            346899999999999999999964

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>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=88.56  E-value=0.89  Score=47.39  Aligned_cols=40  Identities=28%  Similarity=0.429  Sum_probs=30.6

Q ss_pred             HHHHHHHHhC--CCCceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          157 ILNDALDALS--NPNVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       157 ~~~~l~~~L~--~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      +..++++.+.  ..+..+|||-|.+|.||+||.-.+-...+-
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~   55 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRE   55 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhh
Confidence            4556777665  457889999999999999999998877663

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=88.52  E-value=0.35  Score=50.55  Aligned_cols=27  Identities=22%  Similarity=0.278  Sum_probs=23.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||++.+..-..
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~~~   52 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGLLG   52 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            346899999999999999999998543

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=88.51  E-value=1.3  Score=50.79  Aligned_cols=97  Identities=15%  Similarity=0.257  Sum_probs=57.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCC-CHHHHHHHHHHHhcCc----c-cCCC--hh-----
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTP-DVKRIQGDIADQLGLY----I-CEGS--ES-----  235 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~----~-~~~~--~~-----  235 (1212)
                      .-..++|+|..|.|||||++.+.+...    .+..+++.+.+.. .+.....+....=...    . ...+  ..     
T Consensus       154 ~GqrigI~G~sG~GKSTLL~~I~~~~~----~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a  229 (433)
T PRK07594        154 EGQRVGIFSAPGVGKSTLLAMLCNAPD----ADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRA  229 (433)
T ss_pred             CCCEEEEECCCCCCccHHHHHhcCCCC----CCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHH
Confidence            456899999999999999999987543    5666777676544 3445555544311010    0 0011  11     


Q ss_pred             -HHHHHHHHHHH-cCCcEE-EecCccccccccccceeeec
Q 000945          236 -ERAMVLCGLLK-KGKKIL-VLDNIWTSLDLDKKLEILSL  272 (1212)
Q Consensus       236 -~~~~~l~~~L~-~~kr~L-VLDDVw~~~~~~~~Lr~L~l  272 (1212)
                       ..+..+-++++ +||++| ++||+-.-.+   .+|...+
T Consensus       230 ~~~a~tiAEyfrd~G~~VLl~~Dsltr~A~---A~REisl  266 (433)
T PRK07594        230 LFVATTIAEFFRDNGKRVVLLADSLTRYAR---AAREIAL  266 (433)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCHHHHHH---HHHHHHH
Confidence             11233445553 368999 9999875533   4444444

>PTZ00035 Rad51 protein; Provisional

Probab=88.50  E-value=2.2  Score=47.74  Aligned_cols=58  Identities=24%  Similarity=0.287  Sum_probs=40.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhc---C-CCCEEEEEEecCCCCHHHHHHHHHHHhcC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKL---K-LCDEVVFVEVSQTPDVKRIQGDIADQLGL  227 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~---~-~F~~~~wv~vs~~~~~~~l~~~il~~l~~  227 (1212)
                      .-.++-|+|..|.|||||+..+.-.....   . .=..++||.....|+..++ .++++.++.
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~  178 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGL  178 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCC
Confidence            46789999999999999998876443311   0 1135669988888888874 444555544

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=88.48  E-value=0.83  Score=54.00  Aligned_cols=58  Identities=17%  Similarity=0.261  Sum_probs=42.9

Q ss_pred             CCcccccchHHHHHHHHHHhCC-----CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEE
Q 000945          146 EGYEAFESRKSILNDALDALSN-----PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVE  207 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~-----~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~  207 (1212)
                      .....+.-..+.++++-.||.+     ...+++-+.|+.|+||||.++.+.+...    |+.+=|..
T Consensus        16 ~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg----~~v~Ew~n   78 (519)
T PF03215_consen   16 KTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG----FEVQEWIN   78 (519)
T ss_pred             CCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC----CeeEEecC
Confidence            3344444455566777777762     2357899999999999999999998764    88888874

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=88.46  E-value=0.35  Score=50.84  Aligned_cols=27  Identities=26%  Similarity=0.362  Sum_probs=23.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||++.+..-..
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl~~   55 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGLDR   55 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCcC
Confidence            346899999999999999999998543

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=88.44  E-value=0.32  Score=53.21  Aligned_cols=24  Identities=33%  Similarity=0.466  Sum_probs=20.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++|+|.|-||+||||+|-.+---.
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~L   26 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAM   26 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Confidence            689999999999999998765543

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=88.37  E-value=0.57  Score=56.50  Aligned_cols=51  Identities=20%  Similarity=0.399  Sum_probs=41.7

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCce-EEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVN-VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~-vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.....++|.+..++.+.+++..+.+. -+-++|..|+||||+|+.+-+...
T Consensus        20 P~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~   71 (598)
T PRK09111         20 PQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALN   71 (598)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhC
Confidence            345667899999999999988765544 578999999999999999987643

>cd04155 Arl3 Arl3 subfamily

Probab=88.37  E-value=0.31  Score=48.94  Aligned_cols=25  Identities=32%  Similarity=0.325  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ....|+|+|..|+|||||++.+.+.
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcC
Confidence            3456999999999999999999874

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=88.34  E-value=0.38  Score=53.86  Aligned_cols=27  Identities=37%  Similarity=0.394  Sum_probs=23.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..-+|||.|..|.|||||++.+..-.+
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~lL~  237 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDYLFR  237 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            467999999999999999999966544

>cd01131 PilT Pilus retraction ATPase PilT

Probab=88.28  E-value=0.62  Score=47.88  Aligned_cols=86  Identities=10%  Similarity=0.055  Sum_probs=47.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec-CCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS-QTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs-~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      .+|.|+|..|.||||+++.+.....  .....+++..-. .++.... ...++.+..   -..+.......++..|..+-
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~--~~~~~~i~t~e~~~E~~~~~-~~~~i~q~~---vg~~~~~~~~~i~~aLr~~p   75 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYIN--KNKTHHILTIEDPIEFVHES-KRSLINQRE---VGLDTLSFENALKAALRQDP   75 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhh--hcCCcEEEEEcCCccccccC-ccceeeecc---cCCCccCHHHHHHHHhcCCc
Confidence            4689999999999999999887654  334445443211 1111100 001111100   01112234555666676556


Q ss_pred             cEEEecCcccccc
Q 000945          250 KILVLDNIWTSLD  262 (1212)
Q Consensus       250 r~LVLDDVw~~~~  262 (1212)
                      .++++|.+-+.+.
T Consensus        76 d~ii~gEird~e~   88 (198)
T cd01131          76 DVILVGEMRDLET   88 (198)
T ss_pred             CEEEEcCCCCHHH
Confidence            6779999866554

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=88.27  E-value=0.35  Score=48.39  Aligned_cols=27  Identities=44%  Similarity=0.517  Sum_probs=23.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||++.+..-..
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   50 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQLI   50 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            446899999999999999999987543

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK14738 gmk guanylate kinase; Provisional

Probab=88.21  E-value=0.38  Score=49.79  Aligned_cols=25  Identities=16%  Similarity=0.272  Sum_probs=22.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .-..|.|+|..|+|||||++.+.+.
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            4678889999999999999999764

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=88.12  E-value=0.35  Score=52.90  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=19.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      ++|+|+|=||+||||+|-.+--
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~   23 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVA   23 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHH
Confidence            5899999999999999977655

>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional

Probab=88.10  E-value=0.38  Score=49.06  Aligned_cols=21  Identities=29%  Similarity=0.464  Sum_probs=19.1

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      +|+|.||.|.||+|.|+.+-.
T Consensus         2 iI~i~G~~gsGKstva~~~~~   22 (227)
T PHA02575          2 LIAISGKKRSGKDTVADFIIE   22 (227)
T ss_pred             EEEEeCCCCCCHHHHHHHHHh
Confidence            799999999999999999843

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=88.08  E-value=0.37  Score=52.37  Aligned_cols=26  Identities=31%  Similarity=0.436  Sum_probs=21.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .++|+|.|-||+||||+|..+-....
T Consensus         2 ~~~iav~~KGGvGKTT~a~nLA~~La   27 (264)
T PRK13231          2 MKKIAIYGKGGIGKSTTVSNMAAAYS   27 (264)
T ss_pred             ceEEEEECCCCCcHHHHHHHHhcccC
Confidence            36899999999999999988776554

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=88.07  E-value=0.35  Score=53.13  Aligned_cols=25  Identities=24%  Similarity=0.355  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++|+|+|-||+||||+|-.+-.-..
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~~La   25 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSHMMA   25 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5899999999999999988766443

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=88.06  E-value=2.1  Score=49.49  Aligned_cols=101  Identities=18%  Similarity=0.155  Sum_probs=61.4

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCC--EEEEEEecCCCC-HHHHHHHHHHHhcCcc----cCCChh-------
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCD--EVVFVEVSQTPD-VKRIQGDIADQLGLYI----CEGSES-------  235 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~--~~~wv~vs~~~~-~~~l~~~il~~l~~~~----~~~~~~-------  235 (1212)
                      =..++|.|-.|+|||||+..|-+.......+.  .++++-+-+..+ +..+...+...=..+.    ...+++       
T Consensus       141 GQR~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~  220 (458)
T TIGR01041       141 GQKLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIV  220 (458)
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHH
Confidence            34689999999999999999988765431121  566777766554 5566666653321110    001111       


Q ss_pred             --HHHHHHHHHHH--cCCcEE-EecCccccccccccceeeecc
Q 000945          236 --ERAMVLCGLLK--KGKKIL-VLDNIWTSLDLDKKLEILSLV  273 (1212)
Q Consensus       236 --~~~~~l~~~L~--~~kr~L-VLDDVw~~~~~~~~Lr~L~ls  273 (1212)
                        -.+..+-+.++  +|+++| ++||+-.-.+   .+|.+.+.
T Consensus       221 a~~~a~tiAEyfr~d~G~~VLli~DslTR~A~---A~REIsl~  260 (458)
T TIGR01041       221 TPRMALTAAEYLAFEKDMHVLVILTDMTNYCE---ALREISAA  260 (458)
T ss_pred             HHHHHHHHHHHHHHccCCcEEEEEcChhHHHH---HHHHHHHh
Confidence              12344667776  479999 9999865433   45555443

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=88.06  E-value=0.39  Score=50.17  Aligned_cols=26  Identities=35%  Similarity=0.584  Sum_probs=21.1

Q ss_pred             ceEEEEEec-CCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGL-GGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~Gm-gGiGKTTLA~~vyn~~~  195 (1212)
                      .++|+|+|. ||+||||+|-.+---..
T Consensus         1 M~~iai~s~kGGvG~TTltAnLA~aL~   27 (243)
T PF06564_consen    1 MKVIAIVSPKGGVGKTTLTANLAWALA   27 (243)
T ss_pred             CcEEEEecCCCCCCHHHHHHHHHHHHH
Confidence            368999996 89999999988776544

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=88.05  E-value=1.7  Score=53.43  Aligned_cols=85  Identities=21%  Similarity=0.248  Sum_probs=55.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC------CChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE------GSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~------~~~~~~~~~l~  242 (1212)
                      .-+++=|+|..|+||||||-.+.-...  ..=..++|+.....++..     .+++++.+...      .+.++....+.
T Consensus        59 ~GsiteI~G~~GsGKTtLal~~~~~a~--~~G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~i~  131 (790)
T PRK09519         59 RGRVIEIYGPESSGKTTVALHAVANAQ--AAGGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEIAD  131 (790)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--HcCCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHHHH
Confidence            457888999999999999966444332  223667899888878743     66777765321      23444455555


Q ss_pred             HHHHcCCcEE-EecCcccc
Q 000945          243 GLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~~kr~L-VLDDVw~~  260 (1212)
                      ..++.++-=| |+|.+-..
T Consensus       132 ~lv~~~~~~LVVIDSI~aL  150 (790)
T PRK09519        132 MLIRSGALDIVVIDSVAAL  150 (790)
T ss_pred             HHhhcCCCeEEEEcchhhh
Confidence            5555434445 99987643

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

Probab=88.04  E-value=0.43  Score=52.42  Aligned_cols=29  Identities=24%  Similarity=0.351  Sum_probs=25.5

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      .-...++|||..|.|||.+|++|+++..+
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~  174 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGI  174 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCC
Confidence            35678999999999999999999998763

>PRK08356 hypothetical protein; Provisional

Probab=88.03  E-value=0.38  Score=49.40  Aligned_cols=20  Identities=40%  Similarity=0.591  Sum_probs=18.9

Q ss_pred             eEEEEEecCCCchhHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIV  190 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~v  190 (1212)
                      .+|+|.|+.|.||||+|+.+
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l   25 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFF   25 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            57999999999999999999

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=88.02  E-value=0.62  Score=47.74  Aligned_cols=37  Identities=32%  Similarity=0.320  Sum_probs=27.4

Q ss_pred             HHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          160 DALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       160 ~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      +.+..+...+-+++.|.|.+|.||||+++.+......
T Consensus         8 ~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~   44 (196)
T PF13604_consen    8 EAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEA   44 (196)
T ss_dssp             HHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHh
Confidence            3444443334568889999999999999999887663

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=88.00  E-value=0.39  Score=49.16  Aligned_cols=26  Identities=31%  Similarity=0.326  Sum_probs=22.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+++|+|..|.|||||++.+..-..
T Consensus        18 Ge~~~i~G~nGsGKSTLl~~i~G~~~   43 (190)
T TIGR01166        18 GEVLALLGANGAGKSTLLLHLNGLLR   43 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            45899999999999999999987543

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>PRK14527 adenylate kinase; Provisional

Probab=87.99  E-value=0.44  Score=48.77  Aligned_cols=27  Identities=26%  Similarity=0.229  Sum_probs=23.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|.|+|.+|.||||+|+.+.+...
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346899999999999999999987654

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=87.98  E-value=2.9  Score=44.61  Aligned_cols=88  Identities=15%  Similarity=0.195  Sum_probs=51.7

Q ss_pred             ceEEEEEecCCCchhHHH-HHHHHHhhhcCCCCEE-EEEEecCCCC-HHHHHHHHHHHhcCcc-------cCCChhH---
Q 000945          170 VNVIGLCGLGGIGKTTLA-KIVFYQAKKLKLCDEV-VFVEVSQTPD-VKRIQGDIADQLGLYI-------CEGSESE---  236 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA-~~vyn~~~v~~~F~~~-~wv~vs~~~~-~~~l~~~il~~l~~~~-------~~~~~~~---  236 (1212)
                      =..++|+|-.|+|||||| +.+-+..    +-+.+ +++-+-+..+ +..+.+.+.+.=..+.       ..+....   
T Consensus        69 GQr~~Ifg~~g~GKt~L~l~~i~~~~----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  144 (274)
T cd01132          69 GQRELIIGDRQTGKTAIAIDTIINQK----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYL  144 (274)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHHhc----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHH
Confidence            356899999999999995 6676643    23555 6666766654 5566666654321110       0111111   


Q ss_pred             ---HHHHHHHHHH-cCCcEE-EecCccccc
Q 000945          237 ---RAMVLCGLLK-KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       237 ---~~~~l~~~L~-~~kr~L-VLDDVw~~~  261 (1212)
                         .+-.+-+++. .||.+| |+||+-+-.
T Consensus       145 a~~~a~aiAE~fr~~G~~Vlvl~DslTr~A  174 (274)
T cd01132         145 APYTGCAMGEYFMDNGKHALIIYDDLSKQA  174 (274)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEcChHHHH
Confidence               1233344443 369999 999987553

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.

>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function

Probab=87.96  E-value=3.2  Score=35.49  Aligned_cols=60  Identities=20%  Similarity=0.224  Sum_probs=44.1

Q ss_pred             eEEEEEEEecchhHHHHHHhHhccCCCeeEEEE-----eCCCC--eEEEEEe-cCHHHHHHHHHhhcC
Q 000945         1117 QKAVLKLEIHGEKARQKAFSIVSKFTGVLSILF-----DPKDK--KMIVIGD-IDAVPVVRKLRKQLC 1176 (1212)
Q Consensus      1117 ~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~-----d~~~~--~~~v~g~-~d~~~~~~~l~k~~~ 1176 (1212)
                      .++||-|-..-+--.-..-+++++++||+.|.+     |.+..  ++||.|+ +|-.++.+++.+.|+
T Consensus         5 rRlVLDVlKP~~p~i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg   72 (95)
T PF02680_consen    5 RRLVLDVLKPHEPSIVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGG   72 (95)
T ss_dssp             EEEEEEEEEESSS-HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-
T ss_pred             eEEEEEeecCCCCCHHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCC
Confidence            467777776655556667788999999987765     43333  7999999 999999999999887

; PDB: 3BPD_I 2RAQ_F 2X3D_E.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=87.93  E-value=1.1  Score=41.22  Aligned_cols=43  Identities=14%  Similarity=0.273  Sum_probs=32.0

Q ss_pred             ccchHHHHHHHHHHhC-------CCCceEEEEEecCCCchhHHHHHHHHH
Q 000945          151 FESRKSILNDALDALS-------NPNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~-------~~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ++|..-..+.+++.+.       ....-|++..|..|+|||.+|+.|-+.
T Consensus        27 l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   27 LFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             ccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            5666666666666665       235779999999999999877776665

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

>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=87.91  E-value=0.42  Score=45.55  Aligned_cols=26  Identities=38%  Similarity=0.496  Sum_probs=23.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.|+||||-.|.|||||...+-....
T Consensus        32 GeVLgiVGESGSGKtTLL~~is~rl~   57 (258)
T COG4107          32 GEVLGIVGESGSGKTTLLKCISGRLT   57 (258)
T ss_pred             CcEEEEEecCCCcHHhHHHHHhcccC
Confidence            35899999999999999999988655

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=87.91  E-value=0.26  Score=50.62  Aligned_cols=90  Identities=14%  Similarity=0.059  Sum_probs=51.6

Q ss_pred             cccceeeeecccccccccccc--CcccccccceEeEeecCCccccchHHHh-------------hcCccceeEEEcccee
Q 000945          774 TSKLEELKLSGKDIAMICQSQ--FPKHIFRNLKNLEVVNDESENFRIGFLE-------------RFHNLEKLELRWSSYK  838 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~--~~~~~~~~L~~L~l~~~~~~~~p~~~l~-------------~l~~L~~L~l~c~~l~  838 (1212)
                      +|.|+..++|.|.+..-.+..  ..+..-+.|.+|.+++|+++.+..+-++             +-|.|+......|.+.
T Consensus        91 cp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRle  170 (388)
T COG5238          91 CPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLE  170 (388)
T ss_pred             CCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhc
Confidence            567777788877765443311  1123456788888888888877655443             2366777666666664


Q ss_pred             EeccccchhhccccccccceEeeCCC
Q 000945          839 EIFSNEEIVEHAEMLTQVKSLKLWEL  864 (1212)
Q Consensus       839 ~~~~~~~~~~~~~~l~~L~~L~l~~c  864 (1212)
                      .-+ ...+...++....|+.+.|..+
T Consensus       171 ngs-~~~~a~~l~sh~~lk~vki~qN  195 (388)
T COG5238         171 NGS-KELSAALLESHENLKEVKIQQN  195 (388)
T ss_pred             cCc-HHHHHHHHHhhcCceeEEeeec
Confidence            422 1111122333356777776653

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=87.87  E-value=0.39  Score=50.34  Aligned_cols=35  Identities=23%  Similarity=0.289  Sum_probs=26.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .-.+++|+|..|.|||||++.+..-..   .....+++
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~---~~~G~i~~   62 (216)
T TIGR00960        28 KGEMVFLVGHSGAGKSTFLKLILGIEK---PTRGKIRF   62 (216)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC---CCceEEEE
Confidence            346899999999999999999998543   23445544

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

Probab=87.86  E-value=2.2  Score=45.38  Aligned_cols=40  Identities=25%  Similarity=0.211  Sum_probs=30.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhc--CCCCEEEEEEe
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKL--KLCDEVVFVEV  208 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~--~~F~~~~wv~v  208 (1212)
                      .-++|-+.|++|.|||+|.+++..+..++  +.+....-+.+
T Consensus       176 ~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEi  217 (423)
T KOG0744|consen  176 WNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEI  217 (423)
T ss_pred             eeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEE
Confidence            35678899999999999999999987654  44444455544

>cd04113 Rab4 Rab4 subfamily

Probab=87.81  E-value=0.4  Score=47.49  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.6

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999987653

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=87.81  E-value=2.1  Score=49.53  Aligned_cols=100  Identities=21%  Similarity=0.265  Sum_probs=60.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCc-----------cc-CCChh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLY-----------IC-EGSES  235 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~-----------~~-~~~~~  235 (1212)
                      .-..++|.|-.|+|||||+..+-....- .+=+.++++-+-+.-+ +..+...++..-...           .. ..+..
T Consensus       160 kGQR~gIfgg~GvGKs~L~~~~~~~~~~-~~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p  238 (494)
T CHL00060        160 RGGKIGLFGGAGVGKTVLIMELINNIAK-AHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEP  238 (494)
T ss_pred             cCCEEeeecCCCCChhHHHHHHHHHHHH-hcCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCCC
Confidence            3456899999999999999987766321 1127888888877654 566666666511000           00 01111


Q ss_pred             --------HHHHHHHHHHHc-CC-cEE-EecCccccccccccceeeec
Q 000945          236 --------ERAMVLCGLLKK-GK-KIL-VLDNIWTSLDLDKKLEILSL  272 (1212)
Q Consensus       236 --------~~~~~l~~~L~~-~k-r~L-VLDDVw~~~~~~~~Lr~L~l  272 (1212)
                              -.+..+-++++. ++ .+| ++||+-.-.+   .+|.+.+
T Consensus       239 ~~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR~A~---A~REIsl  283 (494)
T CHL00060        239 PGARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFRFVQ---AGSEVSA  283 (494)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchHHHH---HHHHHHH
Confidence                    123446677754 34 999 9999875543   4454444

>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=87.78  E-value=0.41  Score=52.75  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=19.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ++|-+.|-||+||||+|-+.-=.
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~   24 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALA   24 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHH
Confidence            57889999999999999665443

...

>COG1348 NifH Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]

Probab=87.76  E-value=0.36  Score=48.61  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.|+|+|-|||||+|.++.+-.-..
T Consensus         2 r~iAiYGKGGIGKSTts~N~aAAla   26 (278)
T COG1348           2 RQIAIYGKGGIGKSTTSQNLAAALA   26 (278)
T ss_pred             ceEEEecCCCcCcchhHHHHHHHHH
Confidence            5799999999999999998776543

>PRK14737 gmk guanylate kinase; Provisional

Probab=87.74  E-value=0.45  Score=48.18  Aligned_cols=26  Identities=15%  Similarity=0.314  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+|.|+|..|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            34689999999999999999998753

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=87.71  E-value=0.66  Score=46.66  Aligned_cols=35  Identities=17%  Similarity=0.166  Sum_probs=25.8

Q ss_pred             HHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHH
Q 000945          159 NDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       159 ~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      +.+.++........|.++|.+|+|||||...+...
T Consensus         4 ~~~~~~~~~~~~~kv~~~G~~~~GKTsl~~~l~~~   38 (174)
T cd04153           4 SSLWSLFFPRKEYKVIIVGLDNAGKTTILYQFLLG   38 (174)
T ss_pred             hHHHHHhcCCCccEEEEECCCCCCHHHHHHHHccC
Confidence            34555554334567889999999999999998753

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=87.68  E-value=1.5  Score=50.30  Aligned_cols=97  Identities=20%  Similarity=0.288  Sum_probs=52.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCC-CCHHHHHHHHHHHhcCc-------ccCCC------h
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQT-PDVKRIQGDIADQLGLY-------ICEGS------E  234 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~~-------~~~~~------~  234 (1212)
                      .-.+++|+|..|.|||||++.|.+...    .+..+...+... -++..+..+.+..-+..       ....+      .
T Consensus       154 ~GQ~igI~G~sGaGKSTLl~~I~g~~~----~dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~a  229 (434)
T PRK07196        154 KGQRVGLMAGSGVGKSVLLGMITRYTQ----ADVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIKA  229 (434)
T ss_pred             cceEEEEECCCCCCccHHHHHHhcccC----CCeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHHH
Confidence            456799999999999999999887543    244444444332 22333333433332211       01111      1


Q ss_pred             hHHHHHHHHHHH-cCCcEE-EecCccccccccccceeeec
Q 000945          235 SERAMVLCGLLK-KGKKIL-VLDNIWTSLDLDKKLEILSL  272 (1212)
Q Consensus       235 ~~~~~~l~~~L~-~~kr~L-VLDDVw~~~~~~~~Lr~L~l  272 (1212)
                      .+.+..+-+... .|+.+| ++||+-.-.+   .+|.+.+
T Consensus       230 ~e~a~~iAEyfr~~g~~Vll~~Dsltr~a~---A~REisl  266 (434)
T PRK07196        230 TELCHAIATYYRDKGHDVLLLVDSLTRYAM---AQREIAL  266 (434)
T ss_pred             HHHHHHHHHHhhhccCCEEEeecchhHHHh---hhhHHHH
Confidence            112223333332 369999 9999865533   4444444

>PF13245 AAA_19: Part of AAA domain

Probab=87.67  E-value=1.3  Score=37.07  Aligned_cols=25  Identities=32%  Similarity=0.260  Sum_probs=18.7

Q ss_pred             ceEEEEEecCCCchh-HHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKT-TLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKT-TLA~~vyn~~  194 (1212)
                      -+++.|.|.+|.||| |+++.+..-.
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            457788999999999 5565555544

>PRK04328 hypothetical protein; Provisional

Probab=87.67  E-value=2.4  Score=45.38  Aligned_cols=40  Identities=23%  Similarity=0.395  Sum_probs=29.8

Q ss_pred             CceEEEEEecCCCchhHHHHH-HHHHhhhcCCCCEEEEEEecCC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKI-VFYQAKKLKLCDEVVFVEVSQT  211 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~-vyn~~~v~~~F~~~~wv~vs~~  211 (1212)
                      .-+++-|.|.+|.||||||.. +|+-.+   .-+..+|++..+.
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~---~ge~~lyis~ee~   62 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ---MGEPGVYVALEEH   62 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh---cCCcEEEEEeeCC
Confidence            457899999999999999987 555443   2466778876553

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=87.66  E-value=0.68  Score=55.54  Aligned_cols=50  Identities=20%  Similarity=0.259  Sum_probs=40.6

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceE-EEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNV-IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~v-i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....|+|.+..++.|.+++..+.+.- +-++|..|+||||+|+.+-+...
T Consensus        10 ~~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~   60 (584)
T PRK14952         10 ATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLN   60 (584)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            345678899999999999988766554 67999999999999999887543

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=87.65  E-value=1.2  Score=50.64  Aligned_cols=38  Identities=21%  Similarity=0.305  Sum_probs=30.3

Q ss_pred             HHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          158 LNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       158 ~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+.+++.+....-..+-|.|.||.|||++.+++.+..+
T Consensus        10 ~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~   47 (364)
T PF05970_consen   10 FDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLR   47 (364)
T ss_pred             HHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhc
Confidence            44555555545567889999999999999999999876

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=87.62  E-value=2.1  Score=49.18  Aligned_cols=89  Identities=20%  Similarity=0.297  Sum_probs=52.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCC-CHHHHHHHHHHHhcCcc----cCCChh--------
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTP-DVKRIQGDIADQLGLYI----CEGSES--------  235 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~~----~~~~~~--------  235 (1212)
                      .-..++|+|..|.|||||++.+.+...    .+..+...+.... ++..+...+...-....    ...+++        
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            445799999999999999999876432    3455555554443 45555555554322210    011111        


Q ss_pred             -HHHHHHHHHHH-cCCcEE-EecCccccc
Q 000945          236 -ERAMVLCGLLK-KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       236 -~~~~~l~~~L~-~~kr~L-VLDDVw~~~  261 (1212)
                       ..+..+-++++ +|+.+| ++||+-.-.
T Consensus       243 ~~~a~aiAEyfrd~G~~VLl~~DslTR~A  271 (451)
T PRK05688        243 AMYCTRIAEYFRDKGKNVLLLMDSLTRFA  271 (451)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEecchhHHH
Confidence             11223444443 369999 999986553

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=87.61  E-value=0.38  Score=52.40  Aligned_cols=21  Identities=33%  Similarity=0.607  Sum_probs=17.9

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      +|+|.|-||+||||+|-.+--
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~   22 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSV   22 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHH
Confidence            588889999999999977654

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=87.61  E-value=1.2  Score=47.46  Aligned_cols=64  Identities=20%  Similarity=0.173  Sum_probs=32.6

Q ss_pred             HHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh-----hcCCCCEEEEEEecCCCCHHHHHHHHHH
Q 000945          158 LNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK-----KLKLCDEVVFVEVSQTPDVKRIQGDIAD  223 (1212)
Q Consensus       158 ~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~-----v~~~F~~~~wv~vs~~~~~~~l~~~il~  223 (1212)
                      .+.+...+....  +..|+|.+|.||||++..+-....     ....-+.++-++...+-.+..+...+.+
T Consensus         7 ~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen    7 REAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             HHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            344444443322  788999999999976665555441     1133444555555544444444444443

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=87.60  E-value=0.41  Score=49.16  Aligned_cols=23  Identities=43%  Similarity=0.368  Sum_probs=20.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +|.|.|+-|.||||+++.+.+..
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~~   23 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEHL   23 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999863

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>PRK15453 phosphoribulokinase; Provisional

Probab=87.54  E-value=0.55  Score=49.92  Aligned_cols=26  Identities=23%  Similarity=0.289  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...+|+|.|-.|.||||+|+.+....
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if   29 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIF   29 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999988644

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=87.53  E-value=0.39  Score=43.32  Aligned_cols=24  Identities=38%  Similarity=0.441  Sum_probs=19.1

Q ss_pred             EEEEEe-cCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCG-LGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~G-mgGiGKTTLA~~vyn~~~  195 (1212)
                      +|+++| -||+||||+|..+-.-..
T Consensus         1 ~i~~~~~kgG~Gkst~~~~la~~~~   25 (104)
T cd02042           1 VIAVANQKGGVGKTTTAVNLAAALA   25 (104)
T ss_pred             CEEEEeCCCCcCHHHHHHHHHHHHH
Confidence            467777 789999999998776554

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>COG4167 SapF ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=87.51  E-value=1.4  Score=42.69  Aligned_cols=79  Identities=18%  Similarity=0.159  Sum_probs=46.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhc----------CCC---------CEEEEEEecCCCCHHHHHHHHHHHhcCcc
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKL----------KLC---------DEVVFVEVSQTPDVKRIQGDIADQLGLYI  229 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~----------~~F---------~~~~wv~vs~~~~~~~l~~~il~~l~~~~  229 (1212)
                      .-..++|.|-.|.||+|||+.+-.-....          -+|         =.-+|-.-+..|+.+-=..+|++.--.-.
T Consensus        38 ~~QTlaiIG~NGSGKSTLakMlaGmi~PTsG~il~n~~~L~~~Dy~~R~k~IRMiFQDpnts~NPRl~iGqiLd~PL~l~  117 (267)
T COG4167          38 EGQTLAIIGENGSGKSTLAKMLAGMIEPTSGEILINDHPLHFGDYSFRSKRIRMIFQDPNTSLNPRLRIGQILDFPLRLN  117 (267)
T ss_pred             CCcEEEEEccCCCcHhHHHHHHhcccCCCCceEEECCccccccchHhhhhheeeeecCCccccChhhhhhhHhcchhhhc
Confidence            34579999999999999999986532210          001         11123333445666655566665432223


Q ss_pred             cCCChhHHHHHHHHHHHc
Q 000945          230 CEGSESERAMVLCGLLKK  247 (1212)
Q Consensus       230 ~~~~~~~~~~~l~~~L~~  247 (1212)
                      ...+..++-.++.+-|+.
T Consensus       118 T~~~~~~R~~~i~~TL~~  135 (267)
T COG4167         118 TDLEPEQRRKQIFETLRM  135 (267)
T ss_pred             ccCChHHHHHHHHHHHHH
Confidence            344555666667776664

>PLN02165 adenylate isopentenyltransferase

Probab=87.48  E-value=0.46  Score=52.00  Aligned_cols=30  Identities=23%  Similarity=0.207  Sum_probs=25.0

Q ss_pred             hCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          165 LSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       165 L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +.+..-.+|.|+|+.|+||||||..+....
T Consensus        38 ~~~~~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         38 EQNCKDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             ccCCCCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            345556699999999999999999988764

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=87.48  E-value=0.39  Score=47.83  Aligned_cols=22  Identities=23%  Similarity=0.255  Sum_probs=19.7

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.++|.+|+|||||+..+.++.
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999988754

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=87.46  E-value=0.43  Score=49.06  Aligned_cols=26  Identities=19%  Similarity=0.322  Sum_probs=23.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+++|+|..|.|||||++.+.....
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~~~   51 (195)
T PRK13541         26 SAITYIKGANGCGKSSLLRMIAGIMQ   51 (195)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            45899999999999999999998654

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=87.46  E-value=0.49  Score=46.88  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=19.6

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.|+|.+|+|||||++.+.+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            6899999999999999988753

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>cd00879 Sar1 Sar1 subfamily

Probab=87.46  E-value=0.75  Score=47.05  Aligned_cols=33  Identities=30%  Similarity=0.329  Sum_probs=24.4

Q ss_pred             HHHHhC-CCCceEEEEEecCCCchhHHHHHHHHH
Q 000945          161 ALDALS-NPNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       161 l~~~L~-~~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      +++.+. ......|+|+|.+|+|||||++.+.++
T Consensus         9 ~~~~~~~~~~~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879           9 VLSSLGLYNKEAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             HHHHhhcccCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            444443 223455699999999999999998864

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]

Probab=87.45  E-value=0.4  Score=53.28  Aligned_cols=27  Identities=44%  Similarity=0.614  Sum_probs=23.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .--||||+|..|+||||+++.+-.-.+
T Consensus       366 ~gEvigilGpNgiGKTTFvk~LAG~ik  392 (591)
T COG1245         366 DGEVIGILGPNGIGKTTFVKLLAGVIK  392 (591)
T ss_pred             cceEEEEECCCCcchHHHHHHHhcccc
Confidence            456899999999999999999986544

>smart00175 RAB Rab subfamily of small GTPases

Probab=87.40  E-value=0.38  Score=47.79  Aligned_cols=23  Identities=30%  Similarity=0.297  Sum_probs=20.2

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -|.|+|.+|+|||||++.+.+..
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999998753

Rab GTPases are implicated in vesicle trafficking.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=87.36  E-value=0.46  Score=49.71  Aligned_cols=26  Identities=35%  Similarity=0.532  Sum_probs=23.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      . .+++|+|..|.|||||++.+..-..
T Consensus        23 ~-e~~~i~G~nGsGKSTLl~~l~G~~~   48 (214)
T cd03297          23 E-EVTGIFGASGAGKSTLLRCIAGLEK   48 (214)
T ss_pred             c-eeEEEECCCCCCHHHHHHHHhCCCC
Confidence            5 8999999999999999999987543

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=87.34  E-value=0.45  Score=47.25  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.4

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998764

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>PRK01184 hypothetical protein; Provisional

Probab=87.34  E-value=0.46  Score=48.35  Aligned_cols=18  Identities=39%  Similarity=0.811  Sum_probs=16.9

Q ss_pred             eEEEEEecCCCchhHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAK  188 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~  188 (1212)
                      .+|+|+|+.|.||||+|+
T Consensus         2 ~~i~l~G~~GsGKsT~a~   19 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK   19 (184)
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            489999999999999998

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=87.31  E-value=0.5  Score=48.05  Aligned_cols=27  Identities=37%  Similarity=0.418  Sum_probs=24.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|.|.|..|.||||+|+.+.....
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~l~   43 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKKLE   43 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            457999999999999999999998754

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PLN02924 thymidylate kinase

Probab=87.30  E-value=1.3  Score=46.08  Aligned_cols=53  Identities=21%  Similarity=0.125  Sum_probs=34.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIAD  223 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~  223 (1212)
                      -..|.|.|.-|.||||+|+.+.+....+ .+....+=............++++.
T Consensus        16 g~~IviEGiDGsGKsTq~~~L~~~l~~~-g~~v~~~~ep~~~~~~g~~ir~~l~   68 (220)
T PLN02924         16 GALIVLEGLDRSGKSTQCAKLVSFLKGL-GVAAELWRFPDRTTSVGQMISAYLS   68 (220)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCceeeeCCCCCChHHHHHHHHHh
Confidence            3579999999999999999999988743 3454322222222334455555554

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=87.30  E-value=0.79  Score=50.84  Aligned_cols=27  Identities=33%  Similarity=0.487  Sum_probs=23.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-..|.++||.|.||||+|+.+.....
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~Lg  158 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAARLG  158 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            456799999999999999999987653

>PLN02200 adenylate kinase family protein

Probab=87.29  E-value=0.57  Score=49.44  Aligned_cols=26  Identities=19%  Similarity=0.079  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...+|.|.|+.|.||||+|+.+-...
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999997644

>PTZ00088 adenylate kinase 1; Provisional

Probab=87.29  E-value=0.48  Score=49.63  Aligned_cols=22  Identities=41%  Similarity=0.555  Sum_probs=20.0

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.|.|++|+||||+|+.+-...
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8899999999999999997754

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=87.29  E-value=0.44  Score=48.90  Aligned_cols=22  Identities=18%  Similarity=0.456  Sum_probs=20.2

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      +++|+|..|.|||||+++++.-
T Consensus        24 ~~~i~G~nGsGKStll~al~~l   45 (197)
T cd03278          24 LTAIVGPNGSGKSNIIDAIRWV   45 (197)
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999999853

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=87.28  E-value=0.44  Score=49.70  Aligned_cols=35  Identities=26%  Similarity=0.326  Sum_probs=26.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .-.+++|+|..|.|||||++.+.....   .....+|+
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~~---~~~G~i~~   59 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMILGIIL---PDSGEVLF   59 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCC---CCceEEEE
Confidence            346899999999999999999998543   23455554

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00017 cmk cytidylate kinase

Probab=87.23  E-value=0.52  Score=48.99  Aligned_cols=25  Identities=36%  Similarity=0.448  Sum_probs=22.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|+|.|..|.||||+|+.+..+..
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~~   27 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKLG   27 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999988654

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=87.21  E-value=0.46  Score=49.69  Aligned_cols=26  Identities=31%  Similarity=0.400  Sum_probs=22.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          25 PGEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999998754

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=87.15  E-value=0.75  Score=53.80  Aligned_cols=49  Identities=22%  Similarity=0.312  Sum_probs=40.0

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++|.+..++.+.+++..+.+ ..+-++|..|+||||+|+.+-+..
T Consensus        14 ~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l   63 (451)
T PRK06305         14 QTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKAL   63 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3456788999999999888876655 557789999999999999987754

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=87.15  E-value=0.46  Score=49.96  Aligned_cols=25  Identities=32%  Similarity=0.454  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+++|+|..|.|||||++.+..-.
T Consensus        30 G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          30 GEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999999854

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=87.15  E-value=0.46  Score=50.61  Aligned_cols=27  Identities=22%  Similarity=0.454  Sum_probs=23.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||++.+..-..
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~~   51 (235)
T cd03261          25 RGEILAIIGPSGSGKSTLLRLIVGLLR   51 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            345899999999999999999997543

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00101 ureG urease accessory protein UreG

Probab=87.13  E-value=0.53  Score=48.27  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=21.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|+|.|..|.|||||++.+.+...
T Consensus         3 ~i~i~G~~GsGKTTll~~l~~~l~   26 (199)
T TIGR00101         3 KIGVAGPVGSGKTALIEALTRALR   26 (199)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhC
Confidence            589999999999999999998654

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=87.11  E-value=0.5  Score=52.23  Aligned_cols=27  Identities=33%  Similarity=0.353  Sum_probs=24.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+|+++|..|+||||++..+....+
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~  139 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYK  139 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            468999999999999999999988765

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=87.11  E-value=0.48  Score=50.14  Aligned_cols=26  Identities=27%  Similarity=0.406  Sum_probs=23.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          25 KGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            34689999999999999999999865

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=87.09  E-value=0.47  Score=50.27  Aligned_cols=26  Identities=35%  Similarity=0.362  Sum_probs=23.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            34689999999999999999999854

>cd00876 Ras Ras family

Probab=87.08  E-value=0.46  Score=46.88  Aligned_cols=21  Identities=24%  Similarity=0.480  Sum_probs=19.0

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |.|+|+.|+|||||.+.+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998764

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=87.08  E-value=0.46  Score=49.76  Aligned_cols=35  Identities=29%  Similarity=0.323  Sum_probs=26.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .-.+++|+|..|.|||||++.+..-..   .....+++
T Consensus        27 ~G~~~~l~G~nGsGKSTLl~~i~Gl~~---~~~G~i~~   61 (214)
T TIGR02673        27 KGEFLFLTGPSGAGKTTLLKLLYGALT---PSRGQVRI   61 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC---CCCceEEE
Confidence            346899999999999999999987543   23555554

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=87.06  E-value=0.45  Score=49.74  Aligned_cols=27  Identities=30%  Similarity=0.420  Sum_probs=23.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||++.+..-..
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~G~~~   50 (213)
T cd03235          24 PGEFLAIVGPNGAGKSTLLKAILGLLK   50 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCCC
Confidence            346899999999999999999987543

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=87.05  E-value=0.47  Score=49.92  Aligned_cols=26  Identities=35%  Similarity=0.470  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999999854

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=87.04  E-value=0.49  Score=48.13  Aligned_cols=74  Identities=16%  Similarity=0.164  Sum_probs=40.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCC-CCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQT-PDVKRIQGDIADQLGLYICEGSESERAMVLCGLL  245 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~-~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L  245 (1212)
                      .-.+|+|+|..|.|||||.+.+-.-....   ...+++.--+- --..+-.+++..+++.-....+...+...+..-|
T Consensus        29 ~GE~VaiIG~SGaGKSTLLR~lngl~d~t---~G~i~~~g~~i~~~~~k~lr~~r~~iGmIfQ~~nLv~r~sv~~NVl  103 (258)
T COG3638          29 QGEMVAIIGPSGAGKSTLLRSLNGLVDPT---SGEILFNGVQITKLKGKELRKLRRDIGMIFQQFNLVPRLSVLENVL  103 (258)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCCC---cceEEecccchhccchHHHHHHHHhceeEeccCCcccccHHHHHHH
Confidence            34689999999999999999998733322   22333322111 1122334445555555444444433444343333

>PRK00698 tmk thymidylate kinase; Validated

Probab=87.01  E-value=0.55  Score=48.74  Aligned_cols=25  Identities=24%  Similarity=0.341  Sum_probs=22.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+-|.||||+++.+.+...
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l~   28 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELLE   28 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5899999999999999999998765

>PRK07429 phosphoribulokinase; Provisional

Probab=87.01  E-value=0.56  Score=52.01  Aligned_cols=28  Identities=25%  Similarity=0.290  Sum_probs=24.3

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...-+|||.|..|.||||+|+.+..-..
T Consensus         6 ~~~~IIgI~G~SGSGKSTla~~L~~ll~   33 (327)
T PRK07429          6 DRPVLLGVAGDSGCGKTTFLRGLADLLG   33 (327)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHhHhc
Confidence            3567999999999999999999997644

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=86.95  E-value=0.41  Score=47.22  Aligned_cols=22  Identities=36%  Similarity=0.412  Sum_probs=20.0

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |+|+|..|+|||||.+.+.+..
T Consensus         2 i~iiG~~~~GKssli~~~~~~~   23 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE   23 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            7899999999999999998764

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=86.93  E-value=0.59  Score=45.62  Aligned_cols=24  Identities=29%  Similarity=0.391  Sum_probs=20.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -|-.+||-|.||||+.+++-....
T Consensus         4 ~IvLiG~mGaGKSTIGr~LAk~L~   27 (172)
T COG0703           4 NIVLIGFMGAGKSTIGRALAKALN   27 (172)
T ss_pred             cEEEEcCCCCCHhHHHHHHHHHcC
Confidence            477899999999999999987654

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=86.86  E-value=0.5  Score=50.74  Aligned_cols=23  Identities=39%  Similarity=0.535  Sum_probs=20.7

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |-++|++|.||||+|+.+.....
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~   24 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLS   24 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            67999999999999999988764

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.

>cd00154 Rab Rab family

Probab=86.84  E-value=0.49  Score=46.46  Aligned_cols=22  Identities=36%  Similarity=0.371  Sum_probs=20.0

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.++|..|+|||||+..+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            7899999999999999998764

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

---

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	1212
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-17
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	8e-14
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	9e-11
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-09
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-10
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	6e-09
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	5e-06
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-08
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-09
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-09
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-09
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	5e-08
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-08
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-07
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	9e-06
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-07
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	6e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	3e-07
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	7e-07
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	8e-07
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	9e-07
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-06
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-06
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	6e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	3e-06
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	3e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-04
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-04
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	3e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	9e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	6e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-04
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	3e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	5e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	6e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	7e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	8e-04

>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 = 86.4 bits (213), Expect = 3e-17
 Identities = 101/616 (16%), Positives = 193/616 (31%), Gaps = 183/616 (29%)

Query: 37  KTEKLKLTLED-LHLWVDAAKENGE--EIEQSVEKWLISANTTVVEAGKLIE--DEEKEK 91
           +T + +   +D L ++ DA  +N +  +++   +  L        E   +I   D     
Sbjct: 10  ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKE-----EIDHIIMSKDAVSGT 64

Query: 92  KKCLKGLCPNLMNRYQ------LSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCS 145
            +    L        Q      L     + +  I     +       +  + +    + +
Sbjct: 65  LRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD---RLYN 121

Query: 146 EGYEAFE----SRKSILNDALDALSN--PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKL 199
           +  + F     SR         AL    P  NV+ + G+ G GKT +A  V   + K++ 
Sbjct: 122 DN-QVFAKYNVSRLQPYLKLRQALLELRPAKNVL-IDGVLGSGKTWVALDV-CLSYKVQC 178

Query: 200 C--DEVVFVEVSQ--TPD-VKRIQGDIADQLGLYICEGSE-SERAMVLCGLLKKGKK--- 250
               ++ ++ +    +P+ V  +   +  Q+       S+ S    +    ++   +   
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238

Query: 251 --------ILVLDNIWTS-----------------------------------------L 261
                   +LVL N+  +                                         L
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298

Query: 262 DLDKKLEILSL-VDSNIEQLPEEMAQLTQLRL----------------FDLSGCSKLKVI 304
             D+   +L   +D   + LP E+      RL                +    C KL  I
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI 358

Query: 305 PPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMIL- 363
              + S L+ LE         +  F+ L+V   +A +    LLS +    I+    +++ 
Sbjct: 359 ---IESSLNVLEPAEY-----RKMFDRLSVFPPSAHIPT-ILLSLIWFDVIKSDVMVVVN 409

Query: 364 ---PKGLFSKKLERYKIFIGD-EWDWSGNYKNKRVL---------KLKLYTSN------V 404
                 L  K+ +   I I     +     +N+  L           K + S+      +
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL 469

Query: 405 DEVIMQ-----LKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMA 459
           D+         LK IE  + + +   + V  D     FL+ K                  
Sbjct: 470 DQYFYSHIGHHLKNIE--HPERMTLFRMVFLDFR---FLEQK------------------ 506

Query: 460 WVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDK----LKNIFSFSF 515
            +R+++     S  + N        L QL+   FYK  I    N  K    +  I  F  
Sbjct: 507 -IRHDSTAWNASGSILNT-------LQQLK---FYKPYICD--NDPKYERLVNAILDF-- 551

Query: 516 VRGLPQLQTLNVINCK 531
              LP+++  N+I  K
Sbjct: 552 ---LPKIEE-NLICSK 563

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 57.9 bits (139), Expect = 2e-08
 Identities = 83/568 (14%), Positives = 164/568 (28%), Gaps = 161/568 (28%)

Query: 588  ELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYS--QN 645
            E   H    + IL          F +     +++ +    +S E+   + +         
Sbjct: 10   ETGEHQYQYKDILSV----FEDAFVDNFDCKDVQDMPKSILSKEE--IDHIIMSKDAVSG 63

Query: 646  LTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVT 705
              RL      K        M++ FV+ E L I Y   L S +  E  + +  T ++ +  
Sbjct: 64   TLRLFWTLLSK-----QEEMVQKFVE-EVLRINY-KFLMSPIKTEQRQPSMMTRMYIE-Q 115

Query: 706  FLKLWNLSELKTFYPGTHTSKWPMLKKLE-------------VYG---CDK--VKIFTSR 747
              +L+N +++   +   + S+     KL              + G     K  V +    
Sbjct: 116  RDRLYNDNQV---FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCL 172

Query: 748  FLRFQE--------INEGQFDIPT-----QQALFLV------------EKVTSKLEELKL 782
              + Q         +N    + P       Q L                 +  ++  ++ 
Sbjct: 173  SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232

Query: 783  SGKDIAMICQSQFPKH--IFRNLKNLEVVN-------------DESENFRIGFLERFH-- 825
              + +  +    +     +  N++N +  N              +     +      H  
Sbjct: 233  ELRRL--LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290

Query: 826  ------NLEKLELRWSSYKEIFSN----------EEIVEH--------AEMLTQVKSLKL 861
                   L   E+     K +              E++          AE +    +   
Sbjct: 291  LDHHSMTLTPDEV-----KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT-- 343

Query: 862  WELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLV--PSSASFKNLT--TLE-LWY- 915
            W+    +   K  + ++S    LE  E    +    L   P SA   ++    L  +W+ 
Sbjct: 344  WDNWKHVNCDKLTTIIESSLNVLEPAEYR--KMFDRLSVFPPSA---HIPTILLSLIWFD 398

Query: 916  --CQRLMNLVTSSTAKSLV----CLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVS 969
                 +M +V      SLV      + + I    +  ++  + E      IV        
Sbjct: 399  VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV-------- 450

Query: 970  LERLENLTSFCSGNYTLKFPSLED----------LFVIECP-KMKIFSHRVLS----TPR 1014
             +      +F S +     P   D          L  IE P +M +F    L       +
Sbjct: 451  -DHYNIPKTFDSDDLI---PPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK 506

Query: 1015 LREVRQNWGLYKGCWEGDLNTTIQQLQK 1042
            +R     W        G +  T+QQL+ 
Sbjct: 507  IRHDSTAW-----NASGSILNTLQQLKF 529

>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 = 53.7 bits (128), Expect = 4e-07
 Identities = 98/574 (17%), Positives = 170/574 (29%), Gaps = 178/574 (31%)

Query: 20  IPRQLRNYKSNFD-----DLKK----KTE-----KLKLTLEDLHLWVDAAKENGEEI-EQ 64
           +      +  NFD     D+ K    K E       K  +              EE+ ++
Sbjct: 22  LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81

Query: 65  SVE-------KWLISANTTVVEAGKLIEDEEKEKKKCLKG----LCPNLMNRYQLS---K 110
            VE       K+L+S   T      ++     E++  L           ++R Q     +
Sbjct: 82  FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR 141

Query: 111 KAAWEVK-----AIAGLLEEGK----------------FD------EVSFCTKPEGILLM 143
           +A  E++      I G+L  GK                 D       +  C  PE +L M
Sbjct: 142 QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEM 201

Query: 144 ------------CSEG---------YEAFESRKSIL------NDAL---DALSNPNV-NV 172
                        S             + ++    L       + L     + N    N 
Sbjct: 202 LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA 261

Query: 173 IGL-CGLGGIGK---TTLAKIVFYQAKKLKLCD-EVVFVEVSQTPD-----VKRIQGDIA 222
             L C      K   TT  K V             +    ++ TPD     + +      
Sbjct: 262 FNLSC------KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP 315

Query: 223 DQLGLYICEGSESERAMVLCGLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQL-P 281
             L   +   +   R + +     +       DN W  ++ DK   I+   +S++  L P
Sbjct: 316 QDLPREVLTTNP--RRLSIIAESIRDGLAT-WDN-WKHVNCDKLTTII---ESSLNVLEP 368

Query: 282 EEMAQL-TQLRLFDLSGCSKLKVIPPNLLS----GLSRLEDLYMGNTSVKWEFEGLNVGR 336
            E  ++  +L +F  S  +    IP  LLS     + + + + + N   K     L   +
Sbjct: 369 AEYRKMFDRLSVFPPS--AH---IPTILLSLIWFDVIKSDVMVVVNKLHK---YSLVEKQ 420

Query: 337 SNAS--------LQELKLLSHLTTLEIQICDAMILPKGLFSKKL---------------- 372
              S        L+    L +   L   I D   +PK   S  L                
Sbjct: 421 PKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH 480

Query: 373 -------ERYKIF----------------IGDEWDWSGNYKNKRVLKLKLYTSNVDEVIM 409
                  ER  +F                    W+ SG+  N  + +LK Y   + +   
Sbjct: 481 LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT-LQQLKFYKPYICDNDP 539

Query: 410 QLKGIEELYLDEVPGIKNVLY---DLDIEGFLQL 440
           + + +    LD +P I+  L      D+   L++
Sbjct: 540 KYERLVNAILDFLPKIEENLICSKYTDL---LRI 570

>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 = 44.8 bits (105), Expect = 2e-04
 Identities = 83/497 (16%), Positives = 131/497 (26%), Gaps = 184/497 (37%)

Query: 776  KLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWS 835
            +  E +   KDI  + +  F       + N +   D  +                     
Sbjct: 10   ETGEHQYQYKDILSVFEDAF-------VDNFD-CKDVQD--------------------- 40

Query: 836  SYKEIFSNEE---IVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWC 892
              K I S EE   I+   + ++    L  W L       KQ+  +    E +  +   + 
Sbjct: 41   MPKSILSKEEIDHIIMSKDAVSGTLRL-FWTLLS-----KQEEMVQKFVEEVLRINYKFL 94

Query: 893  ENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLV-----------CLTKLR--- 938
             + I       S    T + +    RL N      AK  V            L +LR   
Sbjct: 95   MSPIKTEQRQPSMM--TRMYIEQRDRLYN-DNQVFAKYNVSRLQPYLKLRQALLELRPAK 151

Query: 939  ---IDGCRML----TEIISKEEDVAEDEIVFSKLK----WVSL-------ERLENLTSFC 980
               IDG  +L    T +     DV     V  K+     W++L         LE L    
Sbjct: 152  NVLIDG--VLGSGKTWVAL---DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL 206

Query: 981  -------------SGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPR----LREVRQNWG 1023
                         S N  L+  S++          ++   +          L  V+    
Sbjct: 207  YQIDPNWTSRSDHSSNIKLRIHSIQAE------LRRLLKSKPY--ENCLLVLLNVQNAK- 257

Query: 1024 LYKGCWEG-DLNTTIQQLQKNELPLLLPIASSSSSLAAPTTGNQVPLNLSGNRKTQSFSL 1082
                 W   +L+  I         LL             TT  +   +      T   SL
Sbjct: 258  ----AWNAFNLSCKI---------LL-------------TTRFKQVTDFLSAATTTHISL 291

Query: 1083 QPPLRTTSPT-----FSS--GKPAAD-------NNPSLSLSSCS---------------- 1112
                 T +P                D        NP   LS  +                
Sbjct: 292  DHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP-RRLSIIAESIRDGLATWDNWKHV 350

Query: 1113 -----TRTKQKAVLKLEIHGEKARQKAFSIVSKF-------TGVLSILFDPKDKKMIVIG 1160
                 T   + ++  LE    +      S+   F       T +LS+++    K      
Sbjct: 351  NCDKLTTIIESSLNVLEPAEYRKMFDRLSV---FPPSAHIPTILLSLIWFDVIK------ 401

Query: 1161 DIDAVPVVRKLRKQLCA 1177
              D + VV KL K    
Sbjct: 402  -SDVMVVVNKLHKYSLV 417

>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 = 74.6 bits (183), Expect = 8e-14
 Identities = 23/122 (18%), Positives = 45/122 (36%), Gaps = 13/122 (10%)

Query: 152 ESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLC--DEVVFVEVS 209
           E     +   LD + + +   + L G  G GK+ +A     ++ +L     D +V+++ S
Sbjct: 134 EYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDS 193

Query: 210 QTP---------DVKRIQGDIADQLGLYICEGSESERA--MVLCGLLKKGKKILVLDNIW 258
            T          D+  +     D L     E   S     M+   L+ +   + V D++ 
Sbjct: 194 GTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVV 253

Query: 259 TS 260
             
Sbjct: 254 QE 255

>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 = 65.2 bits (159), Expect = 9e-11
 Identities = 79/475 (16%), Positives = 145/475 (30%), Gaps = 102/475 (21%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCS-KLKVIPPNLLSGLSRLEDLYMGN 322
             L IL L  S I  L  +    L  L    L  C     V+       L  L  L +  
Sbjct: 73  PNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSK 132

Query: 323 ---TSVK--WEFEGLNVGRSNASLQELKL-----------------LSHLTTLEIQICDA 360
               S+     F  LN      SL+ +                      L+   +     
Sbjct: 133 NQIRSLYLHPSFGKLN------SLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSL 186

Query: 361 MILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKL--KLYTSNVDEVIMQLKGIEELY 418
                  + K +  ++  + +  D SGN     +        + +    ++    I    
Sbjct: 187 YSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAG 246

Query: 419 LDEVPGIKNVLYDLDIEGF-----LQLKHLHVQNNPFILFIVDSMAW----------VRY 463
                   + + D D   F       ++HL + +    +F ++S  +          + Y
Sbjct: 247 FGF-----HNIKDPDQNTFAGLARSSVRHLDLSHGF--VFSLNSRVFETLKDLKVLNLAY 299

Query: 464 NAFLLLESLVLHNLIHLEKI-----CLGQLRAESFY---KLKIIKVRNCDKLKNIFSFSF 515
           N    +     + L +L+ +      LG+L + +FY   K+  I ++    +  I   +F
Sbjct: 300 NKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKN-HIAIIQDQTF 358

Query: 516 VRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQ 575
            + L +LQTL++ +   +  I  +    D+            L    L  LP++    + 
Sbjct: 359 -KFLEKLQTLDLRDN-ALTTIHFIPSIPDIF-----------LSGNKLVTLPKINLTANL 405

Query: 576 VKTSAASQTRLKELSTHTLP------REVILEDECDTLMPFFNEKVVFPNLETLELCAIS 629
           +     S+ RL+ L            + +IL     +           P+LE L L    
Sbjct: 406 IHL---SENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLG--- 459

Query: 630 TEKIWCNQLAAVYSQNLTRLIVHGCEKLKYL---------FPSSMIRNFVQLEHL 675
                 N L   +   L   +  G   L+ L          P  +  +   L  L
Sbjct: 460 -----ENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGL 509

>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 = 60.2 bits (146), Expect = 4e-09
 Identities = 83/588 (14%), Positives = 172/588 (29%), Gaps = 120/588 (20%)

Query: 276 NIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVG 335
           N+ Q+P+ +    +L    LS    ++ +  +    L +L+ L +G+       +     
Sbjct: 15  NLTQVPQVLNTTERL---LLSFN-YIRTVTASSFPFLEQLQLLELGSQYTPLTID----- 65

Query: 336 RSNASLQELKLLSHLTTLEIQICDAMILPKGLFS--KKLERYKIFIGDEWDWSGNYKNKR 393
               + + L    +L  L++       L    F     L         E        +  
Sbjct: 66  --KEAFRNLP---NLRILDLGSSKIYFLHPDAFQGLFHLF--------ELRLYFCGLSDA 112

Query: 394 VLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFL----QLKHLHVQNNP 449
           VLK        D     LK +  L L      KN +  L +         LK +   +N 
Sbjct: 113 VLK--------DGYFRNLKALTRLDLS-----KNQIRSLYLHPSFGKLNSLKSIDFSSNQ 159

Query: 450 FILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKN 509
             L     +  ++                 +       +       L+I+ V        
Sbjct: 160 IFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGN-GWTV 218

Query: 510 IFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFL--- 566
             + +F   + + Q  ++I   ++            +  + D+  F+ L   +++ L   
Sbjct: 219 DITGNFSNAISKSQAFSLILAHHIMGAG----FGFHNIKDPDQNTFAGLARSSVRHLDLS 274

Query: 567 --------PQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFP 618
                    ++      +K    +  ++ +++                   F+       
Sbjct: 275 HGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEA----------------FYG----LD 314

Query: 619 NLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYL---------FPSSMIRNF 669
           NL+ L L          N L  +YS N   L      K+ Y+               +  
Sbjct: 315 NLQVLNL--------SYNLLGELYSSNFYGL-----PKVAYIDLQKNHIAIIQDQTFKFL 361

Query: 670 VQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPM 729
            +L+ L++   + L +I    S  +           FL    L  L        T+    
Sbjct: 362 EKLQTLDLRDNA-LTTIHFIPSIPD----------IFLSGNKLVTLPKINL---TANLIH 407

Query: 730 LKKLEVYGCDKVKIFTS-RFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIA 788
           L +  +   D +        L+   +N+ +F   +             LE+L L    + 
Sbjct: 408 LSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTP---SENPSLEQLFLGENMLQ 464

Query: 789 MICQSQFPKHIFRNLKNLEVVNDES---ENFRIGFLERFHNLEKLELR 833
           +  +++    +F  L +L+V+        +   G       L  L L 
Sbjct: 465 LAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLN 512

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 65.0 bits (158), Expect = 1e-10
 Identities = 75/591 (12%), Positives = 156/591 (26%), Gaps = 111/591 (18%)

Query: 464  NAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQ 523
              +      +     +L  + L      + + L      N       +       L QL+
Sbjct: 59   LCYTATPDRLSRRFPNLRSLKLKGKPRAAMFNLI---PENWGGYVTPWVTEISNNLRQLK 115

Query: 524  TLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQ 583
            +++                +D+D   + K     L +L L      T+    + +     
Sbjct: 116  SVHFRRMIV----------SDLDLDRLAKARADDLETLKLDKCSGFTT--DGLLSIVTHC 163

Query: 584  TRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAV-- 641
             ++K L    +      E +   L           +LE L        KI    L  +  
Sbjct: 164  RKIKTLL---MEESSFSEKDGKWLHELAQH---NTSLEVLNFYMTEFAKISPKDLETIAR 217

Query: 642  YSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVF 701
              ++L  + V   E L+        +    LE       +    +  K            
Sbjct: 218  NCRSLVSVKVGDFEILE---LVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRK--- 271

Query: 702  PKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGC----DKVKIFTSRFLRFQEINEG 757
                 L    LS +              ++KL++       +       +    + +   
Sbjct: 272  -----LCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETR 326

Query: 758  QFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFR 817
              ++   + L ++ +   +L+ L++           +        L     V+       
Sbjct: 327  --NVIGDRGLEVLAQYCKQLKRLRIER------GADEQGMEDEEGL-----VSQRGL--- 370

Query: 818  IGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYI--WKQDS 875
            I   +    LE + +  S      +NE +      L  +   +L  L     I     D+
Sbjct: 371  IALAQGCQELEYMAVYVSD----ITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDN 426

Query: 876  KLDSITEN---LESLEVWWCENLIN---LVPSSASFKNLTTLELWYCQR----LMNLVTS 925
             + S+      L     +  +  +    L        N+  + L Y       LM     
Sbjct: 427  GVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESDEGLMEF--- 483

Query: 926  STAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLT-SFCSGNY 984
              ++    L KL + GC      I+                   L  L  L       + 
Sbjct: 484  --SRGCPNLQKLEMRGCCFSERAIAA---AVT-----------KLPSLRYLWVQGYRASM 527

Query: 985  T--------LKFPSLEDLFVIECPKM-------------KIFSHRVLSTPR 1014
            T          + ++E +     P++              I ++  L+  R
Sbjct: 528  TGQDLMQMARPYWNIELIPSRRVPEVNQQGEIREMEHPAHILAYYSLAGQR 578

>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 = 59.2 bits (143), Expect = 6e-09
 Identities = 68/559 (12%), Positives = 159/559 (28%), Gaps = 120/559 (21%)

Query: 429 LYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQL 488
           L  L ++G  +    ++    +  ++   +  +  N    L+S+    +  +  + L +L
Sbjct: 75  LRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEIS-NNLRQLKSVHFRRM-IVSDLDLDRL 132

Query: 489 RAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKN----MKEIFTVGREN- 543
                  L+ +K+  C         S V    +++TL +          K +  + + N 
Sbjct: 133 AKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNT 192

Query: 544 -----DVDCHEVDKIEFSQLHSLTLKFLPQLTSF------YSQVKTSAASQTRLKELSTH 592
                +    E  KI    L ++  +    L S         ++     +   L+E    
Sbjct: 193 SLEVLNFYMTEFAKISPKDLETI-ARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGG 251

Query: 593 TLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYS--QNLTRLI 650
           +L  ++ + ++   L            +   +LC +    +  N++  ++     + +L 
Sbjct: 252 SLNEDIGMPEKYMNL------------VFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLD 299

Query: 651 VHGCEKLKYLFPSSMIRNFVQLEHLEICYC---SSLESIVGKESGEEATTTFVFPKVTFL 707
           +            ++I+    LE LE         LE +                     
Sbjct: 300 LLYALLETEDH-CTLIQKCPNLEVLETRNVIGDRGLEVLA-------------------- 338

Query: 708 KLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQAL 767
                                 LK+L +      +                    +Q+ L
Sbjct: 339 -----------------QYCKQLKRLRIERGADEQGMEDEEGLV-----------SQRGL 370

Query: 768 FLVEKVTSKLEELKLSGKDI-----AMICQSQFPKHIFRNLKNLEVVN--------DESE 814
             + +   +LE + +   DI       I          +NL +  +V         D   
Sbjct: 371 IALAQGCQELEYMAVYVSDITNESLESIGTY------LKNLCDFRLVLLDREERITDLPL 424

Query: 815 NFRIGFL-ERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQ 873
           +  +  L      L +            ++  +    +    V+ +       L Y+ + 
Sbjct: 425 DNGVRSLLIGCKKLRRFAFYLRQGG--LTDLGLSYIGQYSPNVRWM------LLGYVGES 476

Query: 874 DSKLDSITE---NLESLEVWWCENLIN--LVPSSASFKNLTTLELWYCQRLMNLVTS-ST 927
           D  L   +    NL+ LE+  C       +  +     +L  L +   +  M        
Sbjct: 477 DEGLMEFSRGCPNLQKLEMRGC-CFSERAIAAAVTKLPSLRYLWVQGYRASMTGQDLMQM 535

Query: 928 AKSLVCLTKLRIDGCRMLT 946
           A+    +  +       + 
Sbjct: 536 ARPYWNIELIPSRRVPEVN 554

>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 = 49.6 bits (118), Expect = 5e-06
 Identities = 41/323 (12%), Positives = 81/323 (25%), Gaps = 65/323 (20%)

Query: 635 CNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEE 694
           C +   + S+    + +  C       P  + R F  L  L++                 
Sbjct: 41  CRRWFKIDSETREHVTMALCYTA---TPDRLSRRFPNLRSLKLKGKPRAAMFN------- 90

Query: 695 ATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEI 754
                       L   N     T +    ++    LK +                     
Sbjct: 91  ------------LIPENWGGYVTPWVTEISNNLRQLKSVHFRRMI--------------- 123

Query: 755 NEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQ---SQFPKHIFRNLKNLEVVN- 810
                 +       L +     LE LKL        C    +     I  + + ++ +  
Sbjct: 124 ------VSDLDLDRLAKARADDLETLKLDK------CSGFTTDGLLSIVTHCRKIKTLLM 171

Query: 811 DESENFRIG------FLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWEL 864
           +ES              +   +LE L    + + +I S +++   A     + S+K+ + 
Sbjct: 172 EESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKI-SPKDLETIARNCRSLVSVKVGDF 230

Query: 865 SDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVT 924
             L     +         NLE          I +     +      L       +     
Sbjct: 231 EIL-----ELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEM 285

Query: 925 SSTAKSLVCLTKLRIDGCRMLTE 947
                    + KL +    + TE
Sbjct: 286 PILFPFAAQIRKLDLLYALLETE 308

>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 = 63.3 bits (154), Expect = 3e-10
 Identities = 34/244 (13%), Positives = 69/244 (28%), Gaps = 29/244 (11%)

Query: 32  DDLKKKTEKLKLTLEDLHLWVDAAKENGEEIEQSVEKWLISANTTVVEAGKLIEDEEKEK 91
           D +           E +       +     I+  ++K   S  +       L+ +  K+ 
Sbjct: 27  DHMISDGFLTISEEEKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYN---ALLHEGYKDL 83

Query: 92  KKCLKGLCPNLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILLMCSEGYEAF 151
              L    P + +       +         L E G                     +   
Sbjct: 84  AALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQR--------------PVVFVTR 129

Query: 152 ESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLC--DEVVFVEVS 209
           +   + +   L  L       + + G+ G GK+ LA         L+ C    V +V V 
Sbjct: 130 KKLVNAIQQKLSKL-KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVG 188

Query: 210 QTPDVKRIQG--DIADQLGLYICEGSESERAMVLCG------LLKKGKKIL-VLDNIWTS 260
           +      +    ++  +L             +          +L+K  + L +LD++W S
Sbjct: 189 KQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS 248

Query: 261 LDLD 264
             L 
Sbjct: 249 WVLK 252

>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 = 61.7 bits (150), Expect = 9e-10
 Identities = 99/587 (16%), Positives = 187/587 (31%), Gaps = 112/587 (19%)

Query: 267 LEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSV 325
            + L L  + +  L         +L++ DLS C +++ I       LS L  L +    +
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNPI 88

Query: 326 KWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSK--KLERYKIFIGDEW 383
           +    G               LS L  L     +   L          L+   +      
Sbjct: 89  QSLALGA-----------FSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNV------ 131

Query: 384 DWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHL 443
             + N          + +  + E    L  +E L L       N +  +       L  +
Sbjct: 132 --AHN---------LIQSFKLPEYFSNLTNLEHLDLS-----SNKIQSIYCTDLRVLHQM 175

Query: 444 HVQNNPFILFIVDSMAWVRYNAF--LLLESLVLHN---LIHLEKICLGQLRAESFYKLKI 498
            + N    L +   M +++  AF  + L  L L N    +++ K C+  L     ++L +
Sbjct: 176 PLLNLSLDLSLN-PMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVL 234

Query: 499 IKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQL 558
            + RN   L+     +   GL  L          +  +     +     + +  +    L
Sbjct: 235 GEFRNEGNLEKFDKSAL-EGLCNLTIEEF----RLAYLDYYLDDIIDLFNCLTNVSSFSL 289

Query: 559 HSLTLKFLPQLTSFYS--QVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVV 616
            S+T++ +   +  +    ++       +   L   +L R     ++        +    
Sbjct: 290 VSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVD---- 345

Query: 617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLE 676
            P+LE L+L         C   +   + +L  L +     +  +  SS      QLEHL+
Sbjct: 346 LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFN-GVITM--SSNFLGLEQLEHLD 402

Query: 677 ICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSEL-------KTFYPGTHTSKWPM 729
             + + L+ +                   FL L NL  L       +  + G   +    
Sbjct: 403 FQHSN-LKQM--------------SEFSVFLSLRNLIYLDISHTHTRVAFNGIF-NGLSS 446

Query: 730 LKKLEVYGCDKVKIFTSRFLRFQE-INEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIA 788
           L+ L++ G             FQE      F                 L  L LS   + 
Sbjct: 447 LEVLKMAGN-----------SFQENFLPDIFTELRN------------LTFLDLSQCQL- 482

Query: 789 MICQSQFPKHIFRNLKNLEVVNDES---ENFRIGFLERFHNLEKLEL 832
                Q     F +L +L+V+N  S   ++   G  +R  +L+K+ L
Sbjct: 483 ----EQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWL 525

>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 = 58.2 bits (141), Expect = 1e-08
 Identities = 81/583 (13%), Positives = 176/583 (30%), Gaps = 147/583 (25%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNT 323
            +L++L L    I+ + +     L+ L    L+G + ++ +     SGLS L+ L    T
Sbjct: 52  PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTG-NPIQSLALGAFSGLSSLQKLVAVET 110

Query: 324 SVK----WEFEGLNVGRSNASLQELKL----------------LSHLTTLEIQICDAMIL 363
           ++     +    L       +L+EL +                L++L  L++       +
Sbjct: 111 NLASLENFPIGHLK------TLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSI 164

Query: 364 PKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSN-----VDEVIMQLKGIEELY 418
                                         +L L L  S      +     +   + +L 
Sbjct: 165 YCTDLR------------------VLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLT 206

Query: 419 LDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDS-MAWVRYNAFLLLESLVLHNL 477
           L           ++       L  L V       F  +  +     +A   L +L +   
Sbjct: 207 LRNN----FDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEF 262

Query: 478 IHLEKI-CLGQLRAESFYKLKIIKVRNCD--KLKNIFSFSFVRGLPQLQTLNVINCKNMK 534
             L  +        + F  L  +   +     ++ +  FS+  G   L+ +N        
Sbjct: 263 -RLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVN-------- 313

Query: 535 EIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTL 594
                         +   ++   L  LT     +  + +S+V         L+ L    L
Sbjct: 314 ----------CKFGQFPTLKLKSLKRLTFTSN-KGGNAFSEVDL-----PSLEFLD---L 354

Query: 595 PREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYS-----QNLTRL 649
            R  +    C +    F       +L+ L+L          N +  + S     + L  L
Sbjct: 355 SRNGLSFKGCCS-QSDFG----TTSLKYLDL--------SFNGVITMSSNFLGLEQLEHL 401

Query: 650 IVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKL 709
                  LK +   S+  +   L +L+I +                    +F  ++ L++
Sbjct: 402 DFQHS-NLKQMSEFSVFLSLRNLIYLDISHT-HTRVA----------FNGIFNGLSSLEV 449

Query: 710 WNLSE--LKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQAL 767
             ++    +  +     ++   L  L++  C           + ++++   F+       
Sbjct: 450 LKMAGNSFQENFLPDIFTELRNLTFLDLSQC-----------QLEQLSPTAFNS------ 492

Query: 768 FLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVN 810
                  S L+ L ++   +  +     P  IF  L +L+ + 
Sbjct: 493 ------LSSLQVLNMASNQLKSV-----PDGIFDRLTSLQKIW 524

>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 = 44.7 bits (106), Expect = 2e-04
 Identities = 54/331 (16%), Positives = 102/331 (30%), Gaps = 62/331 (18%)

Query: 617 FPNLETLELCAISTEKIWCNQLAAVYS------QNLTRLIVHGCEKLKYLFPSSMIRNFV 670
           FP L+ L+L           ++  +         +L+ LI+ G   ++ L          
Sbjct: 51  FPELQVLDL--------SRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSL-ALGAFSGLS 100

Query: 671 QLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSE--LKTFYPGTHTSKWP 728
            L+ L     + L S+            F    +  LK  N++   +++F    + S   
Sbjct: 101 SLQKLVAVETN-LASL----------ENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLT 149

Query: 729 MLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIA 788
            L+ L++              + Q I      +  Q        +      L LS   + 
Sbjct: 150 NLEHLDLSSN-----------KIQSIYCTDLRVLHQ--------MPLLNLSLDLSLNPMN 190

Query: 789 MICQSQFPKHIFRNLKNLEVVNDESENFRIGFLER--FHNLEKLELRWSSYKEIFSNEEI 846
            I         F+ +  L  +     NF    + +     L  LE+      E  +   +
Sbjct: 191 FI-----QPGAFKEI-RLHKL-TLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNL 243

Query: 847 VE-HAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWW-CENLINLVPSSAS 904
            +     L  + +L + E   L Y+      +  +   L ++  +      I  V   + 
Sbjct: 244 EKFDKSALEGLCNLTIEEF-RLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSY 302

Query: 905 FKNLTTLELWYCQRLMNLVTSSTAKSLVCLT 935
                 LEL  C+       +   KSL  LT
Sbjct: 303 NFGWQHLELVNCK--FGQFPTLKLKSLKRLT 331

>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 = 60.8 bits (148), Expect = 2e-09
 Identities = 52/361 (14%), Positives = 98/361 (27%), Gaps = 57/361 (15%)

Query: 262 DLDKKLEILSLVDSNIEQLPEE-MAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYM 320
            L    E L    + +  +     ++L  L   DL+ C ++  I  +      RL+ L +
Sbjct: 30  TLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRC-QIYWIHEDTFQSQHRLDTLVL 88

Query: 321 GNTSVKWEFEGLNVG--RSNASLQELKL---------------LSHLTTLEIQICDAMIL 363
                      +         +L+ L                    L +L +       +
Sbjct: 89  TANP----LIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSI 144

Query: 364 PKGLFSK-------KLERYKIFIGDEWDWSGNYKNKRVLKLKLYT---SNVDEVIMQLKG 413
                           +   I    + D S + +    L L L     + ++        
Sbjct: 145 KLPKGFPTEKLKVLDFQNNAIHYLSKEDMS-SLQQATNLSLNLNGNDIAGIEPGAFDSAV 203

Query: 414 IEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVR----------Y 463
            + L       +  +   L       L     ++             +            
Sbjct: 204 FQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQK 263

Query: 464 NAFLLLESLVLHNLIHLEKICLGQLRAESF-------YKLKIIKVRNCDKLKNIFSFSFV 516
           + F  + S   H    L+++ L                 LK + +    K +N+   S  
Sbjct: 264 HYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSAN-KFENLCQISA- 321

Query: 517 RGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVD----KIEFSQLHSLTLKFLPQLTSF 572
              P L  L++       E+ T   EN  +  E+D     IE S   +L L+ L  L S 
Sbjct: 322 SNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSL 381

Query: 573 Y 573
            
Sbjct: 382 N 382

>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 = 55.8 bits (135), Expect = 6e-08
 Identities = 58/349 (16%), Positives = 106/349 (30%), Gaps = 85/349 (24%)

Query: 265 KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYM-GN- 322
             L+ L L  +++ +LP  +  L+ L+   LS   K + +     S    L  L + GN 
Sbjct: 278 SGLQELDLTATHLSELPSGLVGLSTLKKLVLSAN-KFENLCQISASNFPSLTHLSIKGNT 336

Query: 323 ---TSVKWEFEGLNVGRSNASLQELKL-----------------LSHLTTLEIQICDAMI 362
                     E L       +L+EL L                 LSHL +L +   + + 
Sbjct: 337 KRLELGTGCLENLE------NLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLS 390

Query: 363 LPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKL---KLYTSNVDEVIMQLKGIEELYL 419
           L    F                         +L L   +L   +       L  ++ L L
Sbjct: 391 LKTEAFK------------------ECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNL 432

Query: 420 DEVPGIKNVLYDLDIEGFL---QLKHLHVQNNPFILFIVDSMA-----------WVRYNA 465
                  ++L     + F     L+HL++Q N F    +                + +  
Sbjct: 433 SH-----SLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCD 487

Query: 466 FLLLESLVLHNLIHLEKI-----CLGQLRAESFYKLKIIKV---RNCDKLKNIFSFSFVR 517
              ++     +L  +  +      L     E+   LK I +    N   +  I       
Sbjct: 488 LSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASN--HISIILPSLL-P 544

Query: 518 GLPQLQTLNV----INCK-NMKEIFTVGRENDVDCHEVDKIEFSQLHSL 561
            L Q +T+N+    ++C  +        +EN     + +         L
Sbjct: 545 ILSQQRTINLRQNPLDCTCSNIYFLEWYKENMQKLEDTEDTLCENPPLL 593

>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 = 52.7 bits (127), Expect = 6e-07
 Identities = 46/291 (15%), Positives = 90/291 (30%), Gaps = 65/291 (22%)

Query: 265 KKLEILSLVDSN--IEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNL-LSGLSRLEDLYMG 321
           ++   LSL  +   I  +          +  +  G   L VI   L  S +  L      
Sbjct: 177 QQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFE 236

Query: 322 NTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGD 381
           +   +     +  G    S++ +    +L            +    F             
Sbjct: 237 DMDDEDISPAVFEGLCEMSVESI----NLQKHYFF-----NISSNTFH------------ 275

Query: 382 EWDWSGNYKNKRVLKL---KLYTSNVDEVIMQLKGIEELYLDEVPGIKN---VLYDLDIE 435
                  +   + L L    L  S +   ++ L  +++L L       N    L  +   
Sbjct: 276 ------CFSGLQELDLTATHL--SELPSGLVGLSTLKKLVLS-----ANKFENLCQISAS 322

Query: 436 GFLQLKHLHVQNNPFILFIVDSMAW---------VRYNAFLLLE--SLVLHNLIHLEKI- 483
            F  L HL ++ N   L +               + ++     +  +L L NL HL+ + 
Sbjct: 323 NFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLN 382

Query: 484 ----CLGQLRAESFYKLKIIKV----RNCDKLKNIFSFSFVRGLPQLQTLN 526
                   L+ E+F +   +++        +LK   + S  + L  L+ LN
Sbjct: 383 LSYNEPLSLKTEAFKECPQLELLDLAFT--RLKVKDAQSPFQNLHLLKVLN 431

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 60.1 bits (146), Expect = 3e-09
 Identities = 54/295 (18%), Positives = 102/295 (34%), Gaps = 71/295 (24%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN- 322
             LE L L ++ +  +       L  LR   L    +LK+IP  + +GLS L  L +   
Sbjct: 56  PHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSN-RLKLIPLGVFTGLSNLTKLDISEN 114

Query: 323 --TSVKWE-FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSKKLERYKIF 378
               +    F+ L       +L+ L++    L  +              FS         
Sbjct: 115 KIVILLDYMFQDLY------NLKSLEVGDNDLVYI----------SHRAFS--------- 149

Query: 379 IGDEWDWSGNYKNKRVLKL---KLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIE 435
                       +   L L    L TS   E +  L G+  L L         +  +   
Sbjct: 150 ---------GLNSLEQLTLEKCNL-TSIPTEALSHLHGLIVLRLRH-----LNINAIRDY 194

Query: 436 GFL---QLKHLHVQNNPFILFIVDSMA--------WVRYNAFLLLESLVLHNLIHLEKIC 484
            F    +LK L + + P++  +  +           + +     +  L + +L++L  + 
Sbjct: 195 SFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLN 254

Query: 485 LGQ-----LRAESFY---KLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCK 531
           L       +     +   +L+ I++    +L  +  ++F RGL  L+ LNV   +
Sbjct: 255 LSYNPISTIEGSMLHELLRLQEIQLVGG-QLAVVEPYAF-RGLNYLRVLNVSGNQ 307

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 58.1 bits (141), Expect = 8e-09
 Identities = 47/271 (17%), Positives = 95/271 (35%), Gaps = 70/271 (25%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN- 322
              +I++  +S + +LP  +     Q+ L +L+   +++ I     +    ++ LYMG  
Sbjct: 45  NNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGFN 103

Query: 323 --TSVKWE-FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSK--KLERYK 376
               +    F+ +        L  L L    L++          LP+G+F    KL    
Sbjct: 104 AIRYLPPHVFQNVP------LLTVLVLERNDLSS----------LPRGIFHNTPKLT--- 144

Query: 377 IFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEG 436
                    S N     + +++      D+       ++ L L       N L  +D+  
Sbjct: 145 -----TLSMSNN----NLERIE------DDTFQATTSLQNLQLS-----SNRLTHVDLSL 184

Query: 437 FLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVL-HNLIHLEKICLGQLRAESFYK 495
              L H +V  N      +             +E L   HN I+        +R     +
Sbjct: 185 IPSLFHANVSYNLLSTLAIPIA----------VEELDASHNSIN-------VVRGPVNVE 227

Query: 496 LKIIKVRNCDKLKNIFSFSFVRGLPQLQTLN 526
           L I+K+++     N+   +++   P L  ++
Sbjct: 228 LTILKLQHN----NLTDTAWLLNYPGLVEVD 254

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 48.1 bits (115), Expect = 1e-05
 Identities = 42/286 (14%), Positives = 90/286 (31%), Gaps = 68/286 (23%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN- 322
             ++ L +  + I  LP  +   +  L +  L     L  +P  +     +L  L M N 
Sbjct: 93  HTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNN 151

Query: 323 --TSVKWE-FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSKKLERYKIF 378
               ++ + F+         SLQ L+L S  LT           +   L           
Sbjct: 152 NLERIEDDTFQATT------SLQNLQLSSNRLTH----------VDLSLI---------- 185

Query: 379 IGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFL 438
                          +    + + N+   +     +EEL         N +  +     +
Sbjct: 186 -------------PSLFHANV-SYNLLSTLAIPIAVEELDASH-----NSINVVRGPVNV 226

Query: 439 QLKHLHVQNNPFI-LFIVDSMAWVR-----YNAFLLLESLVLHNLIHLEKICLG--QLRA 490
           +L  L +Q+N       + +   +      YN    +       +  LE++ +   +L A
Sbjct: 227 ELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVA 286

Query: 491 -----ESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCK 531
                +    LK++ + +   L ++          +L+ L + +  
Sbjct: 287 LNLYGQPIPTLKVLDLSHN-HLLHVERNQP--QFDRLENLYLDHNS 329

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 45.4 bits (108), Expect = 7e-05
 Identities = 36/232 (15%), Positives = 66/232 (28%), Gaps = 87/232 (37%)

Query: 243 GLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEM------------------ 284
            L+       V  N+ ++L +   +E L    ++I  +   +                  
Sbjct: 183 SLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTA 242

Query: 285 --AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN---TSVKWEFEGLNVGRSNA 339
                  L   DLS   +L+ I  +    + RLE LY+ N    ++    + +       
Sbjct: 243 WLLNYPGLVEVDLSYN-ELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIP------ 295

Query: 340 SLQELKLLS-HLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLK 398
           +L+ L L   HL            + +                                 
Sbjct: 296 TLKVLDLSHNHLLH----------VERNQP------------------------------ 315

Query: 399 LYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPF 450
                      Q   +E LYLD      N +  L +     LK+L + +N +
Sbjct: 316 -----------QFDRLENLYLDH-----NSIVTLKLSTHHTLKNLTLSHNDW 351

>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 = 58.6 bits (142), Expect = 8e-09
 Identities = 67/467 (14%), Positives = 144/467 (30%), Gaps = 94/467 (20%)

Query: 265 KKLEILSLVDSNIEQLPE--EMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN 322
             L+ L+L+ +  + L        LT L+   +        I     +GL+ L +L +  
Sbjct: 98  SSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKA 157

Query: 323 ---TSVKWE-FEGLNVGRSNASLQELKL---------------LSHLTTLEIQICDAMIL 363
               + + +  + +        +  L L               LS +  LE++  +    
Sbjct: 158 LSLRNYQSQSLKSIR------DIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARF 211

Query: 364 PKGLFSKKLERYKI----FIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYL 419
                        +    F G         +  ++L+  L  S V+     L G+ +   
Sbjct: 212 QFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFN- 270

Query: 420 DEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIH 479
              P   +V+ +L     + ++ LH+    ++ + +          + LLE +     I 
Sbjct: 271 ---PSESDVVSELGKVETVTIRRLHIPQF-YLFYDLS-------TVYSLLEKV---KRIT 316

Query: 480 LEKICLGQLRAESFYKLKIIKV----RNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKE 535
           +E   +  +       LK ++      N    + + + +     P LQTL +        
Sbjct: 317 VENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVL-------- 368

Query: 536 IFTVGRENDVDCHEVDKIEFSQLHSLTLKFLP--QLTSFYSQVKTSAA------SQTRLK 587
                 +N +   +        L +LT   +            +          S T ++
Sbjct: 369 -----SQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSSTGIR 423

Query: 588 ELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQL----AAVYS 643
            + T       +L+   + L  F       P L+ L +          N+L     A   
Sbjct: 424 VVKTCIPQTLEVLDVSNNNLDSFSLF---LPRLQELYISR--------NKLKTLPDASLF 472

Query: 644 QNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEI------CYCSSLE 684
             L  + +    +LK + P  +      L+ + +      C C  ++
Sbjct: 473 PVLLVMKISRN-QLKSV-PDGIFDRLTSLQKIWLHTNPWDCSCPRID 517

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 51.6 bits (124), Expect = 1e-06
 Identities = 88/532 (16%), Positives = 174/532 (32%), Gaps = 93/532 (17%)

Query: 433 DIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFL---LLESLVLHN--LIHLEKICLGQ 487
           D+     L+ L ++++         +  +  +AF     LE L L +  L  L     G 
Sbjct: 45  DLRACANLQVLILKSS--------RINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGP 96

Query: 488 LRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDC 547
           L       LK + +      + +   S    L  LQTL + N +   EI           
Sbjct: 97  LS-----SLKYLNLMGN-PYQTLGVTSLFPNLTNLQTLRIGNVETFSEI----------- 139

Query: 548 HEVDKIEFSQLHSLTLKFLP--QLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECD 605
               +I+F+ L SL    +    L ++ S    S  S   +  L+ H      +LE   D
Sbjct: 140 ---RRIDFAGLTSLNELEIKALSLRNYQS---QSLKSIRDIHHLTLHLSESAFLLEIFAD 193

Query: 606 TLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYL---FP 662
            L           ++  LEL   +  +   + L      +  + +      L        
Sbjct: 194 IL----------SSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNEL 243

Query: 663 SSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELK-TFYPG 721
             ++R  ++L  +E   C+         S  +  +     +   ++  ++ +    +   
Sbjct: 244 LKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLS 303

Query: 722 THTSKWPMLKKLEVYGCDKVKI---FTSRFLRFQEI----NEGQFDIPTQQALFLVEKVT 774
           T  S    +K++ V       +   F+      + +    N    +     A        
Sbjct: 304 TVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACK---GAW 360

Query: 775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFL-ERFHNLEKLE-- 831
             L+ L LS   +  +   Q    I   LKNL  + D S N     + +     EK+   
Sbjct: 361 PSLQTLVLSQNHLRSM---QKTGEILLTLKNLTSL-DISRN-TFHPMPDSCQWPEKMRFL 415

Query: 832 -LRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESL-EV 889
            L  +  + + +         +   ++ L +            ++ LDS +  L  L E+
Sbjct: 416 NLSSTGIRVVKTC--------IPQTLEVLDV-----------SNNNLDSFSLFLPRLQEL 456

Query: 890 WWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDG 941
           +   N +  +P ++ F  L  +++   Q  +  V       L  L K+ +  
Sbjct: 457 YISRNKLKTLPDASLFPVLLVMKISRNQ--LKSVPDGIFDRLTSLQKIWLHT 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 = 46.6 bits (111), Expect = 4e-05
 Identities = 84/585 (14%), Positives = 155/585 (26%), Gaps = 156/585 (26%)

Query: 269 ILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN---TSV 325
           +      +   +P  +     ++  DLS   K+  I    L   + L+ L + +    ++
Sbjct: 9   VCDGRSRSFTSIPSGL--TAAMKSLDLSFN-KITYIGHGDLRACANLQVLILKSSRINTI 65

Query: 326 KWE-FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEW 383
           + + F  L       SL+ L L   HL++          L    F               
Sbjct: 66  EGDAFYSL------GSLEHLDLSDNHLSS----------LSSSWFG-------------- 95

Query: 384 DWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFL----Q 439
                                      L  ++ L L       N    L +         
Sbjct: 96  --------------------------PLSSLKYLNLMG-----NPYQTLGVTSLFPNLTN 124

Query: 440 LKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESF---YKL 496
           L+ L + N           + +R   F  L SL   N + ++ + L   +++S      +
Sbjct: 125 LQTLRIGNVETF-------SEIRRIDFAGLTSL---NELEIKALSLRNYQSQSLKSIRDI 174

Query: 497 KIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFS 556
             + +    +   +        L  ++ L + +  N+          D     + K+ F 
Sbjct: 175 HHLTLHLS-ESAFLLEIFA-DILSSVRYLELRDT-NLARFQFSPLPVDEVSSPMKKLAFR 231

Query: 557 QLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVV 616
                   F   L      ++ S                                +E  V
Sbjct: 232 GSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFN---------------PSESDV 276

Query: 617 FPNLETLELCAISTEKIWCNQLAAVYS------QNLTRLIVHGCEKLKYLFPSSMIRNFV 670
              L  +E   I    I    L    S      + + R+ V    K+  + P S  ++  
Sbjct: 277 VSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENS-KVFLV-PCSFSQHLK 334

Query: 671 QLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLS--ELKTFYPGTHT-SKW 727
            LE L++     +     K S               L+   LS   L++           
Sbjct: 335 SLEFLDLSEN-LMVEEYLKNSA-------CKGAWPSLQTLVLSQNHLRSMQKTGEILLTL 386

Query: 728 PMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDI 787
             L  L++               F  + +     P             K+  L LS   I
Sbjct: 387 KNLTSLDISRN-----------TFHPMPDS-CQWPE------------KMRFLNLSSTGI 422

Query: 788 AMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLEL 832
                      I + L+ L    D S N    F      L++L +
Sbjct: 423 -----RVVKTCIPQTLEVL----DVSNNNLDSFSLFLPRLQELYI 458

>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 = 58.5 bits (142), Expect = 1e-08
 Identities = 93/576 (16%), Positives = 177/576 (30%), Gaps = 113/576 (19%)

Query: 267 LEILSLVDSNIEQL-PEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSV 325
            + L L  + +  L         +L++ DLS C  ++ I       LS L  L +     
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE-IQTIEDGAYQSLSHLSTLILTGNP- 87

Query: 326 KWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFS--KKLE-----RYKIF 378
               + L       +L     LS L  L     +   L        K L+        I 
Sbjct: 88  ---IQSL-------ALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 137

Query: 379 IGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEG-- 436
                ++  N  N   L L            +++ I    L  +  +  +   LD+    
Sbjct: 138 SFKLPEYFSNLTNLEHLDLSSN---------KIQSIYCTDLRVLHQMPLLNLSLDLSLNP 188

Query: 437 ----------FLQLKHLHVQNNPFILFIV-DSMAWVRYNAFLLLESLVLHNLIHLEKICL 485
                      ++L  L ++NN   L ++   +  +       L      N  +LEK   
Sbjct: 189 MNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDK 248

Query: 486 GQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDV 545
             L       ++  ++   D   +     F   L  + + ++++   ++ +         
Sbjct: 249 SALEGLCNLTIEEFRLAYLDYYLDDIIDLF-NCLTNVSSFSLVSV-TIERVKDFSYNFGW 306

Query: 546 DCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECD 605
              E+   +F Q  +L LK L +LT F S    +A S+  L  L    L R  +    C 
Sbjct: 307 QHLELVNCKFGQFPTLKLKSLKRLT-FTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGC- 364

Query: 606 TLMPFFNEKVVFPNLETLEL--CAIST-EKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFP 662
                F       +L+ L+L    + T    +         + L  L       LK +  
Sbjct: 365 CSQSDFG----TTSLKYLDLSFNGVITMSSNFLG------LEQLEHLDFQHS-NLKQMSE 413

Query: 663 SSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSEL------- 715
            S+  +   L +L+I +                          F  L +L  L       
Sbjct: 414 FSVFLSLRNLIYLDISHT-HTRVA---------------FNGIFNGLSSLEVLKMAGNSF 457

Query: 716 -KTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVT 774
            + F P    ++   L  L++  C           + ++++   F               
Sbjct: 458 QENFLPDIF-TELRNLTFLDLSQC-----------QLEQLSPTAF------------NSL 493

Query: 775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVN 810
           S L+ L +S  +             ++ L +L+V++
Sbjct: 494 SSLQVLNMSHNNF-----FSLDTFPYKCLNSLQVLD 524

>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 = 4e-08
 Identities = 42/279 (15%), Positives = 88/279 (31%), Gaps = 61/279 (21%)

Query: 265 KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
                L L    + Q P++  +L+ L+   +     L  +P   +   + LE L +    
Sbjct: 81  PGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAA-GLMELPDT-MQQFAGLETLTLARNP 138

Query: 325 VK---WEFEGLNVGRSNASLQELKL--LSHLTTLEIQICDAMILPKGLFSKKLERYKIFI 379
           ++        LN       L+EL +     LT L   +       +      L+      
Sbjct: 139 LRALPASIASLN------RLRELSIRACPELTELPEPLASTDASGEHQGLVNLQ------ 186

Query: 380 GDEWDWSGNYKNKRVLKLKLYTSNVDEV---IMQLKGIEELYLDEVPGIKNVLYDL--DI 434
                            L+L  + +  +   I  L+ ++ L +       + L  L   I
Sbjct: 187 ----------------SLRLEWTGIRSLPASIANLQNLKSLKIRN-----SPLSALGPAI 225

Query: 435 EGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKI--CLGQLRAES 492
               +L+ L ++    +                 L+ L+L +  +L  +   + +L    
Sbjct: 226 HHLPKLEELDLRGCTALRNYPPIFGGRA-----PLKRLILKDCSNLLTLPLDIHRLT--- 277

Query: 493 FYKLKIIKVRNCDKLKNI-FSFSFVRGLPQLQTLNVINC 530
             +L+ + +R C  L  +    +    LP    + V   
Sbjct: 278 --QLEKLDLRGCVNLSRLPSLIA---QLPANCIILVPPH 311

>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 = 42.2 bits (100), Expect = 8e-04
 Identities = 51/334 (15%), Positives = 96/334 (28%), Gaps = 77/334 (23%)

Query: 642 YSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVF 701
           +S     L   G   L+       +  + +  + +     S        +          
Sbjct: 10  HSSGRENLYFQGSTALRPYHDV--LSQWQRHYNADRNRWHSAWRQANSNN---------- 57

Query: 702 PKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDI 761
                ++      LK        +  P    LE+                 +  +  F +
Sbjct: 58  ---PQIETRTGRALKATADLLEDATQPGRVALELRSV-----------PLPQFPDQAFRL 103

Query: 762 PTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFR---- 817
                        S L+ + +    +      + P  +      LE +       R    
Sbjct: 104 -------------SHLQHMTIDAAGL-----MELPDTMQ-QFAGLETLTLARNPLRALPA 144

Query: 818 -IGFLERFHNLEKLELRW-SSYKEI---FSNEEIVEHAEMLTQVKSLKL----------- 861
            I  L   + L +L +R      E+    ++ +     + L  ++SL+L           
Sbjct: 145 SIASL---NRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPAS 201

Query: 862 -WELSDLMYIWKQDSKLDSITE------NLESLEVWWCENLINLVPSSASFKNLTTLELW 914
              L +L  +  ++S L ++         LE L++  C  L N  P       L  L L 
Sbjct: 202 IANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILK 261

Query: 915 YCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEI 948
            C  L+ L        L  L KL + GC  L+ +
Sbjct: 262 DCSNLLTL--PLDIHRLTQLEKLDLRGCVNLSRL 293

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 55.4 bits (134), Expect = 5e-08
 Identities = 42/202 (20%), Positives = 78/202 (38%), Gaps = 28/202 (13%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN- 322
            + +I  + DS+++Q    +      ++  DLSG   L  I    L+  ++LE L + + 
Sbjct: 10  NRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGN-PLSQISAADLAPFTKLELLNLSSN 68

Query: 323 --TSVKWEFEG------LNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSK---- 370
                  + E       L++  +N  +QEL +   + TL     +   +           
Sbjct: 69  VLYETL-DLESLSTLRTLDL--NNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKKNI 125

Query: 371 KLERYKIFIGDEWDWSGNYKNKRVLKL---KLYTSNVDEVIMQLKGIEELYLDEVPGIKN 427
            L   KI +  + D  G     + L L   ++ T N  E+      +E L L       N
Sbjct: 126 YLANNKITMLRDLDE-GCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQ-----YN 179

Query: 428 VLYDLDIEGFL-QLKHLHVQNN 448
            +YD+  +    +LK L + +N
Sbjct: 180 FIYDVKGQVVFAKLKTLDLSSN 201

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 45.0 bits (107), Expect = 1e-04
 Identities = 30/198 (15%), Positives = 63/198 (31%), Gaps = 47/198 (23%)

Query: 259 TSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDL 318
             L +   +E L   ++NI ++          +   L+   K+ ++        SR++ L
Sbjct: 93  QELLVGPSIETLHAANNNISRVSCSR--GQGKKNIYLANN-KITMLRDLDEGCRSRVQYL 149

Query: 319 YMGNTSVKWEFEGLNVGRSNASLQELKLLS----HLTTLEIQICDAMILPKGLFSKKLER 374
            +       E + +N     AS   L+ L+     +            +   +   KL+ 
Sbjct: 150 DLKLN----EIDTVNFAELAASSDTLEHLNLQYNFIYD----------VKGQVVFAKLKT 195

Query: 375 YKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLD- 433
             +        S N       KL    + +        G+  + L       N L  ++ 
Sbjct: 196 LDL--------SSN-------KL----AFMGPEFQSAAGVTWISLRN-----NKLVLIEK 231

Query: 434 -IEGFLQLKHLHVQNNPF 450
            +     L+H  ++ N F
Sbjct: 232 ALRFSQNLEHFDLRGNGF 249

>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 = 56.1 bits (135), Expect = 5e-08
 Identities = 44/270 (16%), Positives = 93/270 (34%), Gaps = 68/270 (25%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNT 323
              +I++  +S + +LP  +     Q+ L +L+   +++ I     +    ++ LYMG  
Sbjct: 51  NNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGFN 109

Query: 324 SVKWEFEGLNVGRSNASLQE--LKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGD 381
           +++              L     + +  LT L ++  D   LP+G+F             
Sbjct: 110 AIR-------------YLPPHVFQNVPLLTVLVLERNDLSSLPRGIFH------------ 144

Query: 382 EWDWSGNYKNKRVLKLKLY----TSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGF 437
                      ++  L +         D+       ++ L L       N L  +D+   
Sbjct: 145 --------NTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLS-----SNRLTHVDLSLI 191

Query: 438 LQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVL-HNLIHLEKICLGQLRAESFYKL 496
             L H +V  N                  + +E L   HN I+        +R     +L
Sbjct: 192 PSLFHANVSYNLLSTL----------AIPIAVEELDASHNSIN-------VVRGPVNVEL 234

Query: 497 KIIKVRNCDKLKNIFSFSFVRGLPQLQTLN 526
            I+K+++     N+   +++   P L  ++
Sbjct: 235 TILKLQHN----NLTDTAWLLNYPGLVEVD 260

>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 = 47.6 bits (113), Expect = 2e-05
 Identities = 42/286 (14%), Positives = 90/286 (31%), Gaps = 68/286 (23%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN- 322
             ++ L +  + I  LP  +   +  L +  L     L  +P  +     +L  L M N 
Sbjct: 99  HTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNN 157

Query: 323 --TSVKWE-FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSKKLERYKIF 378
               ++ + F+         SLQ L+L S  LT           +   L           
Sbjct: 158 NLERIEDDTFQATT------SLQNLQLSSNRLTH----------VDLSLI---------- 191

Query: 379 IGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFL 438
                          +    + + N+   +     +EEL         N +  +     +
Sbjct: 192 -------------PSLFHANV-SYNLLSTLAIPIAVEELDASH-----NSINVVRGPVNV 232

Query: 439 QLKHLHVQNNPFI-LFIVDSMAWVR-----YNAFLLLESLVLHNLIHLEKICLG--QLRA 490
           +L  L +Q+N       + +   +      YN    +       +  LE++ +   +L A
Sbjct: 233 ELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVA 292

Query: 491 -----ESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCK 531
                +    LK++ + +   L ++          +L+ L + +  
Sbjct: 293 LNLYGQPIPTLKVLDLSHN-HLLHVERNQP--QFDRLENLYLDHNS 335

>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 = 43.0 bits (101), Expect = 5e-04
 Identities = 38/231 (16%), Positives = 68/231 (29%), Gaps = 85/231 (36%)

Query: 243 GLLKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQLPEEM------------------ 284
            L+       V  N+ ++L +   +E L    ++I  +   +                  
Sbjct: 189 SLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTA 248

Query: 285 --AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN---TSVKWEFEGLNVGRSNA 339
                  L   DLS   +L+ I  +    + RLE LY+ N    ++    + +       
Sbjct: 249 WLLNYPGLVEVDLSYN-ELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIP------ 301

Query: 340 SLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKL 399
           +L+ L L                                       S N        L  
Sbjct: 302 TLKVLDL---------------------------------------SHN-------HLL- 314

Query: 400 YTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPF 450
              +V+    Q   +E LYLD      N +  L +     LK+L + +N +
Sbjct: 315 ---HVERNQPQFDRLENLYLDH-----NSIVTLKLSTHHTLKNLTLSHNDW 357

>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 = 54.8 bits (132), Expect = 1e-07
 Identities = 29/129 (22%), Positives = 46/129 (35%), Gaps = 26/129 (20%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
           KL  L L ++ IE +P     ++  L   DL    KL+ I      GL  L+ L +G  +
Sbjct: 148 KLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCN 207

Query: 325 VK--WEFEGLNVGRSNASLQELKL---------------LSHLTTLEIQICDAMILPKGL 367
           +K       L        L+EL++               LS L  L +      ++ +  
Sbjct: 208 IKDMPNLTPL------VGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNA 261

Query: 368 FS--KKLER 374
           F     L  
Sbjct: 262 FDGLASLVE 270

>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 = 48.6 bits (116), Expect = 9e-06
 Identities = 49/282 (17%), Positives = 92/282 (32%), Gaps = 92/282 (32%)

Query: 262 DLDKKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYM 320
            +      L+L+++NI+ +  +    L  L +  L     ++ I     +GL+ L  L +
Sbjct: 72  GIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRN-SIRQIEVGAFNGLASLNTLEL 130

Query: 321 GN---TSVKWE-FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFS--KKLE 373
            +   T +    FE L      + L+EL L +  + ++          P   F+    L 
Sbjct: 131 FDNWLTVIPSGAFEYL------SKLRELWLRNNPIESI----------PSYAFNRVPSLM 174

Query: 374 RYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVI-----MQLKGIEELYLDEVPGIKNV 428
           R                      L L      E I       L  ++ L L         
Sbjct: 175 R----------------------LDLGELKKLEYISEGAFEGLFNLKYLNLGM-----CN 207

Query: 429 LYDL-DIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQ 487
           + D+ ++   + L+ L +  N F          +R  +F        H L  L+K+ +  
Sbjct: 208 IKDMPNLTPLVGLEELEMSGNHF--------PEIRPGSF--------HGLSSLKKLWVM- 250

Query: 488 LRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVIN 529
                          +  ++  I   +F  GL  L  LN+ +
Sbjct: 251 --------------NS--QVSLIERNAF-DGLASLVELNLAH 275

>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 = 43.6 bits (103), Expect = 4e-04
 Identities = 19/98 (19%), Positives = 40/98 (40%), Gaps = 13/98 (13%)

Query: 254 LDNIWTSLDLDKKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGL 312
           + ++     L   LE L +  ++  ++       L+ L+   +    ++ +I  N   GL
Sbjct: 208 IKDMPNLTPL-VGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNAFDGL 265

Query: 313 SRLEDLYMGN---TSVKWE-FEGLNVGRSNASLQELKL 346
           + L +L + +   +S+  + F  L        L EL L
Sbjct: 266 ASLVELNLAHNNLSSLPHDLFTPL------RYLVELHL 297

>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 = 54.6 bits (132), Expect = 2e-07
 Identities = 84/629 (13%), Positives = 169/629 (26%), Gaps = 176/629 (27%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN- 322
             L++L+L  + + QL ++  A  T L    L     ++ I  N       L  L + + 
Sbjct: 73  PMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSHN 131

Query: 323 --TSVKWE-FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSKKLERYKIF 378
             +S K      L       +LQEL L +  +            L               
Sbjct: 132 GLSSTKLGTQVQLE------NLQELLLSNNKIQA----------LKSEELD--------- 166

Query: 379 IGDEWDWSGNYKNKRVLKLKLY----TSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDI 434
                     + N  + KL+L               +  +  L+L+ V    ++   L +
Sbjct: 167 ---------IFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCL 217

Query: 435 EGFL-QLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVL-HNLI-HLEKICLGQLRAE 491
           E     +++L + N+        +   +++     L  L L +N +  +       L   
Sbjct: 218 ELANTSIRNLSLSNSQLSTTSNTTFLGLKWTN---LTMLDLSYNNLNVVGNDSFAWL--- 271

Query: 492 SFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVD 551
              +L+   +     ++++FS S   GL  ++ LN+              +       + 
Sbjct: 272 --PQLEYFFLEYN-NIQHLFSHSL-HGLFNVRYLNL--------------KRSFTKQSIS 313

Query: 552 KIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFF 611
                ++   + ++L  L                +  + ++                 F 
Sbjct: 314 LASLPKIDDFSFQWLKCLEHLN-------MEDNDIPGIKSNM----------------FT 350

Query: 612 NEKVVFPNLETLEL--CAISTEKIWCNQLAAVYSQNLTRL-------------IVHGCEK 656
                  NL+ L L     S   +      ++    L  L                    
Sbjct: 351 G----LINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGH 406

Query: 657 LKYL----------FPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTF 706
           L+ L                R    +  + + Y      +                + +F
Sbjct: 407 LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYN-KYLQL---------------TRNSF 450

Query: 707 LKLWNLSELK---------TFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFL-------- 749
             + +L  L             P         L  L++   +   I              
Sbjct: 451 ALVPSLQRLMLRRVALKNVDSSPSPFQP-LRNLTILDLSNNNIANINDDMLEGLEKLEIL 509

Query: 750 -----RFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLK 804
                    + +          L    K  S L  L L       I     P  +F++L 
Sbjct: 510 DLQHNNLARLWKHANPGGPIYFL----KGLSHLHILNLESNGFDEI-----PVEVFKDLF 560

Query: 805 NLEVVNDESENFRIGFLER--FHNLEKLE 831
            L+++ D   N  +  L    F+N   L+
Sbjct: 561 ELKII-DLGLN-NLNTLPASVFNNQVSLK 587

>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 = 52.7 bits (127), Expect = 7e-07
 Identities = 50/328 (15%), Positives = 103/328 (31%), Gaps = 69/328 (21%)

Query: 259 TSLDLDKKLEILSLVDSNIEQL-PEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLED 317
             L+L +     S+  +++ ++       L  L   ++     +  I  N+ +GL  L+ 
Sbjct: 299 RYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDN-DIPGIKSNMFTGLINLKY 357

Query: 318 LYMGNTSVKWEFEGLNV--GRSNASLQELKL---------------LSHLTTLEI---QI 357
           L + N+               +++ L  L L               L HL  L++   +I
Sbjct: 358 LSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEI 417

Query: 358 CDAMILPKGLFS--KKLERYKI----FIGDEWDWSGNYKNKRVLKL---KLYT-SNVDEV 407
                L    +   + +    +    ++    +      + + L L    L    +    
Sbjct: 418 --GQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSP 475

Query: 408 IMQLKGIEELYLDEVPGIKNVLYDLD---IEGFLQLKHLHVQNNPFILFIVDSMAWVRYN 464
              L+ +  L L       N + +++   +EG  +L+ L +Q+N        +       
Sbjct: 476 FQPLRNLTILDLSN-----NNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIY 530

Query: 465 AFLLLESL----------------VLHNLIHLEKICLG-----QLRAESFYKLKIIKV-- 501
               L  L                V  +L  L+ I LG      L A  F     +K   
Sbjct: 531 FLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLN 590

Query: 502 --RNCDKLKNIFSFSFVRGLPQLQTLNV 527
             +N   + ++    F      L  L++
Sbjct: 591 LQKN--LITSVEKKVFGPAFRNLTELDM 616

>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 = 49.6 bits (119), Expect = 5e-06
 Identities = 84/577 (14%), Positives = 169/577 (29%), Gaps = 162/577 (28%)

Query: 265 KKLEILSLVDSNIEQLPEEM---AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMG 321
           + L+ L L ++ I+ L  E       + L+  +LS   ++K   P     + RL  L++ 
Sbjct: 145 ENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSN-QIKEFSPGCFHAIGRLFGLFLN 203

Query: 322 NTSVKWE-FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSKKLERYKIFI 379
           N  +     E L +  +N S++ L L +  L+T               F           
Sbjct: 204 NVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTT----------SNTTF----------- 242

Query: 380 GDEWDWSGNYKNKRVLKLKLY----TSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLD-- 433
                     K   +  L L         ++    L  +E  +L+      N +  L   
Sbjct: 243 -------LGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEY-----NNIQHLFSH 290

Query: 434 -IEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAES 492
            + G   +++L+++ +     I          +   ++      L  LE + +       
Sbjct: 291 SLHGLFNVRYLNLKRSFTKQSIS-------LASLPKIDDFSFQWLKCLEHLNME------ 337

Query: 493 FYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDK 552
                     N   +  I S  F  GL  L+ L++               +      +  
Sbjct: 338 ---------DN--DIPGIKSNMF-TGLINLKYLSL-------------SNSFTSLRTLTN 372

Query: 553 IEFSQLHSLTLKFLP----QLTSFYSQVKTSAASQTRLKELS------THTLPREVILED 602
             F  L    L  L     +++   S    + +    L+ L          L  +     
Sbjct: 373 ETFVSLAHSPLHILNLTKNKISKIESD---AFSWLGHLEVLDLGLNEIGQELTGQEWRG- 428

Query: 603 ECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYS------QNLTRLIVHGCEK 656
                           N+  + L          N+   +         +L RL++     
Sbjct: 429 --------------LENIFEIYLS--------YNKYLQLTRNSFALVPSLQRLMLRRV-A 465

Query: 657 LKYL-FPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSE- 714
           LK +    S  +    L  L++   + + +I             +   +  L++ +L   
Sbjct: 466 LKNVDSSPSPFQPLRNLTILDLSNNN-IANI----------NDDMLEGLEKLEILDLQHN 514

Query: 715 -LKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKV 773
            L   +   +        K    G   + I       F EI    F            K 
Sbjct: 515 NLARLWKHANPGGPIYFLK----GLSHLHILNLESNGFDEIPVEVF------------KD 558

Query: 774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVN 810
             +L+ + L   ++     +  P  +F N  +L+ +N
Sbjct: 559 LFELKIIDLGLNNL-----NTLPASVFNNQVSLKSLN 590

>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 = 48.8 bits (117), Expect = 1e-05
 Identities = 104/706 (14%), Positives = 210/706 (29%), Gaps = 184/706 (26%)

Query: 267 LEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVK 326
            E+       + Q+P+++   T + + +L+   +L+ +P    +  S+L  L +G  ++ 
Sbjct: 6   HEVADCSHLKLTQVPDDL--PTNITVLNLTHN-QLRRLPAANFTRYSQLTSLDVGFNTIS 62

Query: 327 W----EFEGLNVGRSNASLQELKL---------------LSHLTTLEIQICDAMILPKGL 367
                  + L        L+ L L                ++LT L +       +    
Sbjct: 63  KLEPELCQKLP------MLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNP 116

Query: 368 FS--KKLERYKIFIGD------EWDWSGNYKNKRVLKLKL----YTSNVDEVIMQLKGIE 415
           F   K L    + +        +       +N + L L         + +  I     ++
Sbjct: 117 FVKQKNLIT--LDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLK 174

Query: 416 ELYLDEVPGIKNVLYDLD---IEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESL 472
           +L L       N + +          +L  L + N      + + +     N    + +L
Sbjct: 175 KLELSS-----NQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELAN--TSIRNL 227

Query: 473 VLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKN 532
            L N   L            +  L ++ +     L  + + SF   LPQL+   +     
Sbjct: 228 SLSN-SQLSTTSNTTFLGLKWTNLTMLDLSYN-NLNVVGNDSF-AWLPQLEYFFLEYNN- 283

Query: 533 MKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQ--VKTSAASQTRLKELS 590
                                    L S +L  L  +     +      + S   L ++ 
Sbjct: 284 ----------------------IQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKID 321

Query: 591 THTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLI 650
             +                F         LE L +          N +       +   +
Sbjct: 322 DFS----------------FQW----LKCLEHLNM---ED-----NDI-----PGIKSNM 348

Query: 651 VHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLE------------SIVGKESGEEATTT 698
             G   LKYL   S+  +F  L  L      SL              I   ES       
Sbjct: 349 FTGLINLKYL---SLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESD------ 399

Query: 699 FVFPKVTFLKLWNLS--ELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINE 756
             F  +  L++ +L   E+     G        + ++ +              ++ ++  
Sbjct: 400 -AFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYN-----------KYLQLTR 447

Query: 757 GQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDES--- 813
             F +               L+ L L    +  +  S  P   F+ L+NL +++  +   
Sbjct: 448 NSFAL------------VPSLQRLMLRRVALKNVDSSPSP---FQPLRNLTILDLSNNNI 492

Query: 814 ENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQ 873
            N     LE    LE L+L+ ++   ++ +         L  +  L +  L         
Sbjct: 493 ANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLE-------- 544

Query: 874 DSKLDSITE-------NLESLEVWWCENLINLVPSSASFKNLTTLE 912
            +  D I          L+ +++    N +N +P+S  F N  +L+
Sbjct: 545 SNGFDEIPVEVFKDLFELKIIDL--GLNNLNTLPASV-FNNQVSLK 587

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 54.0 bits (130), Expect = 2e-07
 Identities = 29/129 (22%), Positives = 45/129 (34%), Gaps = 26/129 (20%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
           KL+ L L ++ IE +P     ++  LR  DL    +L  I      GLS L  L +   +
Sbjct: 137 KLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN 196

Query: 325 VKW--EFEGLNVGRSNASLQELKL---------------LSHLTTLEIQICDAMILPKGL 367
           ++       L        L EL L               L HL  L +      ++ +  
Sbjct: 197 LREIPNLTPL------IKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNA 250

Query: 368 FS--KKLER 374
           F   + L  
Sbjct: 251 FDNLQSLVE 259

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 47.1 bits (112), Expect = 3e-05
 Identities = 24/97 (24%), Positives = 40/97 (41%), Gaps = 14/97 (14%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN- 322
           + LEIL L  ++I  +       L  L   +L    +L  IP      LS+L++L++ N 
Sbjct: 88  RHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDN-RLTTIPNGAFVYLSKLKELWLRNN 146

Query: 323 --TSVKWE-FEGLNVGRSNASLQELKLLS--HLTTLE 354
              S+    F  +       SL+ L L     L+ + 
Sbjct: 147 PIESIPSYAFNRIP------SLRRLDLGELKRLSYIS 177

>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 = 6e-04
 Identities = 16/86 (18%), Positives = 34/86 (39%), Gaps = 12/86 (13%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN-- 322
           KL+ L L  +++  +       L  L+   +    +++VI  N    L  L ++ + +  
Sbjct: 208 KLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS-QIQVIERNAFDNLQSLVEINLAHNN 266

Query: 323 -TSVKWE-FEGLNVGRSNASLQELKL 346
            T +  + F  L        L+ + L
Sbjct: 267 LTLLPHDLFTPL------HHLERIHL 286

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 53.7 bits (129), Expect = 2e-07
 Identities = 65/358 (18%), Positives = 129/358 (36%), Gaps = 59/358 (16%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN-- 322
           + +I  + DS+++Q    +      ++  DLSG   L  I    L+  ++LE L + +  
Sbjct: 11  RYKIEKVTDSSLKQALASLRQSAWNVKELDLSGN-PLSQISAADLAPFTKLELLNLSSNV 69

Query: 323 -TSVKWEFEGLNVGR----SNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKI 377
                 + E L+  R    +N  +QEL +   + TL     +   +         +   I
Sbjct: 70  LYETL-DLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQ-GKKN--I 125

Query: 378 FIGD------EWDWSGNYKNKRVLKL---KLYTSNVDEVIMQLKGIEELYLDEVPGIKNV 428
           ++ +           G     + L L   ++ T N  E+      +E L L       N 
Sbjct: 126 YLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQ-----YNF 180

Query: 429 LYDLDIEGFL-QLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHN--LIHLEKICL 485
           +YD+  +    +LK L + +N  + F+          +   +  + L N  L+ +EK  L
Sbjct: 181 IYDVKGQVVFAKLKTLDLSSN-KLAFMGPEFQ-----SAAGVTWISLRNNKLVLIEKA-L 233

Query: 486 GQLRAESFYKLKIIKVRN----CDKLKNIFSFS------FVRGLPQLQTLNVINCKNMKE 535
              +      L+   +R     C  L++ FS +        + + +L   N   C     
Sbjct: 234 RFSQ-----NLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTL 288

Query: 536 IFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLT---SFYSQVKTSAASQTRLKELS 590
                      C ++      +L +L  K    L+   S   +++    +Q R +E+ 
Sbjct: 289 G----HYGAYCCEDLPAPFADRLIALKRKEHALLSGQGSETERLECERENQARQREID 342

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 43.7 bits (103), Expect = 3e-04
 Identities = 42/294 (14%), Positives = 87/294 (29%), Gaps = 60/294 (20%)

Query: 259 TSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDL 318
             L +   +E L   ++NI ++          +   L+   K+ ++        SR++ L
Sbjct: 93  QELLVGPSIETLHAANNNISRVSCSR--GQGKKNIYLANN-KITMLRDLDEGCRSRVQYL 149

Query: 319 YMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIF 378
            +       E + +N     AS   L+ L +L    I       +   +   KL+     
Sbjct: 150 DLKLN----EIDTVNFAELAASSDTLEHL-NLQYNFIY-----DVKGQVVFAKLK----- 194

Query: 379 IGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLD--IEG 436
                D S N       KL    + +        G+  + L       N L  ++  +  
Sbjct: 195 ---TLDLSSN-------KL----AFMGPEFQSAAGVTWISLRN-----NKLVLIEKALRF 235

Query: 437 FLQLKHLHVQNNPF-------ILFIVDSMAWVRYNAF-----LLLESLVLHNLIHLEKIC 484
              L+H  ++ N F              +  V             E   +  L H    C
Sbjct: 236 SQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYC 295

Query: 485 LGQLRAESFYKLKIIKVRN-------CDKLKNIFSFSFVRGLPQLQTLNVINCK 531
              L A    +L  +K +          + + +          + + ++ +  +
Sbjct: 296 CEDLPAPFADRLIALKRKEHALLSGQGSETERLECERE--NQARQREIDALKEQ 347

>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 = 53.2 bits (128), Expect = 3e-07
 Identities = 48/340 (14%), Positives = 93/340 (27%), Gaps = 66/340 (19%)

Query: 255 DNIWTSLDLD--KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGL 312
                ++  +    L  L   +S+I  +   + +LT L     +    +  +    LS  
Sbjct: 30  MQATDTISEEQLATLTSLDCHNSSITDMTG-IEKLTGLTKLICTSN-NITTLD---LSQN 84

Query: 313 SRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSKK 371
           + L  L   +     +   L+V      L  L   +  LT L++     +          
Sbjct: 85  TNLTYLACDSN----KLTNLDVT-PLTKLTYLNCDTNKLTKLDVSQNPLL--------TY 131

Query: 372 LERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYD 431
           L   +  +  E D S N      L   L        +     +  L         N + +
Sbjct: 132 LNCARNTL-TEIDVSHN-TQLTELDCHLNKKITKLDVTPQTQLTTLDCSF-----NKITE 184

Query: 432 LDIEGFLQLKHLHVQNNPFILFIVDSMA-----WVRYNAFLLLESLVLHNLIHLEKICLG 486
           LD+     L  L+   N      ++            N    L  + +  L  L      
Sbjct: 185 LDVSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNK---LTEIDVTPLTQLTYFDC- 240

Query: 487 QLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVD 546
                S   L  + V    KL  +           L  +++ +   +             
Sbjct: 241 -----SVNPLTELDVSTLSKLTTLHCIQT-----DLLEIDLTHNTQLIYF------QAEG 284

Query: 547 CHEVDKIEFSQLHSLT-------------LKFLPQLTSFY 573
           C ++ +++ +    L              L   P+L   Y
Sbjct: 285 CRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLY 324

>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 = 52.6 bits (126), Expect = 7e-07
 Identities = 63/504 (12%), Positives = 146/504 (28%), Gaps = 79/504 (15%)

Query: 429 LYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQL 488
           +  ++++G       ++  + +  ++   +  +  +++  LE + L  ++ +   CL  +
Sbjct: 68  VRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMS-SSYTWLEEIRLKRMV-VTDDCLELI 125

Query: 489 RAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCH 548
            A+SF   K++ + +C+        +       L+ L++                     
Sbjct: 126 -AKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYT 184

Query: 549 EVDKIEFSQLHSLT--------LKFLPQLTSFY-------SQVKTSAASQTRLKELSTHT 593
            +  +  S L S          +   P L S          ++ T      +L+EL T  
Sbjct: 185 SLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGG 244

Query: 594 LPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHG 653
                 +  +  + +           L  L     +                LT L +  
Sbjct: 245 YTA--EVRPDVYSGLSVALSG--CKELRCLSGFWDAVPA--YLPAVYSVCSRLTTLNLSY 298

Query: 654 CEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLS 713
                Y     ++    +L+ L +        +    S            +  L+++   
Sbjct: 299 ATVQSYDL-VKLLCQCPKLQRLWVLDYIEDAGLEVLAST--------CKDLRELRVFPSE 349

Query: 714 ELKTFYPGTHT--------SKWPMLKKLEVYGCDKV-----KIFTSRFLRFQEIN----- 755
                     T           P L+ + +Y C ++                        
Sbjct: 350 PFVMEPNVALTEQGLVSVSMGCPKLESV-LYFCRQMTNAALITIARNRPNMTRFRLCIIE 408

Query: 756 ----EGQFDIPTQQALFLVEKVTSKLEELKLSGK--DIAMICQSQFPKHIFRNLKNLEVV 809
               +     P       + +    L  L LSG   D          ++I    K +E++
Sbjct: 409 PKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVF-------EYIGTYAKKMEML 461

Query: 810 N----DESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELS 865
           +     +S+      L    +L KLE+R       F ++ ++ +A  L  ++SL      
Sbjct: 462 SVAFAGDSDLGMHHVLSGCDSLRKLEIRDCP----FGDKALLANASKLETMRSL------ 511

Query: 866 DLMYIWKQDSKLDSITENLESLEV 889
            +            + + +  L V
Sbjct: 512 WMSSCSVSFGACKLLGQKMPKLNV 535

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 44.1 bits (104), Expect = 3e-04
 Identities = 58/508 (11%), Positives = 134/508 (26%), Gaps = 82/508 (16%)

Query: 461 VRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLP 520
           +     +   ++ +     +  +   +L+ +  +    +           +  +      
Sbjct: 50  IGNCYAVSPATV-IRRFPKVRSV---ELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYT 105

Query: 521 QLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSA 580
            L+ + +                D     + K  F     L L      ++    +   A
Sbjct: 106 WLEEIRLKRM----------VVTDDCLELIAKS-FKNFKVLVLSSCEGFST--DGLAAIA 152

Query: 581 ASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLEL---CAISTEKIWCNQ 637
           A+   LKEL    L    + +     L  F +    + +L +L +    +  +      +
Sbjct: 153 ATCRNLKELD---LRESDVDDVSGHWLSHFPD---TYTSLVSLNISCLASEVSFSAL--E 204

Query: 638 LAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATT 697
                  NL  L ++    L+ L  +++++   QLE L     ++           +  +
Sbjct: 205 RLVTRCPNLKSLKLNRAVPLEKL--ATLLQRAPQLEELGTGGYTAE-------VRPDVYS 255

Query: 698 TFVFPKVTFLKLWNLSELKTFYPG---THTSKWPMLKKLEVYGC----DKVKIFTSRFLR 750
                     +L  LS      P       S    L  L +         +     +  +
Sbjct: 256 GLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPK 315

Query: 751 FQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVN 810
            Q +     D      L ++      L EL++         +    +           + 
Sbjct: 316 LQRLWV--LDYIEDAGLEVLASTCKDLRELRVFP------SEPFVMEPNVA-------LT 360

Query: 811 DESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYI 870
           ++     +        LE +           +N  ++  A     +   +L  +      
Sbjct: 361 EQGL---VSVSMGCPKLESVLYFCRQ----MTNAALITIARNRPNMTRFRLCIIEPKAPD 413

Query: 871 WKQDSKLD----SITE---NLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLV 923
           +     LD    +I E   +L  L +                K +  L + +        
Sbjct: 414 YLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVAFAG-----D 468

Query: 924 T----SSTAKSLVCLTKLRIDGCRMLTE 947
           +             L KL I  C    +
Sbjct: 469 SDLGMHHVLSGCDSLRKLEIRDCPFGDK 496

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 51.8 bits (124), Expect = 8e-07
 Identities = 30/128 (23%), Positives = 41/128 (32%), Gaps = 30/128 (23%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN- 322
             L  L L  +++  +  E    +  LR  DLS    L  +   L S L  LE L + N 
Sbjct: 64  TNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSN-HLHTLDEFLFSDLQALEVLLLYNN 122

Query: 323 --TSVKWE-FEGLNVGRSNASLQELKL------------------LSHLTTLEIQICDAM 361
               V    FE +      A LQ+L L                  L  L  L++      
Sbjct: 123 HIVVVDRNAFEDM------AQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLK 176

Query: 362 ILPKGLFS 369
            LP     
Sbjct: 177 KLPLTDLQ 184

>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 = 51.2 bits (123), Expect = 9e-07
 Identities = 35/216 (16%), Positives = 63/216 (29%), Gaps = 63/216 (29%)

Query: 265 KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
             L+ L L  + +  +      L QL   D    +  ++   ++   L  L  L + +T 
Sbjct: 78  TSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH 137

Query: 325 VKW----EFEGLNVGRSNASLQELKL----------------LSHLTTLEIQICDAMILP 364
            +      F GL+      SL+ LK+                L +LT L++  C    L 
Sbjct: 138 TRVAFNGIFNGLS------SLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLS 191

Query: 365 KGLFS--KKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNV----DEVIMQLKGIEELY 418
              F+    L+                       L +  +N           L  ++ L 
Sbjct: 192 PTAFNSLSSLQ----------------------VLNMSHNNFFSLDTFPYKCLNSLQVLD 229

Query: 419 LDEVPGIKNVLYDLDIEGFL----QLKHLHVQNNPF 450
                   N +     +        L  L++  N F
Sbjct: 230 YS-----LNHIMTSKKQELQHFPSSLAFLNLTQNDF 260

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 50.8 bits (122), Expect = 1e-06
 Identities = 50/260 (19%), Positives = 98/260 (37%), Gaps = 57/260 (21%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNT 323
           +KL+ L +  +++ ++P  + + L +LR+ D    ++++ +P  + SGL  +  + MG  
Sbjct: 102 RKLQKLYISKNHLVEIPPNLPSSLVELRIHD----NRIRKVPKGVFSGLRNMNCIEMGGN 157

Query: 324 SVKWE------FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSK----KL 372
            ++        F+GL        L  L++    LT           +PK L        L
Sbjct: 158 PLENSGFEPGAFDGLK-------LNYLRISEAKLTG----------IPKDLPETLNELHL 200

Query: 373 ERYKI-FIGDEWDWSGNYKNKRVLKL---KLYTSNVDE-VIMQLKGIEELYLDEVPGIKN 427
           +  KI  I  E D    Y     L L   ++    ++   +  L  + EL+LD      N
Sbjct: 201 DHNKIQAIELE-DLLR-YSKLYRLGLGHNQI--RMIENGSLSFLPTLRELHLD-----NN 251

Query: 428 VLYDL--DIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLL-LESLVL-HNLIHLEKI 483
            L  +   +     L+ +++  N      V+    V +         + L +N +   ++
Sbjct: 252 KLSRVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEV 311

Query: 484 ------CLGQLRAESFYKLK 497
                 C+    A  F   K
Sbjct: 312 QPATFRCVTDRLAIQFGNYK 331

>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 = 50.8 bits (122), Expect = 2e-06
 Identities = 44/253 (17%), Positives = 93/253 (36%), Gaps = 58/253 (22%)

Query: 265 KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN-- 322
            KLE L L  + +++LPE+M     L+   +    ++  +  ++ +GL+++  + +G   
Sbjct: 100 VKLERLYLSKNQLKELPEKM--PKTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGTNP 156

Query: 323 -TSVKWE---FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSK----KLE 373
             S   E   F+G+        L  +++   ++TT          +P+GL        L+
Sbjct: 157 LKSSGIENGAFQGMK------KLSYIRIADTNITT----------IPQGLPPSLTELHLD 200

Query: 374 RYKI-FIGDEWDWSGNYKNKRVLKL---KLYTSNVDEVIMQLKGIEELYLD-----EVPG 424
             KI  +       G   N   L L    + ++  +  +     + EL+L+     +VPG
Sbjct: 201 GNKITKVDAA-SLKG-LNNLAKLGLSFNSI-SAVDNGSLANTPHLRELHLNNNKLVKVPG 257

Query: 425 IKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLL-LESLVL-HNLIHLEK 482
                    +     ++ +++ NN       +      YN        + L  N +   +
Sbjct: 258 --------GLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWE 309

Query: 483 I------CLGQLR 489
           I      C+    
Sbjct: 310 IQPSTFRCVYVRA 322

>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 = 44.6 bits (106), Expect = 1e-04
 Identities = 55/331 (16%), Positives = 105/331 (31%), Gaps = 87/331 (26%)

Query: 262 DLDKKLEILSLVDSNIEQLPEE-MAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYM 320
           DL     +L L ++ I ++ +     L  L    L    K+  I P   + L +LE LY+
Sbjct: 49  DLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINN-KISKISPGAFAPLVKLERLYL 107

Query: 321 GNTSVKWEFEGLNVGRSNASLQEL--KLLSHLTTLEIQICDAMILPKGLFSKKLERYKIF 378
                       N       L+EL  K+   L  L +   +   + K +F+         
Sbjct: 108 SK----------N------QLKELPEKMPKTLQELRVHENEITKVRKSVFNGL------- 144

Query: 379 IGDEWDWSGNYKNKRVLKL---KLYTSNVDEVIMQ-LKGIEELYLDEVPGIKNVLYDLDI 434
                          V++L    L +S ++    Q +K +  + +         +  +  
Sbjct: 145 -----------NQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIA-----DTNITTIPQ 188

Query: 435 EGFLQLKHLHVQNNPFILFIVDSMA----------WVRYNAFLLLESLVLHNLIHLEKIC 484
                L  LH+  N   +  VD+ +           + +N+   +++  L N  HL ++ 
Sbjct: 189 GLPPSLTELHLDGNK--ITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELH 246

Query: 485 LG--QLRA--ESFYKLKIIKV----RNCDKLKNIFSFSFV-----RGLPQLQTLNVINCK 531
           L   +L          K I+V     N   +  I S  F              +++ +  
Sbjct: 247 LNNNKLVKVPGGLADHKYIQVVYLHNN--NISAIGSNDFCPPGYNTKKASYSGVSLFS-- 302

Query: 532 NMKEIFTVGRENDVDCHEVDKIEFSQLHSLT 562
                      N V   E+    F  ++   
Sbjct: 303 -----------NPVQYWEIQPSTFRCVYVRA 322

>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 = 44/284 (15%), Positives = 85/284 (29%), Gaps = 58/284 (20%)

Query: 262 DLDKKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYM 320
            L + ++ L L ++ I  +      +   L+   L+    +  I  +  S L  LE L +
Sbjct: 49  GLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDL 107

Query: 321 GN---TSVKWE-FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSKKLERY 375
                +++    F+ L      +SL  L LL     T         +    LFS   +  
Sbjct: 108 SYNYLSNLSSSWFKPL------SSLTFLNLLGNPYKT---------LGETSLFSHLTKLQ 152

Query: 376 KIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIE 435
            + +G+              K++       +    L  +EEL +D      + L   + +
Sbjct: 153 ILRVGN---------MDTFTKIQ------RKDFAGLTFLEELEIDA-----SDLQSYEPK 192

Query: 436 GFL---QLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNL--IHLEKICLGQLRA 490
                  + HL +               +      +  S+    L    L+     +L  
Sbjct: 193 SLKSIQNVSHLILHMKQH--------ILLLEIFVDVTSSVECLELRDTDLDTFHFSELST 244

Query: 491 ESFYKL-KIIKVRNCDKLKN-IFSF-SFVRGLPQLQTLNVINCK 531
                L K    RN       +F     +  +  L  L     +
Sbjct: 245 GETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQ 288

>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 = 6e-05
 Identities = 35/227 (15%), Positives = 79/227 (34%), Gaps = 45/227 (19%)

Query: 265 KKLEILSLVDSNIEQLPEEMA--QLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN 322
             L  L+L+ +  + L E      LT+L++  +        I     +GL+ LE+L +  
Sbjct: 124 SSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDA 183

Query: 323 TSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSK-----KLERYKI 377
           + ++                 LK + +++ L + +   ++L +           LE    
Sbjct: 184 SDLQSYEPKS-----------LKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDT 232

Query: 378 FIGD------EWDWSGNYKNKRVLKLKLYTSN----VDEVIMQLKGIEELYLDEVPGIKN 427
            +            + +   K   +    T      V +++ Q+ G+ EL        +N
Sbjct: 233 DLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFS-----RN 287

Query: 428 VLYDLD---IEGFLQLKHLHVQNNPF------ILFIVDSMAWVRYNA 465
            L  +     +    L+ + +  NP+      I ++     W+  N+
Sbjct: 288 QLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSR---WLNKNS 331

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 51.4 bits (123), Expect = 2e-06
 Identities = 38/282 (13%), Positives = 91/282 (32%), Gaps = 52/282 (18%)

Query: 259 TSLDLDK-KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNL-LSGLSRLE 316
            SL++   +    + + ++  +L ++     ++++F +     L+  P +  L  + +L 
Sbjct: 518 QSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYN-NLEEFPASASLQKMVKLG 576

Query: 317 DLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFS--KKLER 374
            L   +  V+              L+       LT L++       +P+   +   ++E 
Sbjct: 577 LLDCVHNKVR-------------HLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVE- 622

Query: 375 YKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLD-----EVPGIKNVL 429
                     +S N         KL           +  +  +             +N+ 
Sbjct: 623 -------GLGFSHN---------KLKYIPNIFNAKSVYVMGSVDFSYNKIGSEG--RNIS 664

Query: 430 YDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHN--LIHLEKICLGQ 487
             +D    +    + +  N    F  +  A         + +++L N  +  + +  L  
Sbjct: 665 CSMDDYKGINASTVTLSYNEIQKFPTELFATGSP-----ISTIILSNNLMTSIPENSLKP 719

Query: 488 LRAE--SFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNV 527
                 + Y L  I +R   KL ++        LP L  ++V
Sbjct: 720 KDGNYKNTYLLTTIDLRFN-KLTSLSDDFRATTLPYLSNMDV 760

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 46.8 bits (111), Expect = 5e-05
 Identities = 32/281 (11%), Positives = 89/281 (31%), Gaps = 68/281 (24%)

Query: 263 LDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN 322
           +  K   +  + + I  + + + +LT+L++   +           +    +  +      
Sbjct: 423 ISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANS-PFTYDNIAVDWEDANSDYAKQ-Y 480

Query: 323 TSVKWEFEGLNVGRSNASLQELKLLS--HLTTLEIQICDAMILPKGLFS-KKLERYKIFI 379
            + +  +  L        L +++L +  ++T           LP  L+   +L+   + I
Sbjct: 481 ENEELSWSNLK------DLTDVELYNCPNMTQ----------LPDFLYDLPELQS--LNI 522

Query: 380 GDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFL- 438
                 + N +     +LK   + + +       I+  Y+       N L +      L 
Sbjct: 523 ------ACN-RGISAAQLKADWTRLADDEDTGPKIQIFYMGY-----NNLEEFPASASLQ 570

Query: 439 ---QLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESL-VLHNLIHLEKICLG-----QLR 489
              +L  L   +N                    +  L      + L  + L      ++ 
Sbjct: 571 KMVKLGLLDCVHN-------------------KVRHLEAFGTNVKLTDLKLDYNQIEEIP 611

Query: 490 AESFY---KLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNV 527
            +      +++ +   +  KLK I +    + +  + +++ 
Sbjct: 612 EDFCAFTDQVEGLGFSHN-KLKYIPNIFNAKSVYVMGSVDF 651

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 46.0 bits (109), Expect = 7e-05
 Identities = 30/215 (13%), Positives = 63/215 (29%), Gaps = 46/215 (21%)

Query: 265 KKLEILSLVDSNIEQLPEE------MAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDL 318
             +  +    + I              +        LS   +++  P  L +  S +  +
Sbjct: 644 YVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYN-EIQKFPTELFATGSPISTI 702

Query: 319 YMGN---TSV-KWEFEGLNVGRSN-ASLQELKL----------------LSHLTTLEIQI 357
            + N   TS+ +   +  +    N   L  + L                L +L+ +++  
Sbjct: 703 ILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSY 762

Query: 358 CDAMILPKGLFS-KKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEE 416
                 P    +  +L+     I  + D  GN                   I     + +
Sbjct: 763 NCFSSFPTQPLNSSQLK--AFGIRHQRDAEGNRI----------LRQWPTGITTCPSLIQ 810

Query: 417 LYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFI 451
           L +       N +  +D +   QL  L + +NP I
Sbjct: 811 LQIGS-----NDIRKVDEKLTPQLYILDIADNPNI 840

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 44.5 bits (105), Expect = 2e-04
 Identities = 73/607 (12%), Positives = 163/607 (26%), Gaps = 152/607 (25%)

Query: 260 SLDLDKKLEILSLVDSNIE-QLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDL 318
            LD + ++  LSL     + ++P+ + QLT+L++          V            +  
Sbjct: 318 DLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTH-SETVSGRLFGDEELTPDMS 376

Query: 319 YMGNTSVKWEFEGLNVGRSNASLQELKLLS------------------HLTTLEIQICDA 360
                 ++  ++ +     +  L    LL                    L   +I     
Sbjct: 377 EERKHRIRMHYKKM-FLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTN 435

Query: 361 MI--LPKGLFS-KKLERYKIFIGD---EWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGI 414
            I  + K +    KL+   I+  +    +D                  N +     LK +
Sbjct: 436 RITFISKAIQRLTKLQ--IIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDL 493

Query: 415 EELYLDEVPGIKNVLYDL--DIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLL---- 468
            ++ L         +  L   +    +L+ L++  N  I        W R          
Sbjct: 494 TDVELYN----CPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPK 549

Query: 469 LESLVL-HNLIHLEKI----CLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQ 523
           ++   + +N  +LE+      L ++      KL ++   +  K++++ +F       +L 
Sbjct: 550 IQIFYMGYN--NLEEFPASASLQKMV-----KLGLLDCVHN-KVRHLEAFG---TNVKLT 598

Query: 524 TLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQ 583
            L +   +                         ++      F  Q+            S 
Sbjct: 599 DLKLDYNQ-----------------------IEEIPEDFCAFTDQVEGLG-------FSH 628

Query: 584 TRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYS 643
            +LK      +P     +                  + +++           N++ +   
Sbjct: 629 NKLK-----YIPNIFNAKS--------------VYVMGSVDFSY--------NKIGSEGR 661

Query: 644 QNLTRLIVHGCEKLKYL---------FPSSMIRNFVQLEHLEICYCSSLESIVGKESGEE 694
                +  +       +         FP+ +      +  + +     + SI        
Sbjct: 662 NISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNN-LMTSI---PENSL 717

Query: 695 ATTTFVFPKVTFLKLWNLSE--LKTFYPGTHTSKWPMLKKL------------EVYGCDK 740
                 +     L   +L    L +       +  P L  +            +     +
Sbjct: 718 KPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQ 777

Query: 741 VKIFTSRFLRFQEINEGQFDIPTQ-QALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHI 799
           +K F  R  R  E N      PT              L +L++   DI      +  + +
Sbjct: 778 LKAFGIRHQRDAEGNRILRQWPTGITTC-------PSLIQLQIGSNDI-----RKVDEKL 825

Query: 800 FRNLKNL 806
              L  L
Sbjct: 826 TPQLYIL 832

>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 = 49.8 bits (119), Expect = 3e-06
 Identities = 25/99 (25%), Positives = 42/99 (42%), Gaps = 6/99 (6%)

Query: 262 DLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMG 321
            L  +  IL L  + I+++       TQL   +LS  + L+ +P ++  G S    L + 
Sbjct: 151 GLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDIS 210

Query: 322 NTSVK----WEFEGLN--VGRSNASLQELKLLSHLTTLE 354
            T +     +  E L     RS  +L++L  L  L  L 
Sbjct: 211 RTRIHSLPSYGLENLKKLRARSTYNLKKLPTLEKLVALM 249

>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 = 46.4 bits (110), Expect = 4e-05
 Identities = 45/282 (15%), Positives = 91/282 (32%), Gaps = 67/282 (23%)

Query: 262 DLDKKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYM 320
           DL +    L  V + +  + +   +    L   ++S    L+VI  ++ S L +L ++ +
Sbjct: 27  DLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRI 86

Query: 321 GNTSVKWEFEGLNVGRSNASLQELKL-----LSHLTTLEIQICDAMILPKGLFSKKLERY 375
              +               +L  +       L +L  L I       LP       L++ 
Sbjct: 87  EKAN---------------NLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKV 131

Query: 376 KIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKG-IEELYLDEVPGIKNVLYDLDI 434
            + I D         N  +  ++          + L      L+L+     KN + ++  
Sbjct: 132 LLDIQD---------NINIHTIE------RNSFVGLSFESVILWLN-----KNGIQEIHN 171

Query: 435 EGF--LQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQ----- 487
             F   QL  L++ +N               N    L + V H       + + +     
Sbjct: 172 SAFNGTQLDELNLSDN---------------NNLEELPNDVFHGASGPVILDISRTRIHS 216

Query: 488 LRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVIN 529
           L +     LK ++ R+   LK + +      L  L   ++  
Sbjct: 217 LPSYGLENLKKLRARSTYNLKKLPTLE---KLVALMEASLTY 255

>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 = 43.7 bits (103), Expect = 3e-04
 Identities = 59/352 (16%), Positives = 107/352 (30%), Gaps = 74/352 (21%)

Query: 625 LCAISTEKIWC--NQLAAV---YSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICY 679
           +C  S     C  +++  +     +N   L      KL+ +        F  LE +EI  
Sbjct: 6   ICHCSNRVFLCQESKVTEIPSDLPRNAIELRFVLT-KLRVI-QKGAFSGFGDLEKIEISQ 63

Query: 680 CSSLESIVGKESGEEATTTFVF---PKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVY 736
              LE I   E+        VF   PK+  +++   + L    P       P L+ L + 
Sbjct: 64  NDVLEVI---EAD-------VFSNLPKLHEIRIEKANNLLYINPEA-FQNLPNLQYLLIS 112

Query: 737 GCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSG-KDIAMICQSQF 795
                          + + +       Q               L +    +I  I     
Sbjct: 113 NT-----------GIKHLPDVHKIHSLQ------------KVLLDIQDNINIHTI----- 144

Query: 796 PKHIFRNLKNLEVVNDESENFRIGFLER--FHNLEKLELRWSSYKEIFSNEEIVEHAEML 853
            ++ F  L    V+   ++N  I  +    F+  +  EL  S    +   EE+       
Sbjct: 145 ERNSFVGLSFESVILWLNKN-GIQEIHNSAFNGTQLDELNLSDNNNL---EELPNDV--- 197

Query: 854 TQVKSLKLWELSDLMYIWKQDSKLDSIT----ENLESLEVWWCENLINLVPSSASFKNLT 909
                      S  + +    +++ S+     ENL+ L      NL  L P+      L 
Sbjct: 198 -------FHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYNLKKL-PTLEKLVALM 249

Query: 910 TLEL---WYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAED 958
              L    +C    N     +    +C   +       +T+   +   +AED
Sbjct: 250 EASLTYPSHCCAFANWRRQISELHPICNKSILRQEVDYMTQARGQRSSLAED 301

>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 = 49.6 bits (119), Expect = 5e-06
 Identities = 90/605 (14%), Positives = 171/605 (28%), Gaps = 143/605 (23%)

Query: 265 KKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNT 323
            +L+ L L    IE + ++    L  L    L+G   ++   P   SGL+ LE+L    T
Sbjct: 56  SELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGN-PIQSFSPGSFSGLTSLENLVAVET 114

Query: 324 SVKW----EFEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSKKLERYKIF 378
            +          L       +L++L +    + + ++            FS         
Sbjct: 115 KLASLESFPIGQLI------TLKKLNVAHNFIHSCKLP---------AYFS--------- 150

Query: 379 IGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEG-- 436
                    N  N   + L             ++ I    L  +     V   LD+    
Sbjct: 151 ---------NLTNLVHVDLSYN---------YIQTITVNDLQFLRENPQVNLSLDMSLNP 192

Query: 437 ----------FLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLG 486
                      ++L  L ++ N     I+ +           L    L      ++  L 
Sbjct: 193 IDFIQDQAFQGIKLHELTLRGNFNSSNIMKTC----LQNLAGLHVHRLILGEFKDERNLE 248

Query: 487 QLRAESFYKLKIIKVRNCDKLKN----IFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRE 542
                    L  + +                 F   L  +  +++    ++K +  V + 
Sbjct: 249 IFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKF-HCLANVSAMSLAGV-SIKYLEDVPKH 306

Query: 543 NDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQ--TRLKELSTHTLPREVIL 600
                  + + +  Q  +L L FL  LT   ++   S        L  L    L R  + 
Sbjct: 307 FKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMNKGSISFKKVALPSLSYLD---LSRNALS 363

Query: 601 EDECDTLMPFFNEKVVFPNLETLEL--CAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLK 658
              C +            +L  L+L              L     + L  L       LK
Sbjct: 364 FSGCCSYSDLGT-----NSLRHLDLSFNGAIIMSANFMGL-----EELQHLDFQHS-TLK 412

Query: 659 YLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELK-- 716
            +   S   +  +L +L+I Y  + +                     FL L +L+ LK  
Sbjct: 413 RVTEFSAFLSLEKLLYLDISYT-NTKID---------------FDGIFLGLTSLNTLKMA 456

Query: 717 --TFYPGTHTSKWPMLKKLEV---YGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVE 771
             +F   T ++ +     L       C           + ++I+ G FD   +       
Sbjct: 457 GNSFKDNTLSNVFANTTNLTFLDLSKC-----------QLEQISWGVFDTLHR------- 498

Query: 772 KVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDES---ENFRIGFLERFHNLE 828
                L+ L +S  ++            +  L +L  ++      E  +        +L 
Sbjct: 499 -----LQLLNMSHNNL-----LFLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLA 548

Query: 829 KLELR 833
              L 
Sbjct: 549 FFNLT 553

>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 = 47.7 bits (114), Expect = 2e-05
 Identities = 84/575 (14%), Positives = 171/575 (29%), Gaps = 121/575 (21%)

Query: 270 LSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEF 329
              +D  + ++P+++   +  +  DLS    LK++     S  S L+ L +    ++   
Sbjct: 16  YQCMDQKLSKVPDDI--PSSTKNIDLSFN-PLKILKSYSFSNFSELQWLDLSRCEIETIE 72

Query: 330 EGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFS--KKLERYKIFIGDEWDWSG 387
           +                L HL+ L +          G FS    LE              
Sbjct: 73  DKA-----------WHGLHHLSNLILTGNPIQSFSPGSFSGLTSLE-------------- 107

Query: 388 NYKNKRVLKLKLY----TSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEGFLQ---- 439
                    L        S     I QL  +++L +       N ++   +  +      
Sbjct: 108 --------NLVAVETKLASLESFPIGQLITLKKLNVAH-----NFIHSCKLPAYFSNLTN 154

Query: 440 LKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLI-HLEKICLGQLRAESFYKLKI 498
           L H+ +  N      V+ + ++R N  + L   +  N I  ++      +      KL  
Sbjct: 155 LVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGI------KLHE 208

Query: 499 IKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCK---------NMKEIFTVGRENDVDCHE 549
           + +R      NI      + L  L    +I  +             I     +  +D   
Sbjct: 209 LTLRGNFNSSNIMKTCL-QNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFR 267

Query: 550 VDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMP 609
           +          +    L  +++       +  S   L+++  H   + + +        P
Sbjct: 268 LTYTNDFSDDIVKFHCLANVSAMSL----AGVSIKYLEDVPKHFKWQSLSIIRCQLKQFP 323

Query: 610 FFNEKVVFPNLETLELCAISTEKIWCNQLAAVYS----QNLTRLIVHGCEKLKYLFPSS- 664
             +     P L++L L          N+ +  +      +L+ L +     L +    S 
Sbjct: 324 TLD----LPFLKSLTLT--------MNKGSISFKKVALPSLSYLDLSRN-ALSFSGCCSY 370

Query: 665 MIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSE--LKTFYPGT 722
                  L HL++ +      +              F  +  L+  +     LK     +
Sbjct: 371 SDLGTNSLRHLDLSFN-GAIIMSA-----------NFMGLEELQHLDFQHSTLKRVTEFS 418

Query: 723 HTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEI-------NEGQFDIPTQQALFLVEKVTS 775
                  L  L++   +    F   FL    +       N  + +  +      V   T+
Sbjct: 419 AFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSN-----VFANTT 473

Query: 776 KLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVN 810
            L  L LS   +      Q    +F  L  L+++N
Sbjct: 474 NLTFLDLSKCQL-----EQISWGVFDTLHRLQLLN 503

>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 = 47.7 bits (114), Expect = 1e-05
 Identities = 32/134 (23%), Positives = 50/134 (37%), Gaps = 34/134 (25%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN-- 322
            L IL L  + + ++       L  L   DLS  ++L+ + P    GL RL  L++    
Sbjct: 57  NLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCG 116

Query: 323 -TSVKWE-FEGLNVGRSNASLQELKL---------------LSHLTTLEI---QICDAMI 362
              +    F GL       +LQ L L               L +LT L +   +I     
Sbjct: 117 LQELGPGLFRGLA------ALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRI---SS 167

Query: 363 LPKGLFSK--KLER 374
           +P+  F     L+R
Sbjct: 168 VPERAFRGLHSLDR 181

>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 = 44.2 bits (105), Expect = 2e-04
 Identities = 21/86 (24%), Positives = 33/86 (38%), Gaps = 12/86 (13%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN-- 322
            L  L L  + I  +PE     L  L    L    ++  + P+    L RL  LY+    
Sbjct: 154 NLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQN-RVAHVHPHAFRDLGRLMTLYLFANN 212

Query: 323 -TSVKWE-FEGLNVGRSNASLQELKL 346
            +++  E    L       +LQ L+L
Sbjct: 213 LSALPTEALAPL------RALQYLRL 232

>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 = 47.4 bits (113), Expect = 2e-05
 Identities = 40/281 (14%), Positives = 75/281 (26%), Gaps = 51/281 (18%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCS-KLKVIPPNLLSGLSRLEDLYMGN- 322
            L IL L  +   QL       L  L +  L+ C+    V+  N    L+ LE L + + 
Sbjct: 80  SLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDN 139

Query: 323 --TSVKWE--FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLFSKKLERYKI 377
               ++    F  +           L L    + +          + +            
Sbjct: 140 NIKKIQPASFFLNMR------RFHVLDLTFNKVKS----------ICEEDLLN------- 176

Query: 378 FIGDEWDWSGNYKNK-RVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDIEG 436
           F G  +          + +              +   I  L L       N   +   + 
Sbjct: 177 FQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSG-----NGFKESMAKR 231

Query: 437 FLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNL-------IHLEKICLGQLR 489
           F          +  +    +  +   +  F   ++     L         L K  +  L 
Sbjct: 232 FFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALL 291

Query: 490 AESFYKLKIIKV----RNCDKLKNIFSFSFVRGLPQLQTLN 526
              F     ++     +N  ++  I   +F  GL  L  LN
Sbjct: 292 KSVFSHFTDLEQLTLAQN--EINKIDDNAF-WGLTHLLKLN 329

>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 = 43.6 bits (103), Expect = 3e-04
 Identities = 57/302 (18%), Positives = 98/302 (32%), Gaps = 70/302 (23%)

Query: 267 LEILSLVDSNIEQLPEE-MAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN--- 322
           +  + L  ++I +L E   ++L  L+   +   +   VI  N   GLS L  L +     
Sbjct: 32  VNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQF 91

Query: 323 TSVKWE-FEGLNVGRSNASLQELKL-----------------LSHLTTLEI---QICDAM 361
             ++   F GL       +L+ L L                 L+ L  L +    I    
Sbjct: 92  LQLETGAFNGLA------NLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNI--KK 143

Query: 362 ILPKGLFSK-------KLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGI 414
           I P   F          L   K+    E D   N++ K    L+L +       + L+ +
Sbjct: 144 IQPASFFLNMRRFHVLDLTFNKVKSICEEDLL-NFQGKHFTLLRLSS-------ITLQDM 195

Query: 415 EELYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLL--LESL 472
            E +L             +      +  L +  N       +SMA   ++A     ++SL
Sbjct: 196 NEYWLGWEK-------CGNPFKNTSITTLDLSGNG----FKESMAKRFFDAIAGTKIQSL 244

Query: 473 VLHN----LIHLEKICLGQLRAESFYKLKIIKVRNCD----KLKNIFSFSFVRGLPQLQT 524
           +L N                   +F  L+   V+ CD    K+  +    F      L+ 
Sbjct: 245 ILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVF-SHFTDLEQ 303

Query: 525 LN 526
           L 
Sbjct: 304 LT 305

>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 = 47.5 bits (113), Expect = 3e-05
 Identities = 24/127 (18%), Positives = 44/127 (34%), Gaps = 13/127 (10%)

Query: 151 FESRKSILNDALDALSNPNV--NVIGLCGLGGIGKTTLAKIVFYQAKKLKLC--DEVVFV 206
           F +RK +++     L   N     + + G+ G GK+ LA         L+ C    V +V
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 185

Query: 207 EVSQTPDVK------RIQGDIADQLGLYICEGSESERAMVLCGLLKKGKK---ILVLDNI 257
            + +            +   +  +           E A     +L   K    +L+LD++
Sbjct: 186 SIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV 245

Query: 258 WTSLDLD 264
           W    L 
Sbjct: 246 WDPWVLK 252

>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 = 46.2 bits (110), Expect = 6e-05
 Identities = 16/95 (16%), Positives = 32/95 (33%), Gaps = 6/95 (6%)

Query: 259 TSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDL 318
           +++D     EI S+   N + L     +   +   +LS   ++   P  L S  S L  +
Sbjct: 405 SAIDFSY-NEIGSVDGKNFDPLDPTPFKGINVSSINLSNN-QISKFPKELFSTGSPLSSI 462

Query: 319 YMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTL 353
            +           +         +  K    LT++
Sbjct: 463 NLMGNM----LTEIPKNSLKDENENFKNTYLLTSI 493

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 42.7 bits (101), Expect = 6e-04
 Identities = 38/297 (12%), Positives = 87/297 (29%), Gaps = 67/297 (22%)

Query: 245 LKKGKKILVLDNIWTSLDLDKKLEILSLVDSNIEQL--PEEMAQLTQLRLFDLSGCSKLK 302
              G+++           + +K++I+ +  +N++       + ++ +L + +     +L+
Sbjct: 285 GISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYN-QLE 343

Query: 303 VIPPNLLSGLSRLEDLYMGN---TSVKWEFEGLNVGRSNASLQELKLLS-HLTTLEIQIC 358
              P       +L  L +     T +   F G         ++ L      L        
Sbjct: 344 GKLPA-FGSEIKLASLNLAYNQITEIPANFCGFTE-----QVENLSFAHNKLKY------ 391

Query: 359 DAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELY 418
               +P    +K +           D+S N                     ++  ++   
Sbjct: 392 ----IPNIFDAKSVSVMSAI-----DFSYN---------------------EIGSVDGKN 421

Query: 419 LDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHN-- 476
            D +               + +  +++ NN    F  +  +         L S+ L    
Sbjct: 422 FDPLD--------PTPFKGINVSSINLSNNQISKFPKELFSTGSP-----LSSINLMGNM 468

Query: 477 LIHLEKICLGQLRAE--SFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCK 531
           L  + K  L        + Y L  I +R   KL  +        LP L  +++    
Sbjct: 469 LTEIPKNSLKDENENFKNTYLLTSIDLRFN-KLTKLSDDFRATTLPYLVGIDLSYNS 524

>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 = 42.3 bits (100), Expect = 9e-04
 Identities = 44/284 (15%), Positives = 96/284 (33%), Gaps = 62/284 (21%)

Query: 257 IWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLE 316
           I  S  +  K   +  + +NI  + + + +LT+LR F +           +     +  E
Sbjct: 175 IKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGN---------SPFVAENICE 225

Query: 317 DLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAM-ILPKGLFS-KKLER 374
                N+    +++  ++   N        L  LT +E+  C  +  LP  L +  +++ 
Sbjct: 226 AWENENSEYAQQYKTEDLKWDN--------LKDLTDVEVYNCPNLTKLPTFLKALPEMQ- 276

Query: 375 YKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNVLYDLDI 434
             I +      + N +     +LK     + +     + I+ +Y+       N L    +
Sbjct: 277 -LINV------ACN-RGISGEQLKDDWQALAD-APVGEKIQIIYIGY-----NNLKTFPV 322

Query: 435 EGFL----QLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVL----HNLIHLEKI--- 483
           E  L    +L  L    N     +          AF     L      +N   + +I   
Sbjct: 323 ETSLQKMKKLGMLECLYNQLEGKL---------PAFGSEIKLASLNLAYN--QITEIPAN 371

Query: 484 CLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNV 527
             G        +++ +   +  KLK I +    + +  +  ++ 
Sbjct: 372 FCGFTE-----QVENLSFAHN-KLKYIPNIFDAKSVSVMSAIDF 409

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 46.0 bits (109), Expect = 6e-05
 Identities = 15/94 (15%), Positives = 24/94 (25%), Gaps = 1/94 (1%)

Query: 266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSV 325
            L  LS+  + + +LPE +  L+     +L G   L       L  ++            
Sbjct: 262 GLLSLSVYRNQLTRLPESLIHLSSETTVNLEGN-PLSERTLQALREITSAPGYSGPIIRF 320

Query: 326 KWEFEGLNVGRSNASLQELKLLSHLTTLEIQICD 359
                          L     L      E    D
Sbjct: 321 DMAGASAPRETRALHLAAADWLVPAREGEPAPAD 354

>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 = 45.2 bits (107), Expect = 1e-04
 Identities = 12/60 (20%), Positives = 35/60 (58%), Gaps = 1/60 (1%)

Query: 263 LDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN 322
           L  ++++L L  + I+ +P+++ +L  L+  +++   +LK +P  +   L+ L+ +++  
Sbjct: 419 LPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVASN-QLKSVPDGIFDRLTSLQKIWLHT 477

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 13/60 (21%), Positives = 36/60 (60%), Gaps = 1/60 (1%)

Query: 263 LDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN 322
           L  K+++L L ++ I  +P+++  L  L+  +++  ++LK +P  +   L+ L+ +++ +
Sbjct: 448 LPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVAS-NQLKSVPDGVFDRLTSLQYIWLHD 506

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 43.4 bits (103), Expect = 2e-04
 Identities = 28/125 (22%), Positives = 47/125 (37%), Gaps = 27/125 (21%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN-- 322
           KL +L L D+ ++ LP  +  +L  L    ++   KL+ +P  +   L  L +L +    
Sbjct: 62  KLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDN-KLQALPIGVFDQLVNLAELRLDRNQ 120

Query: 323 -TSV-KWEFEGLNVGRSNASLQELKL---------------LSHLTTLEIQICDAMILPK 365
             S+    F+ L        L  L L               L+ L  L +       +P+
Sbjct: 121 LKSLPPRVFDSL------TKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPE 174

Query: 366 GLFSK 370
           G F K
Sbjct: 175 GAFDK 179

>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 = 43.1 bits (102), Expect = 2e-04
 Identities = 10/58 (17%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 267 LEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNT 323
            + L L+++++  +P    + L  +    +S    L+ +  +    LS++  + + NT
Sbjct: 33  TQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNT 90

>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 = 42.7 bits (101), Expect = 3e-04
 Identities = 21/122 (17%), Positives = 42/122 (34%), Gaps = 17/122 (13%)

Query: 266 KLEILSLVDSNIEQLPEEMA--QLTQLRLFDLSGCSKLKVIPPNLLSGL-SRLEDLYMGN 322
            L+ L + ++ ++  P+           + +++    +  IP N   GL +    L + N
Sbjct: 106 LLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYN 165

Query: 323 ---TSV-KWEFEGLNVGR----SNASLQEL------KLLSHLTTLEIQICDAMILPKGLF 368
              TSV  + F G  +       N  L  +       + S  + L++       LP    
Sbjct: 166 NGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSKGL 225

Query: 369 SK 370
             
Sbjct: 226 EH 227

>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 = 44.5 bits (106), Expect = 2e-04
 Identities = 18/86 (20%), Positives = 31/86 (36%), Gaps = 8/86 (9%)

Query: 265 KKLEILSLVDSNIE-QLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNT 323
             L  L L  ++    +P      + L    LS  +    +P + L  +  L+ L +   
Sbjct: 294 DTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFN 353

Query: 324 SVKWEFEG---LNVGRSNASLQELKL 346
                F G    ++   +ASL  L L
Sbjct: 354 E----FSGELPESLTNLSASLLTLDL 375

>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 = 42.3 bits (100), Expect = 5e-04
 Identities = 40/238 (16%), Positives = 81/238 (34%), Gaps = 74/238 (31%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
           +L++L L    I+ + +     L+ L    L+G + ++ +     SGLS L+ L    T+
Sbjct: 53  ELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTG-NPIQSLALGAFSGLSSLQKLVAVETN 111

Query: 325 VK----WEFEGLNVGRSNASLQELKL----------------LSHLTTLEIQICDAMILP 364
           +     +    L       +L+EL +                L++L  L++       + 
Sbjct: 112 LASLENFPIGHLK------TLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIY 165

Query: 365 KGLFSK--KLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEV------IMQLKGIEE 416
                   ++                      L L L  + ++ +       ++LK   E
Sbjct: 166 CTDLRVLHQMPL------------------LNLSLDLSLNPMNFIQPGAFKEIRLK---E 204

Query: 417 LYLDEVPGIKNVLYDLDIEGF---LQLKHLHVQNNPF------ILFIVDSMAWVRYNA 465
           L LD      N L  +    F     L+ + +  NP+      I ++     W+  N+
Sbjct: 205 LALDT-----NQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSR---WLNKNS 254

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 43.0 bits (101), Expect = 6e-04
 Identities = 10/102 (9%), Positives = 22/102 (21%), Gaps = 1/102 (0%)

Query: 255 DNIWTSLDLDKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSR 314
                +   ++        ++ I  +PE +  L       L     L       LS  + 
Sbjct: 197 AVPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILEDN-PLSSRIRESLSQQTA 255

Query: 315 LEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQ 356
             D +             N      +             ++ 
Sbjct: 256 QPDYHGPRIYFSMSDGQQNTLHRPLADAVTAWFPENKQSDVS 297

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 42.0 bits (99), Expect = 7e-04
 Identities = 32/116 (27%), Positives = 47/116 (40%), Gaps = 24/116 (20%)

Query: 266 KLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN-- 322
            L +L +  + +  LP      L +L+   L G ++LK +PP LL+   +LE L + N  
Sbjct: 101 ALTVLDVSFNRLTSLPLGALRGLGELQELYLKG-NELKTLPPGLLTPTPKLEKLSLANNN 159

Query: 323 -TSVKWE-FEGLNVGRSNASLQELKLLS-HLTTLEIQICDAMILPKGLF-SKKLER 374
            T +      GL       +L  L L    L T          +PKG F S  L  
Sbjct: 160 LTELPAGLLNGLE------NLDTLLLQENSLYT----------IPKGFFGSHLLPF 199

>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 = 20/92 (21%), Positives = 36/92 (39%), Gaps = 16/92 (17%)

Query: 265 KKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTS 324
             L  L L + NI  +   +A LT++   +L     L  + P  LS ++ L  L +  + 
Sbjct: 110 TNLRELYLNEDNISDISP-LANLTKMYSLNLGANHNLSDLSP--LSNMTGLNYLTVTESK 166

Query: 325 VKWEFEGLNVGRSNASLQELKLLSHLTTLEIQ 356
           VK              +  +  L+ L +L + 
Sbjct: 167 VK-------------DVTPIANLTDLYSLSLN 185

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 42.2 bits (99), Expect = 8e-04
 Identities = 37/243 (15%), Positives = 69/243 (28%), Gaps = 29/243 (11%)

Query: 798  HIFRNLKNLEVVN-------------DESENFRIGFLERFHNLEKLELRWSSYKEIFSNE 844
             IF  L   E++              DES    +    +  + +      S     F   
Sbjct: 19   GIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLDLTGKNLHPDVTGRLLSQGVIAFRCP 78

Query: 845  EIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITE---NLESLEVWWCENLINLVPS 901
                   +       ++  + DL     + S L  I      L++L +        +V +
Sbjct: 79   RSFMDQPLAEHFSPFRVQHM-DLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNT 137

Query: 902  SASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIV 961
             A   NL  L L  C         +   S   L +L +  C   T       +      V
Sbjct: 138  LAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFT-------EKHVQVAV 190

Query: 962  FS---KLKWVSLERL-ENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLST-PRLR 1016
                  +  ++L    +NL          + P+L  L + +   +K    +       L+
Sbjct: 191  AHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQ 250

Query: 1017 EVR 1019
             + 
Sbjct: 251  HLS 253

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	1212
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	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
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.97
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.97
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.97
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.97
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.97
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.96
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.95
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.95
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.95
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.95
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.95
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.94
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.94
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.94
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.93
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.93
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.93
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.92
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.92
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.91
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.9
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.9
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.89
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.88
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.88
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.87
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.86
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.86
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.85
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.85
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.84
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.84
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.82
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.82
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.81
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.8
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.79
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.78
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.78
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.77
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.77
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.75
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.74
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.74
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.73
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.73
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.72
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.7
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.69
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.68
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.68
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.66
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.66
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.66
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.65
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.63
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.62
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.62
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.6
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.59
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.58
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.58
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.57
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.57
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.56
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.56
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.54
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.53
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.52
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.51
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.48
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.45
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.45
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.44
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.42
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.42
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.41
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.38
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.37
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.36
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.36
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.36
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.36
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.34
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.34
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.33
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.33
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.29
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.26
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.26
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.23
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.22
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.21
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.2
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.17
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.17
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.16
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.16
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.13
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.11
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.11
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.11
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.08
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.07
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.06
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.05
3iwl_A	68	Copper transport protein ATOX1; beta-alpha-beta-BE	99.04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.01
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.99
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.96
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.95
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.95
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.95
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.95
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.93
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.93
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.93
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.92
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.91
1cc8_A	73	Protein (metallochaperone ATX1); copper transport,	98.91
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.9
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.87
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.83
2crl_A	98	Copper chaperone for superoxide dismutase; SOD1, f	98.81
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.78
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.73
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.69
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.69
4a4j_A	69	Pacszia, cation-transporting ATPase PACS; hydrolas	98.67
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.67
3dxs_X	74	Copper-transporting ATPase RAN1; CXXC motif, ferre	98.63
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.59
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.59
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.59
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.59
3fry_A	73	Probable copper-exporting P-type ATPase A; transpo	98.57
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.54
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.51
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.46
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.45
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.42
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.41
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.41
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.4
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.39
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.34
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.32
2xmw_A	71	PACS-N, cation-transporting ATPase PACS; hydrolase	98.3
2k2p_A	85	Uncharacterized protein ATU1203; putative metal-bi	98.29
2roe_A	66	Heavy metal binding protein; NMR {Thermus thermoph	98.27
1qup_A	222	Superoxide dismutase 1 copper chaperone; two domai	98.23
2l3m_A	71	Copper-ION-binding protein; structural genomics, c	98.21
2xmm_A	64	SSR2857 protein, ATX1; metal transport, copper hom	98.2
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.17
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.11
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.08
1aw0_A	72	Menkes copper-transporting ATPase; copper-binding	98.08
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.06
1osd_A	72	MERP, hypothetical protein MERP; mercury resistanc	98.06
1jk9_B	249	CCS, copper chaperone for superoxide dismutase; pr	98.05
3cjk_B	75	Copper-transporting ATPase 1; HAH1, ATP7B, menkes	98.05
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.03
1q8l_A	84	Copper-transporting ATPase 1; metal binding protei	98.02
1mwy_A	73	ZNTA; open-faced beta-sandwich fold, beta-alpha-be	98.02
2g9o_A	90	Copper-transporting ATPase 1; menkes disease, solu	98.02
1y3j_A	77	Copper-transporting ATPase 1; ferrodoxin-like fold	98.02
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.0
1fvq_A	72	Copper-transporting ATPase; APO-CCC2A, hydrolase;	97.99
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	97.97
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.96
2qif_A	69	Copper chaperone COPZ; tetranuclear Cu(I) cluster;	97.96
2aj0_A	71	Probable cadmium-transporting ATPase; ferrodoxin-l	97.95
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.92
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.91
1cpz_A	68	Protein (COPZ); copper chaperone, metal transport,	97.91
1kvi_A	79	Copper-transporting ATPase 1; menkes, Cu-protein,	97.91
1yjr_A	75	Copper-transporting ATPase 1; metallochaperone, pr	97.9
1yg0_A	66	COP associated protein; open-faced beta-sandwich,	97.86
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.85
1opz_A	76	Potential copper-transporting ATPase; mutation, fo	97.85
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.83
2ofg_X	111	Zinc-transporting ATPase; ferredoxin-like fold, be	97.83
2kt2_A	69	Mercuric reductase; nmera, MERA, HMA domain, mercu	97.83
2ldi_A	71	Zinc-transporting ATPase; metal homeostasis, metal	97.8
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.8
2kyz_A	67	Heavy metal binding protein; structural genomics,	97.79
2kkh_A	95	Putative heavy metal transporter; zinc transport,	97.75
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.75
1jww_A	80	Potential copper-transporting ATPase; beta-alpha-b	97.74
2fna_A	357	Conserved hypothetical protein; structural genomic	97.72
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.7
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.7
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.64
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.63
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.6
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.55
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.53
1p6t_A	151	Potential copper-transporting ATPase; COPA, P-type	97.53
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.5
2ew9_A	149	Copper-transporting ATPase 2; copper trafficking,	97.49
2rop_A	202	Copper-transporting ATPase 2; wilson protein, mobi	97.39
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.29
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.27
2ew9_A	149	Copper-transporting ATPase 2; copper trafficking,	97.24
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.22
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.2
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.14
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.01
2rop_A	202	Copper-transporting ATPase 2; wilson protein, mobi	96.64
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.62
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	96.59
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.58
1p6t_A	151	Potential copper-transporting ATPase; COPA, P-type	96.53
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.28
3pvs_A	447	Replication-associated recombination protein A; ma	96.26
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.23
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.11
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.96
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	95.94
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.86
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.86
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.85
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.85
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.81
3j09_A	723	COPA, copper-exporting P-type ATPase A; copper tra	95.77
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	95.76
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.51
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	95.37
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.34
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.33
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	95.29
3bos_A	242	Putative DNA replication factor; P-loop containing	95.23
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	95.2
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.18
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.15
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.12
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	95.09
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.06
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	95.04
2chq_A	319	Replication factor C small subunit; DNA-binding pr	95.02
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	95.01
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.01
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	94.8
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	94.65
2qgz_A	308	Helicase loader, putative primosome component; str	94.55
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	94.5
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	94.5
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	94.48
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	94.47
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.38
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	94.32
2cvh_A	220	DNA repair and recombination protein RADB; filamen	94.17
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	94.15
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	94.09
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	94.02
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	93.95
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	93.92
2xxa_A	433	Signal recognition particle protein; protein trans	93.84
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	93.84
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	93.82
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	93.72
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	93.56
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	93.54
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	93.43
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	93.38
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	93.36
3co5_A	143	Putative two-component system transcriptional RES	93.32
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	93.3
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	93.27
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	93.26
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	93.22
2z43_A	324	DNA repair and recombination protein RADA; archaea	93.19
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	93.17
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	93.12
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	93.07
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	93.04
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	92.91
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	92.87
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.86
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	92.8
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	92.76
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	92.72
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	92.66
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	92.55
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	92.53
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	92.48
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	92.46
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	92.44
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	92.37
3io5_A	333	Recombination and repair protein; storage dimer, i	92.36
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	92.35
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	92.35
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	92.33
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	92.32
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	92.3
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	92.22
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	92.21
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	92.21
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	92.19
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	92.18
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	92.17
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	92.16
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	92.14
1u94_A	356	RECA protein, recombinase A; homologous recombinat	92.08
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	92.07
3fwy_A	314	Light-independent protochlorophyllide reductase I	92.07
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	92.04
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	92.0
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	91.95
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	91.93
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	91.9
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	91.88
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	91.87
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	91.82
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	91.8
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	91.79
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	91.79
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	91.73
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	91.68
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	91.67
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	91.63
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	91.62
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	91.53
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	91.52
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	91.52
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	91.45
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	91.43
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	91.4
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	91.4
1via_A	175	Shikimate kinase; structural genomics, transferase	91.37
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	91.3
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	91.23
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	91.2
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	91.11
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	91.04
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	91.02
1xp8_A	366	RECA protein, recombinase A; recombination, radior	91.01
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	90.98
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	90.93
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	90.93
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	90.93
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	90.91
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	90.9
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	90.9
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	90.9
3ice_A	422	Transcription termination factor RHO; transcriptio	90.9
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	90.8
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	90.8
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	90.79
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	90.78
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	90.77
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	90.74
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	90.7
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	90.66
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	90.59
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	90.53
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	90.51
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	90.5
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	90.5
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	90.41
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	90.39
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	90.28
2vli_A	183	Antibiotic resistance protein; transferase, tunica	90.28
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	90.21
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	90.19
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	90.18
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	90.15
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	90.13
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	90.13
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	90.1
4a74_A	231	DNA repair and recombination protein RADA; hydrola	90.09
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	90.03
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	90.0
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	90.0
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	89.98
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	89.92
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	89.86
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	89.83
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	89.64
2r44_A	331	Uncharacterized protein; putative ATPase, structur	89.63
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	89.62
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	89.6
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	89.56
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	89.46
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	89.45
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	89.45
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	89.42
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	89.41
3bpd_A	100	Uncharacterized protein; heptamer, Mg+2 ION, PSI-2	89.4
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	89.4
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	89.4
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	89.33
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	89.32
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	89.3
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	89.27
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	89.21
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	89.2
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	89.19
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	89.12
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	89.04
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	89.04
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	89.0
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	88.95
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	88.92
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	88.87
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	88.83
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	88.8
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	88.78
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	88.78
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	88.7
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	88.65
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	88.6
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	88.55
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	88.55
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	88.55
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	88.54
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	88.48
1b0u_A	262	Histidine permease; ABC transporter, transport pro	88.43
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	88.43
2og2_A	359	Putative signal recognition particle receptor; nuc	88.39
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	88.37
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	88.36
3end_A	307	Light-independent protochlorophyllide reductase ir	88.24
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	88.22
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	88.21
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	88.18
1sgw_A	214	Putative ABC transporter; structural genomics, P p	88.15
1ji0_A	240	ABC transporter; ATP binding protein, structural g	88.1
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	88.09
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	88.06
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	88.05
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	88.05
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	87.94
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	87.92
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	87.9
1g6h_A	257	High-affinity branched-chain amino acid transport	87.86
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	87.77
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	87.76
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	87.73
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	87.71
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	87.68
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	87.65
3l0o_A	427	Transcription termination factor RHO; helicase, RH	87.62
2ghi_A	260	Transport protein; multidrug resistance protein, M	87.6
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	87.55
2wji_A	165	Ferrous iron transport protein B homolog; membrane	87.55
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	87.53
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	87.51
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	87.5
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	87.5
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	87.43
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	87.43
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	87.39
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	87.37
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	87.28
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	87.23
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	87.22
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	87.17
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	87.1
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	87.08
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	87.04
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	87.03
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	87.02
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	86.99
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	86.83
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	86.79
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	86.75
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	86.68
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	86.66
2eyu_A	261	Twitching motility protein PILT; pilus retraction	86.63
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	86.61
2x3d_A	96	SSO6206; unknown function; 2.70A {Sulfolobus solfa	86.38
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	86.29
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	86.2
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	86.17
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	86.13
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	86.07
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	85.99
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	85.99
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	85.95
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	85.87
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	85.82
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	85.68
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	85.52
1tue_A	212	Replication protein E1; helicase, replication, E1E	85.49
3kta_A	182	Chromosome segregation protein SMC; structural mai	85.46
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	85.41
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	85.34
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	85.29
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	85.27
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	85.24
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	85.08
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	85.05
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	85.01
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	85.01
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	85.01
2ged_A	193	SR-beta, signal recognition particle receptor beta	85.0

>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=4.1e-37  Score=388.54  Aligned_cols=585  Identities=15%  Similarity=0.017  Sum_probs=353.7

Q ss_pred             cceeeeccCCcccc----ccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccch
Q 000945          266 KLEILSLVDSNIEQ----LPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASL  341 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~----lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~  341 (1212)
                      +++.|+++++.+..    +|.++++|.+|++++++.+ .+..+|.. ++++.+|++|++++|.+.           +..+
T Consensus        51 ~v~~L~L~~~~l~g~~~~l~~~l~~L~~L~~l~~~~~-~~~~l~~~-~~~l~~L~~L~Ls~n~l~-----------~~~~  117 (768)
T 3rgz_A           51 KVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNS-HINGSVSG-FKCSASLTSLDLSRNSLS-----------GPVT  117 (768)
T ss_dssp             EEEEEECTTSCCCEEHHHHHHHTTTCTTCCEEECTTS-CEEECCCC-CCCCTTCCEEECCSSEEE-----------EEGG
T ss_pred             cEEEEECCCCCcCCccCccChhHhccCcccccCCcCC-CcCCCchh-hccCCCCCEEECCCCcCC-----------CcCC
Confidence            78999999988764    7889999999999999999 67677777 899999999999999885           3345


Q ss_pred             h--hhhcCCCCCcceeeeccccc-CCCCc--ccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceE
Q 000945          342 Q--ELKLLSHLTTLEIQICDAMI-LPKGL--FSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEE  416 (1212)
Q Consensus       342 ~--~L~~l~~L~~L~l~~~~~~~-~p~~~--~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~  416 (1212)
                      .  .+..+.+|++|+++.|.+.. .|...  .+.                                          .++.
T Consensus       118 ~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~------------------------------------------~L~~  155 (768)
T 3rgz_A          118 TLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLN------------------------------------------SLEV  155 (768)
T ss_dssp             GGGGGGGCTTCCEEECCSSEEECCSSCCSCCCCT------------------------------------------TCSE
T ss_pred             ChHHHhCCCCCCEEECcCCccCCcCCHHHhccCC------------------------------------------CCCE
Confidence            5  88999999999999987653 23221  222                                          3344


Q ss_pred             EEeccCCCcccccccC-CccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCC
Q 000945          417 LYLDEVPGIKNVLYDL-DIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYK  495 (1212)
Q Consensus       417 L~l~~~~~~~~~~~~l-~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~  495 (1212)
                      |.+....-.......+ ....+++|++|++.+|......       ....+++|++|+++++....    ..+.++.+++
T Consensus       156 L~Ls~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~-------~~~~l~~L~~L~Ls~n~l~~----~~~~l~~l~~  224 (768)
T 3rgz_A          156 LDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDV-------DVSRCVNLEFLDVSSNNFST----GIPFLGDCSA  224 (768)
T ss_dssp             EECCSSCCEEETHHHHHHTTCCTTCCEEECCSSEEESCC-------BCTTCTTCCEEECCSSCCCS----CCCBCTTCCS
T ss_pred             EECCCCccCCcCChhhhhhccCCCCCEEECCCCcccccC-------CcccCCcCCEEECcCCcCCC----CCcccccCCC
Confidence            4443332221111110 0125678888888877422211       12467788888888774321    1223677888


Q ss_pred             ccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccccccc
Q 000945          496 LKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQ  575 (1212)
Q Consensus       496 L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~  575 (1212)
                      |++|++++| .+....+ ..+.++++|++|++++|.....+|.              ..+++|++|+++++.-...++. 
T Consensus       225 L~~L~Ls~n-~l~~~~~-~~l~~l~~L~~L~Ls~n~l~~~~~~--------------~~l~~L~~L~L~~n~l~~~ip~-  287 (768)
T 3rgz_A          225 LQHLDISGN-KLSGDFS-RAISTCTELKLLNISSNQFVGPIPP--------------LPLKSLQYLSLAENKFTGEIPD-  287 (768)
T ss_dssp             CCEEECCSS-CCCSCHH-HHTTTCSSCCEEECCSSCCEESCCC--------------CCCTTCCEEECCSSEEEESCCC-
T ss_pred             CCEEECcCC-cCCCccc-HHHhcCCCCCEEECCCCcccCccCc--------------cccCCCCEEECcCCccCCccCH-
Confidence            888888875 4443322 4567788888888888764334443              2677888888877642222211 


Q ss_pred             cccchhhHhhhcccccccCCcceeccccccccccccccccc-ccccceeeccccccceecccCcccccCcCccEEEEecC
Q 000945          576 VKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVV-FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGC  654 (1212)
Q Consensus       576 ~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~-~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c  654 (1212)
                                                           .+.. +++|++|++++|.+.......+.  .+++|+.|++++|
T Consensus       288 -------------------------------------~~~~~~~~L~~L~Ls~n~l~~~~p~~~~--~l~~L~~L~L~~n  328 (768)
T 3rgz_A          288 -------------------------------------FLSGACDTLTGLDLSGNHFYGAVPPFFG--SCSLLESLALSSN  328 (768)
T ss_dssp             -------------------------------------CSCTTCTTCSEEECCSSEEEECCCGGGG--GCTTCCEEECCSS
T ss_pred             -------------------------------------HHHhhcCcCCEEECcCCcCCCccchHHh--cCCCccEEECCCC
Confidence                                                 1111 36677777777755433222222  4677777777775


Q ss_pred             CCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCC-ccceeecccCCccceeccCCCcCCCCCccEE
Q 000945          655 EKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFP-KVTFLKLWNLSELKTFYPGTHTSKWPMLKKL  733 (1212)
Q Consensus       655 ~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~-~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L  733 (1212)
                      .....+| ...++.+++|++|++++|.....++.        ....++ +|+.|+++++.--..++.......+++|+.|
T Consensus       329 ~l~~~ip-~~~l~~l~~L~~L~Ls~n~l~~~~p~--------~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L  399 (768)
T 3rgz_A          329 NFSGELP-MDTLLKMRGLKVLDLSFNEFSGELPE--------SLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQEL  399 (768)
T ss_dssp             EEEEECC-HHHHTTCTTCCEEECCSSEEEECCCT--------THHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEE
T ss_pred             cccCcCC-HHHHhcCCCCCEEeCcCCccCccccH--------HHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEE
Confidence            4332433 23346677777777777652223321        122333 6777777666433333322221225667777


Q ss_pred             EEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCCc
Q 000945          734 EVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDES  813 (1212)
Q Consensus       734 ~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~  813 (1212)
                      ++++|.-...+|..   +                    ..+++|+.|++++|.+.+..+  .....+++|+.|++++|.+
T Consensus       400 ~L~~n~l~~~~p~~---l--------------------~~l~~L~~L~Ls~N~l~~~~p--~~l~~l~~L~~L~L~~n~l  454 (768)
T 3rgz_A          400 YLQNNGFTGKIPPT---L--------------------SNCSELVSLHLSFNYLSGTIP--SSLGSLSKLRDLKLWLNML  454 (768)
T ss_dssp             ECCSSEEEEECCGG---G--------------------GGCTTCCEEECCSSEEESCCC--GGGGGCTTCCEEECCSSCC
T ss_pred             ECCCCccccccCHH---H--------------------hcCCCCCEEECcCCcccCccc--HHHhcCCCCCEEECCCCcc
Confidence            77776322233211   1                    115666777776666665443  2234566677777776655


Q ss_pred             cccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCC
Q 000945          814 ENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCE  893 (1212)
Q Consensus       814 ~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~  893 (1212)
                      ....+..+..+++|+.|+++.|.+....+     ..+..+++|+.|++++|.-...    .|.+++.+++|++|++++|.
T Consensus       455 ~~~~p~~~~~l~~L~~L~L~~N~l~~~~p-----~~l~~l~~L~~L~L~~N~l~~~----~p~~~~~l~~L~~L~L~~N~  525 (768)
T 3rgz_A          455 EGEIPQELMYVKTLETLILDFNDLTGEIP-----SGLSNCTNLNWISLSNNRLTGE----IPKWIGRLENLAILKLSNNS  525 (768)
T ss_dssp             CSCCCGGGGGCTTCCEEECCSSCCCSCCC-----GGGGGCTTCCEEECCSSCCCSC----CCGGGGGCTTCCEEECCSSC
T ss_pred             cCcCCHHHcCCCCceEEEecCCcccCcCC-----HHHhcCCCCCEEEccCCccCCc----CChHHhcCCCCCEEECCCCc
Confidence            53323336666677777776555543322     2234466677777766542222    25556666677777777766


Q ss_pred             CcccccCCccccCCccEEeeccccCcccccch------------------------------------------------
Q 000945          894 NLINLVPSSASFKNLTTLELWYCQRLMNLVTS------------------------------------------------  925 (1212)
Q Consensus       894 ~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~------------------------------------------------  925 (1212)
                      ..+.+|..+..+++|+.|++++|+-...+|..                                                
T Consensus       526 l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  605 (768)
T 3rgz_A          526 FSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLN  605 (768)
T ss_dssp             CEEECCGGGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGG
T ss_pred             ccCcCCHHHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhh
Confidence            66666666666677777777665433233321                                                


Q ss_pred             --------------------hhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCce
Q 000945          926 --------------------STAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYT  985 (1212)
Q Consensus       926 --------------------~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~  985 (1212)
                                          ..++.+++|+.|++++|.....+|.       ....+++|+.|+++++.--..+|.... 
T Consensus       606 ~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~l~g~ip~-------~l~~l~~L~~L~Ls~N~l~g~ip~~l~-  677 (768)
T 3rgz_A          606 RLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPK-------EIGSMPYLFILNLGHNDISGSIPDEVG-  677 (768)
T ss_dssp             GGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSSCCBSCCCG-------GGGGCTTCCEEECCSSCCCSCCCGGGG-
T ss_pred             ccccccccccccceecccCchhhhccccccEEECcCCcccccCCH-------HHhccccCCEEeCcCCccCCCCChHHh-
Confidence                                1123456778888888774445552       344577888888888764446776555 


Q ss_pred             eecCCccEEEeccCCCccccCcCCcCCCccceEEeccCc
Q 000945          986 LKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGL 1024 (1212)
Q Consensus       986 ~~~~sL~~L~i~~C~~l~~lp~~~~~~~~L~~l~~~~~~ 1024 (1212)
                       .+++|+.|+++++.....+|..+..+++|+.+++++|.
T Consensus       678 -~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~ls~N~  715 (768)
T 3rgz_A          678 -DLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNN  715 (768)
T ss_dssp             -GCTTCCEEECCSSCCEECCCGGGGGCCCCSEEECCSSE
T ss_pred             -CCCCCCEEECCCCcccCcCChHHhCCCCCCEEECcCCc
Confidence             34788888888887777788888888888888887664

>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=7.7e-36  Score=376.91  Aligned_cols=612  Identities=14%  Similarity=0.028  Sum_probs=330.4

Q ss_pred             cceeeeccCCcccc-ccH--HHHhhcccccccccCCCCCc-ccchhHhhccccCceeecCCCcceeeeeccccCCCccch
Q 000945          266 KLEILSLVDSNIEQ-LPE--EMAQLTQLRLFDLSGCSKLK-VIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASL  341 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~-lp~--~i~~L~~L~~L~Ls~~~~l~-~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~  341 (1212)
                      +|++|++++|.+.. +|.  .++++.+|++|++++| .+. .+|..++.++.+|++|++++|.+.           +..+
T Consensus       101 ~L~~L~Ls~n~l~~~~~~~~~l~~l~~L~~L~Ls~n-~l~~~~~~~~~~~l~~L~~L~Ls~n~l~-----------~~~~  168 (768)
T 3rgz_A          101 SLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSN-TLDFPGKVSGGLKLNSLEVLDLSANSIS-----------GANV  168 (768)
T ss_dssp             TCCEEECCSSEEEEEGGGGGGGGGCTTCCEEECCSS-EEECCSSCCSCCCCTTCSEEECCSSCCE-----------EETH
T ss_pred             CCCEEECCCCcCCCcCCChHHHhCCCCCCEEECcCC-ccCCcCCHHHhccCCCCCEEECCCCccC-----------CcCC
Confidence            67788888877763 566  7778888888888877 343 445543467778888888877765           2233


Q ss_pred             hh---hhcCCCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEE
Q 000945          342 QE---LKLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELY  418 (1212)
Q Consensus       342 ~~---L~~l~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~  418 (1212)
                      ..   +..+.+|++|+++.|.+........+.+|+.+.+........                 +. . ...++.++.|.
T Consensus       169 ~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~~-----------------~~-~-l~~l~~L~~L~  229 (768)
T 3rgz_A          169 VGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNFSTG-----------------IP-F-LGDCSALQHLD  229 (768)
T ss_dssp             HHHHHTTCCTTCCEEECCSSEEESCCBCTTCTTCCEEECCSSCCCSC-----------------CC-B-CTTCCSCCEEE
T ss_pred             hhhhhhccCCCCCEEECCCCcccccCCcccCCcCCEEECcCCcCCCC-----------------Cc-c-cccCCCCCEEE
Confidence            33   566777777777777655433323344444443211100000                 00 0 01123444444


Q ss_pred             eccCCCcccccccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCcccc-CCcc
Q 000945          419 LDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESF-YKLK  497 (1212)
Q Consensus       419 l~~~~~~~~~~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l-~~L~  497 (1212)
                      +.+..-...+...+.  .+++|++|++++|.....++.       ..+++|++|+++++.-.   ...|..++.. ++|+
T Consensus       230 Ls~n~l~~~~~~~l~--~l~~L~~L~Ls~n~l~~~~~~-------~~l~~L~~L~L~~n~l~---~~ip~~~~~~~~~L~  297 (768)
T 3rgz_A          230 ISGNKLSGDFSRAIS--TCTELKLLNISSNQFVGPIPP-------LPLKSLQYLSLAENKFT---GEIPDFLSGACDTLT  297 (768)
T ss_dssp             CCSSCCCSCHHHHTT--TCSSCCEEECCSSCCEESCCC-------CCCTTCCEEECCSSEEE---ESCCCCSCTTCTTCS
T ss_pred             CcCCcCCCcccHHHh--cCCCCCEEECCCCcccCccCc-------cccCCCCEEECcCCccC---CccCHHHHhhcCcCC
Confidence            443332222222222  445555555555432221111       13445555555544211   1123333332 5555


Q ss_pred             EEEEecCCCCC-ccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCccccccccc
Q 000945          498 IIKVRNCDKLK-NIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQV  576 (1212)
Q Consensus       498 ~L~L~~c~~l~-~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~  576 (1212)
                      +|++++| .+. .+|  ..++++++|++|++++|.....+|.           ..+..+++|++|+++++.-...     
T Consensus       298 ~L~Ls~n-~l~~~~p--~~~~~l~~L~~L~L~~n~l~~~ip~-----------~~l~~l~~L~~L~Ls~n~l~~~-----  358 (768)
T 3rgz_A          298 GLDLSGN-HFYGAVP--PFFGSCSLLESLALSSNNFSGELPM-----------DTLLKMRGLKVLDLSFNEFSGE-----  358 (768)
T ss_dssp             EEECCSS-EEEECCC--GGGGGCTTCCEEECCSSEEEEECCH-----------HHHTTCTTCCEEECCSSEEEEC-----
T ss_pred             EEECcCC-cCCCccc--hHHhcCCCccEEECCCCcccCcCCH-----------HHHhcCCCCCEEeCcCCccCcc-----
Confidence            5555553 222 222  2345555555555555442223332           1134455555555554421111     


Q ss_pred             ccchhhHhhhcccccccCCcceeccccccccccccccccccc-ccceeeccccccceecccCcccccCcCccEEEEecCC
Q 000945          577 KTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFP-NLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCE  655 (1212)
Q Consensus       577 ~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~-~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~  655 (1212)
                                                       +...+..++ +|+.|++++|.+.......+....+++|+.|++++|.
T Consensus       359 ---------------------------------~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~  405 (768)
T 3rgz_A          359 ---------------------------------LPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNG  405 (768)
T ss_dssp             ---------------------------------CCTTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSE
T ss_pred             ---------------------------------ccHHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCc
Confidence                                             112223334 7888888888655432222211226778888888874


Q ss_pred             CccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCCCCccEEEE
Q 000945          656 KLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEV  735 (1212)
Q Consensus       656 ~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i  735 (1212)
                      ....+|..  ++++++|++|++++|..-..++        .....+++|+.|++.++.-...++..  ...+++|+.|++
T Consensus       406 l~~~~p~~--l~~l~~L~~L~Ls~N~l~~~~p--------~~l~~l~~L~~L~L~~n~l~~~~p~~--~~~l~~L~~L~L  473 (768)
T 3rgz_A          406 FTGKIPPT--LSNCSELVSLHLSFNYLSGTIP--------SSLGSLSKLRDLKLWLNMLEGEIPQE--LMYVKTLETLIL  473 (768)
T ss_dssp             EEEECCGG--GGGCTTCCEEECCSSEEESCCC--------GGGGGCTTCCEEECCSSCCCSCCCGG--GGGCTTCCEEEC
T ss_pred             cccccCHH--HhcCCCCCEEECcCCcccCccc--------HHHhcCCCCCEEECCCCcccCcCCHH--HcCCCCceEEEe
Confidence            43343333  5778888888888876222222        13345778888888877644343322  225778888888


Q ss_pred             ecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCCcc-
Q 000945          736 YGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESE-  814 (1212)
Q Consensus       736 ~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~-  814 (1212)
                      ++|.-...+|..   +                    ..+++|+.|++++|.+.+..+  .....+++|+.|++++|.+. 
T Consensus       474 ~~N~l~~~~p~~---l--------------------~~l~~L~~L~L~~N~l~~~~p--~~~~~l~~L~~L~L~~N~l~~  528 (768)
T 3rgz_A          474 DFNDLTGEIPSG---L--------------------SNCTNLNWISLSNNRLTGEIP--KWIGRLENLAILKLSNNSFSG  528 (768)
T ss_dssp             CSSCCCSCCCGG---G--------------------GGCTTCCEEECCSSCCCSCCC--GGGGGCTTCCEEECCSSCCEE
T ss_pred             cCCcccCcCCHH---H--------------------hcCCCCCEEEccCCccCCcCC--hHHhcCCCCCEEECCCCcccC
Confidence            887433333211   1                    116788888888888776544  23456788888888887776 


Q ss_pred             ccchHHHhhcCccceeEEEccceeEeccccchh-h----------------------------------------ccccc
Q 000945          815 NFRIGFLERFHNLEKLELRWSSYKEIFSNEEIV-E----------------------------------------HAEML  853 (1212)
Q Consensus       815 ~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~-~----------------------------------------~~~~l  853 (1212)
                      .+|. .+..+++|+.|+++.|.+....|..-.. .                                        .+..+
T Consensus       529 ~~p~-~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  607 (768)
T 3rgz_A          529 NIPA-ELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRL  607 (768)
T ss_dssp             ECCG-GGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGG
T ss_pred             cCCH-HHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhcc
Confidence            4444 4778888888888866665333321000 0                                        00000


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      +.+..+++..    ..+....|..+..+++|+.|++++|...+.+|..++.+++|+.|++++|.--..+|  ..++.+++
T Consensus       608 ~~~~~~~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          608 STRNPCNITS----RVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIP--DEVGDLRG  681 (768)
T ss_dssp             GGTCCSCTTS----CEEEEECCCSCSSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCC--GGGGGCTT
T ss_pred             cccccccccc----ceecccCchhhhccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCC--hHHhCCCC
Confidence            1111111111    11222335567778889999999988778888888899999999999864333555  55688889


Q ss_pred             ccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCCcCCC
Q 000945          934 LTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTP 1013 (1212)
Q Consensus       934 L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~~~~~ 1013 (1212)
                      |+.|++++|.....+|.       ....+++|+.|++++++--..+|....   +.++....+.++|.+--.|.      
T Consensus       682 L~~LdLs~N~l~g~ip~-------~l~~l~~L~~L~ls~N~l~g~iP~~~~---~~~~~~~~~~gN~~Lcg~~l------  745 (768)
T 3rgz_A          682 LNILDLSSNKLDGRIPQ-------AMSALTMLTEIDLSNNNLSGPIPEMGQ---FETFPPAKFLNNPGLCGYPL------  745 (768)
T ss_dssp             CCEEECCSSCCEECCCG-------GGGGCCCCSEEECCSSEEEEECCSSSS---GGGSCGGGGCSCTEEESTTS------
T ss_pred             CCEEECCCCcccCcCCh-------HHhCCCCCCEEECcCCcccccCCCchh---hccCCHHHhcCCchhcCCCC------
Confidence            99999999885556663       334578888889988865556665532   34555556677776654332      


Q ss_pred             ccceEEeccCcccccccCcHHHHHHH
Q 000945         1014 RLREVRQNWGLYKGCWEGDLNTTIQQ 1039 (1212)
Q Consensus      1014 ~L~~l~~~~~~~~w~~~~~~~~~i~~ 1039 (1212)
                        . -|-..++.+|.++    +|++.
T Consensus       746 --~-~C~~~~~~~~~~~----~~~~~  764 (768)
T 3rgz_A          746 --P-RCDPSNADGYAHH----QRSHH  764 (768)
T ss_dssp             --C-CCCSCC----------------
T ss_pred             --c-CCCCCccCCCCCC----CCccc
Confidence              1 2344567789888    45544

>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=1.2e-31  Score=336.24  Aligned_cols=360  Identities=16%  Similarity=0.141  Sum_probs=229.2

Q ss_pred             cccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccc-cccc
Q 000945          618 PNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESG-EEAT  696 (1212)
Q Consensus       618 ~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~-~~~~  696 (1212)
                      ++|+.|++++|.+..+....+.  .+++|++|++++| .+..+++.. ++.+++|++|+++++..-..+...... ....
T Consensus       248 ~~L~~L~Ls~n~l~~~~~~~~~--~l~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~  323 (680)
T 1ziw_A          248 TNLTMLDLSYNNLNVVGNDSFA--WLPQLEYFFLEYN-NIQHLFSHS-LHGLFNVRYLNLKRSFTKQSISLASLPKIDDF  323 (680)
T ss_dssp             SCCCEEECTTSCCCEECTTTTT--TCTTCCEEECCSC-CBSEECTTT-TTTCTTCCEEECTTCBCCC------CCEECTT
T ss_pred             CCCCEEECCCCCcCccCccccc--CcccccEeeCCCC-ccCccChhh-hcCCCCccEEeccchhhhcccccccccccChh
Confidence            4588888888876655443332  5788888888886 455554433 477888888888875422111100000 0001


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCC-cccccccccchhhccCCCCCCccccceeeeeeecc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDK-VKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTS  775 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~-L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~  775 (1212)
                      ....+++|++|++.++. +..+.... ...+++|+.|++++|.. +..++..  .+..                  ...+
T Consensus       324 ~~~~l~~L~~L~l~~n~-l~~~~~~~-~~~l~~L~~L~Ls~n~~~~~~l~~~--~f~~------------------~~~~  381 (680)
T 1ziw_A          324 SFQWLKCLEHLNMEDND-IPGIKSNM-FTGLINLKYLSLSNSFTSLRTLTNE--TFVS------------------LAHS  381 (680)
T ss_dssp             TTTTCTTCCEEECCSCC-BCCCCTTT-TTTCTTCCEEECTTCBSCCCEECTT--TTGG------------------GTTS
T ss_pred             hcccCCCCCEEECCCCc-cCCCChhH-hccccCCcEEECCCCchhhhhcchh--hhcc------------------cccC
Confidence            23357788888887764 22222221 23578888888887742 2232110  0000                  0025


Q ss_pred             cceeeeeccccccccccccCcccccccceEeEeecCCcc-ccchHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          776 KLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESE-NFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       776 ~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~-~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      +|+.|++++|.+..+.+  .....+++|+.|++++|.+. .+|...+..+++|+.|+++.|.+..+.+     ..+..++
T Consensus       382 ~L~~L~L~~n~l~~~~~--~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-----~~~~~~~  454 (680)
T 1ziw_A          382 PLHILNLTKNKISKIES--DAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTR-----NSFALVP  454 (680)
T ss_dssp             CCCEEECTTSCCCEECT--TTTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCT-----TTTTTCT
T ss_pred             cCceEECCCCCCCeECh--hhhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeCh-----hhhhcCc
Confidence            78888888888887764  33456788888888887775 4666668888888888888666766543     2344578


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccC-CccccCCccEEeeccccCcccccch-------h
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVP-SSASFKNLTTLELWYCQRLMNLVTS-------S  926 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~-~~~~l~~L~~L~l~~c~~l~~l~~~-------~  926 (1212)
                      +|+.|+++++.- ..+ ...|..+..+++|+.|++++|. ++.+|+ .+..+++|+.|++++| .++.++..       .
T Consensus       455 ~L~~L~l~~n~l-~~~-~~~p~~~~~l~~L~~L~Ls~N~-l~~i~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~~~~~  530 (680)
T 1ziw_A          455 SLQRLMLRRVAL-KNV-DSSPSPFQPLRNLTILDLSNNN-IANINDDMLEGLEKLEILDLQHN-NLARLWKHANPGGPIY  530 (680)
T ss_dssp             TCCEEECTTSCC-BCT-TCSSCTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCGGGGSTTSTTSCCC
T ss_pred             ccccchhccccc-ccc-ccCCcccccCCCCCEEECCCCC-CCcCChhhhccccccCEEeCCCC-CccccchhhccCCcch
Confidence            888888887642 111 1225667788888888888865 445554 3677888888888885 56655322       1


Q ss_pred             hhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccC
Q 000945          927 TAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFS 1006 (1212)
Q Consensus       927 ~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp 1006 (1212)
                      .+..+++|+.|++++|. +..+|..      ....+++|+.|+++++ .++.+|..... .+++|+.|+++++ .+..++
T Consensus       531 ~~~~l~~L~~L~L~~N~-l~~i~~~------~~~~l~~L~~L~Ls~N-~l~~l~~~~~~-~l~~L~~L~L~~N-~l~~~~  600 (680)
T 1ziw_A          531 FLKGLSHLHILNLESNG-FDEIPVE------VFKDLFELKIIDLGLN-NLNTLPASVFN-NQVSLKSLNLQKN-LITSVE  600 (680)
T ss_dssp             TTTTCTTCCEEECCSSC-CCCCCTT------TTTTCTTCCEEECCSS-CCCCCCTTTTT-TCTTCCEEECTTS-CCCBCC
T ss_pred             hhcCCCCCCEEECCCCC-CCCCCHH------HcccccCcceeECCCC-CCCcCCHhHhC-CCCCCCEEECCCC-cCCccC
Confidence            25677888888888875 5555521      2344678888888776 57788776432 3588888888887 566666


Q ss_pred             cCC-c-CCCccceEEeccCc
Q 000945         1007 HRV-L-STPRLREVRQNWGL 1024 (1212)
Q Consensus      1007 ~~~-~-~~~~L~~l~~~~~~ 1024 (1212)
                      ... . .+++|+.+++++|.
T Consensus       601 ~~~~~~~~~~L~~l~l~~N~  620 (680)
T 1ziw_A          601 KKVFGPAFRNLTELDMRFNP  620 (680)
T ss_dssp             HHHHHHHHTTCSEEECTTCC
T ss_pred             hhHhcccccccCEEEccCCC
Confidence            543 2 46788888887654

>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=99.97  E-value=6e-31  Score=325.43  Aligned_cols=302  Identities=17%  Similarity=0.168  Sum_probs=164.4

Q ss_pred             ccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccccc
Q 000945          619 NLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTT  698 (1212)
Q Consensus       619 ~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  698 (1212)
                      +|+.|++++|.+..+....+.  .+++|++|++++| .++.+|+.  ++.+++|++|++++|. +..+..       ...
T Consensus       255 ~L~~L~l~~n~l~~~~~~~~~--~l~~L~~L~l~~n-~l~~lp~~--l~~l~~L~~L~l~~n~-l~~~~~-------~~~  321 (606)
T 3t6q_A          255 SVESINLQKHYFFNISSNTFH--CFSGLQELDLTAT-HLSELPSG--LVGLSTLKKLVLSANK-FENLCQ-------ISA  321 (606)
T ss_dssp             EEEEEECTTCCCSSCCTTTTT--TCTTCSEEECTTS-CCSCCCSS--CCSCTTCCEEECTTCC-CSBGGG-------GCG
T ss_pred             ceeEEEeecCccCccCHHHhc--cccCCCEEeccCC-ccCCCChh--hcccccCCEEECccCC-cCcCch-------hhh
Confidence            566666666655544433332  4566666666665 45555443  4566666666666664 333311       112


Q ss_pred             ccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccce
Q 000945          699 FVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLE  778 (1212)
Q Consensus       699 ~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~  778 (1212)
                      ..+++|++|++.++.....++... ...                                               +++|+
T Consensus       322 ~~l~~L~~L~l~~n~~~~~~~~~~-~~~-----------------------------------------------l~~L~  353 (606)
T 3t6q_A          322 SNFPSLTHLSIKGNTKRLELGTGC-LEN-----------------------------------------------LENLR  353 (606)
T ss_dssp             GGCTTCSEEECCSCSSCCBCCSST-TTT-----------------------------------------------CTTCC
T ss_pred             hccCcCCEEECCCCCcccccchhh-hhc-----------------------------------------------cCcCC
Confidence            234444444444443221221110 112                                               45566


Q ss_pred             eeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccce
Q 000945          779 ELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKS  858 (1212)
Q Consensus       779 ~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~  858 (1212)
                      +|++++|.+..+.........+++|++|++++|.+..+++..+..+++|+.|+++.|.+....+..    .+..+++|+.
T Consensus       354 ~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~----~~~~l~~L~~  429 (606)
T 3t6q_A          354 ELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQS----PFQNLHLLKV  429 (606)
T ss_dssp             EEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCC----TTTTCTTCCE
T ss_pred             EEECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccch----hhhCcccCCE
Confidence            666666555554322233445666777777666666665555666777777777755555443211    1334667777


Q ss_pred             EeeCCCccchhhhccCCCCccccCcccEEEEecCCCccc-cc--CCccccCCccEEeeccccCcccccchhhhccccccc
Q 000945          859 LKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLIN-LV--PSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLT  935 (1212)
Q Consensus       859 L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~-lp--~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~  935 (1212)
                      |++++|.- ..   ..+..+..+++|++|++++|...+. +|  ..+..+++|+.|++++| .++.+++ ..+..+++|+
T Consensus       430 L~l~~n~l-~~---~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~-~~~~~l~~L~  503 (606)
T 3t6q_A          430 LNLSHSLL-DI---SSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFC-DLSSIDQ-HAFTSLKMMN  503 (606)
T ss_dssp             EECTTCCC-BT---TCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTS-CCCEECT-TTTTTCTTCC
T ss_pred             EECCCCcc-CC---cCHHHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCC-ccCccCh-hhhccccCCC
Confidence            77776542 21   1244566677777777777654431 22  33566777777777775 4555432 3346667777


Q ss_pred             EEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCC
Q 000945          936 KLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPK 1001 (1212)
Q Consensus       936 ~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~ 1001 (1212)
                      .|++++|......+.       ....+++| .|+++++. +..++..... .+++|++|++++||-
T Consensus       504 ~L~Ls~N~l~~~~~~-------~l~~l~~L-~L~L~~N~-l~~~~~~~~~-~l~~L~~L~l~~N~~  559 (606)
T 3t6q_A          504 HVDLSHNRLTSSSIE-------ALSHLKGI-YLNLASNH-ISIILPSLLP-ILSQQRTINLRQNPL  559 (606)
T ss_dssp             EEECCSSCCCGGGGG-------GGTTCCSC-EEECCSSC-CCCCCGGGHH-HHHTSSEEECTTCCE
T ss_pred             EEECCCCccCcCChh-------HhCccccc-EEECcCCc-ccccCHhhcc-cCCCCCEEeCCCCCc
Confidence            777777753322221       22335666 67777763 4555443222 357889999988874

>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=99.97  E-value=3.3e-31  Score=327.71  Aligned_cols=82  Identities=18%  Similarity=0.250  Sum_probs=55.8

Q ss_pred             eeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhcC
Q 000945          268 EILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLL  347 (1212)
Q Consensus       268 r~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~l  347 (1212)
                      +.++.++..++.+|..+.  .++++|++++| .+..++...+.++.+|++|++++|.+.           ...+..+.++
T Consensus        14 ~~~~c~~~~l~~ip~~~~--~~l~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~-----------~i~~~~~~~l   79 (606)
T 3vq2_A           14 ITYQCMDQKLSKVPDDIP--SSTKNIDLSFN-PLKILKSYSFSNFSELQWLDLSRCEIE-----------TIEDKAWHGL   79 (606)
T ss_dssp             TEEECTTSCCSSCCTTSC--TTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTCCCC-----------EECTTTTTTC
T ss_pred             CceEccCCCcccCCCCCC--CCcCEEECCCC-CcCEeChhhccCCccCcEEeCCCCccc-----------ccCHHHhhch
Confidence            456677777777776554  57777777777 677777655777777777777777664           2234456677


Q ss_pred             CCCCcceeeecccccC
Q 000945          348 SHLTTLEIQICDAMIL  363 (1212)
Q Consensus       348 ~~L~~L~l~~~~~~~~  363 (1212)
                      .+|++|+++.|.+..+
T Consensus        80 ~~L~~L~Ls~n~l~~~   95 (606)
T 3vq2_A           80 HHLSNLILTGNPIQSF   95 (606)
T ss_dssp             TTCCEEECTTCCCCCC
T ss_pred             hhcCEeECCCCccccc
Confidence            7777777777665544

>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=99.97  E-value=6.9e-30  Score=320.39  Aligned_cols=99  Identities=18%  Similarity=0.292  Sum_probs=75.1

Q ss_pred             cceeeeccCCccccccH-HHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhh
Q 000945          266 KLEILSLVDSNIEQLPE-EMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL  344 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~-~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L  344 (1212)
                      .+++|++++|.+..+|. .|+++.+|++|++++| .+..++++.++++.+|++|++++|.+.           ......+
T Consensus        26 ~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~-----------~l~~~~~   93 (680)
T 1ziw_A           26 NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFN-TISKLEPELCQKLPMLKVLNLQHNELS-----------QLSDKTF   93 (680)
T ss_dssp             TCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSS-CCCCCCTTHHHHCTTCCEEECCSSCCC-----------CCCTTTT
T ss_pred             CCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCC-ccCccCHHHHhcccCcCEEECCCCccC-----------ccChhhh
Confidence            68889999988888865 6888889999999888 787777767888999999999888774           1122347


Q ss_pred             hcCCCCCcceeeecccccCCCCc--ccccceEEe
Q 000945          345 KLLSHLTTLEIQICDAMILPKGL--FSKKLERYK  376 (1212)
Q Consensus       345 ~~l~~L~~L~l~~~~~~~~p~~~--~~~~L~~l~  376 (1212)
                      ..+.+|++|+++.|.+..++...  .+.+|+.+.
T Consensus        94 ~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  127 (680)
T 1ziw_A           94 AFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLD  127 (680)
T ss_dssp             TTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEE
T ss_pred             ccCCCCCEEECCCCccCccChhHccccCCCCEEE
Confidence            78888888888888877766542  445565554

>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=99.97  E-value=1.4e-30  Score=322.09  Aligned_cols=536  Identities=16%  Similarity=0.127  Sum_probs=335.4

Q ss_pred             eeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhcC
Q 000945          268 EILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLL  347 (1212)
Q Consensus       268 r~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~l  347 (1212)
                      +.++.++..+..+|..+..  ++++|++++| .+..+++..|.++.+|++|++++|.+.           ...+..+..+
T Consensus        15 ~~~~c~~~~l~~iP~~l~~--~l~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~Ls~n~i~-----------~~~~~~~~~l   80 (606)
T 3t6q_A           15 KTYNCENLGLNEIPGTLPN--STECLEFSFN-VLPTIQNTTFSRLINLTFLDLTRCQIY-----------WIHEDTFQSQ   80 (606)
T ss_dssp             TEEECTTSCCSSCCTTSCT--TCCEEECTTC-CCSEECTTTSTTCTTCSEEECTTCCCC-----------EECTTTTTTC
T ss_pred             ceEECCCCCcccCcCCCCC--cCcEEEccCC-ccCcCChhHhccCccceEEECCCCccc-----------eeChhhccCc
Confidence            4567777777778776654  6788888888 777776655888888888888888765           3335567777


Q ss_pred             CCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCCccc
Q 000945          348 SHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKN  427 (1212)
Q Consensus       348 ~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~~~~  427 (1212)
                      .+|++|++++|.+..++...                                                            
T Consensus        81 ~~L~~L~Ls~n~l~~~~~~~------------------------------------------------------------  100 (606)
T 3t6q_A           81 HRLDTLVLTANPLIFMAETA------------------------------------------------------------  100 (606)
T ss_dssp             TTCCEEECTTCCCSEECTTT------------------------------------------------------------
T ss_pred             cccCeeeCCCCcccccChhh------------------------------------------------------------
Confidence            88888888777654322110                                                            


Q ss_pred             ccccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCCCC
Q 000945          428 VLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKL  507 (1212)
Q Consensus       428 ~~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l  507 (1212)
                          +  ..+++|++|++.+|. +..+..    .....+++|++|+++++. +..+  ....+..+++|++|+++++ .+
T Consensus       101 ----~--~~l~~L~~L~L~~n~-i~~l~~----~~~~~l~~L~~L~L~~n~-l~~~--~~~~~~~l~~L~~L~L~~n-~l  165 (606)
T 3t6q_A          101 ----L--SGPKALKHLFFIQTG-ISSIDF----IPLHNQKTLESLYLGSNH-ISSI--KLPKGFPTEKLKVLDFQNN-AI  165 (606)
T ss_dssp             ----T--SSCTTCCEEECTTSC-CSCGGG----SCCTTCTTCCEEECCSSC-CCCC--CCCTTCCCTTCCEEECCSS-CC
T ss_pred             ----h--cccccccEeeccccC-cccCCc----chhccCCcccEEECCCCc-cccc--CcccccCCcccCEEEcccC-cc
Confidence                0  145566666666652 221111    113456666666666652 2211  1122334788888888874 56


Q ss_pred             CccCchhhhccCCCcc--EEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccccccccccchhhHhh
Q 000945          508 KNIFSFSFVRGLPQLQ--TLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTR  585 (1212)
Q Consensus       508 ~~l~~~~~~~~L~~L~--~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~  585 (1212)
                      +.+++ ..+..+++|+  .|+++++. +..++.            ......+|+.|++.++..+......          
T Consensus       166 ~~~~~-~~~~~l~~L~~l~L~l~~n~-l~~~~~------------~~~~~~~L~~L~l~~~~~~~~~~~~----------  221 (606)
T 3t6q_A          166 HYLSK-EDMSSLQQATNLSLNLNGND-IAGIEP------------GAFDSAVFQSLNFGGTQNLLVIFKG----------  221 (606)
T ss_dssp             CEECH-HHHHTTTTCCSEEEECTTCC-CCEECT------------TTTTTCEEEEEECTTCSCHHHHHHH----------
T ss_pred             cccCh-hhhhhhcccceeEEecCCCc-cCccCh------------hHhhhccccccccCCchhHHHHhhh----------
Confidence            66643 4567788888  77888765 444443            2334457788888776543321110          


Q ss_pred             hcccccccCCcceecccccccccccccccccccccceeecccc-cc--ceecccCcccccCcCccEEEEecCCCccccCc
Q 000945          586 LKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAI-ST--EKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFP  662 (1212)
Q Consensus       586 l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~-~l--~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~  662 (1212)
                      +..                             ..++.+.+..+ ..  ..+....+....-.+|+.|++++| .+..+++
T Consensus       222 l~~-----------------------------~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n-~l~~~~~  271 (606)
T 3t6q_A          222 LKN-----------------------------STIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKH-YFFNISS  271 (606)
T ss_dssp             TTT-----------------------------CEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTC-CCSSCCT
T ss_pred             ccc-----------------------------cchhheechhhccccccccChhHhchhhcCceeEEEeecC-ccCccCH
Confidence            000                             01111221111 00  000001111001126777888775 5555554


Q ss_pred             hhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcc
Q 000945          663 SSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVK  742 (1212)
Q Consensus       663 ~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~  742 (1212)
                      .. ++.+++|++|++++|. +..++.        ...                          .+++|++|++++|. +.
T Consensus       272 ~~-~~~l~~L~~L~l~~n~-l~~lp~--------~l~--------------------------~l~~L~~L~l~~n~-l~  314 (606)
T 3t6q_A          272 NT-FHCFSGLQELDLTATH-LSELPS--------GLV--------------------------GLSTLKKLVLSANK-FE  314 (606)
T ss_dssp             TT-TTTCTTCSEEECTTSC-CSCCCS--------SCC--------------------------SCTTCCEEECTTCC-CS
T ss_pred             HH-hccccCCCEEeccCCc-cCCCCh--------hhc--------------------------ccccCCEEECccCC-cC
Confidence            33 4677788888887775 444421        111                          34556666666652 33


Q ss_pred             cccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCCccccc--hHH
Q 000945          743 IFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFR--IGF  820 (1212)
Q Consensus       743 ~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p--~~~  820 (1212)
                      .+++.  .+                    ..+++|+.|++++|.+....+. .....+++|++|++++|.+..++  +..
T Consensus       315 ~~~~~--~~--------------------~~l~~L~~L~l~~n~~~~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~  371 (606)
T 3t6q_A          315 NLCQI--SA--------------------SNFPSLTHLSIKGNTKRLELGT-GCLENLENLRELDLSHDDIETSDCCNLQ  371 (606)
T ss_dssp             BGGGG--CG--------------------GGCTTCSEEECCSCSSCCBCCS-STTTTCTTCCEEECCSSCCCEEEESTTT
T ss_pred             cCchh--hh--------------------hccCcCCEEECCCCCcccccch-hhhhccCcCCEEECCCCccccccCcchh
Confidence            22110  00                    1157788888877766532211 23457899999999999888876  555


Q ss_pred             HhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccC
Q 000945          821 LERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVP  900 (1212)
Q Consensus       821 l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~  900 (1212)
                      +..+++|+.|+++.|.+..+++     ..+..+++|+.|++++|.-....   .+..+..+++|++|++++|......|.
T Consensus       372 ~~~l~~L~~L~l~~n~l~~~~~-----~~~~~l~~L~~L~l~~n~l~~~~---~~~~~~~l~~L~~L~l~~n~l~~~~~~  443 (606)
T 3t6q_A          372 LRNLSHLQSLNLSYNEPLSLKT-----EAFKECPQLELLDLAFTRLKVKD---AQSPFQNLHLLKVLNLSHSLLDISSEQ  443 (606)
T ss_dssp             TTTCTTCCEEECCSCSCEEECT-----TTTTTCTTCSEEECTTCCEECCT---TCCTTTTCTTCCEEECTTCCCBTTCTT
T ss_pred             cccCCCCCEEECCCCcCCcCCH-----HHhcCCccCCeEECCCCcCCCcc---cchhhhCcccCCEEECCCCccCCcCHH
Confidence            8899999999999777777654     23455899999999997532222   123478899999999999877666677


Q ss_pred             CccccCCccEEeeccccCccc--ccchhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCccc
Q 000945          901 SSASFKNLTTLELWYCQRLMN--LVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTS  978 (1212)
Q Consensus       901 ~~~~l~~L~~L~l~~c~~l~~--l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~  978 (1212)
                      .+..+++|++|++++|+ +..  ++....+..+++|+.|++++|. +..++.      .....+++|+.|+++++. +..
T Consensus       444 ~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~------~~~~~l~~L~~L~Ls~N~-l~~  514 (606)
T 3t6q_A          444 LFDGLPALQHLNLQGNH-FPKGNIQKTNSLQTLGRLEILVLSFCD-LSSIDQ------HAFTSLKMMNHVDLSHNR-LTS  514 (606)
T ss_dssp             TTTTCTTCCEEECTTCB-CGGGEECSSCGGGGCTTCCEEECTTSC-CCEECT------TTTTTCTTCCEEECCSSC-CCG
T ss_pred             HHhCCCCCCEEECCCCC-CCccccccchhhccCCCccEEECCCCc-cCccCh------hhhccccCCCEEECCCCc-cCc
Confidence            78889999999999974 443  2333557889999999999997 444431      123457999999999995 555


Q ss_pred             ccCCCceeecCCccEEEeccCCCccccCcCCcCCCccceEEeccCcc
Q 000945          979 FCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLY 1025 (1212)
Q Consensus       979 l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~~~~~~L~~l~~~~~~~ 1025 (1212)
                      ++..... .+++| +|++++|.-....|..+..+++|+.+++++|..
T Consensus       515 ~~~~~l~-~l~~L-~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~  559 (606)
T 3t6q_A          515 SSIEALS-HLKGI-YLNLASNHISIILPSLLPILSQQRTINLRQNPL  559 (606)
T ss_dssp             GGGGGGT-TCCSC-EEECCSSCCCCCCGGGHHHHHTSSEEECTTCCE
T ss_pred             CChhHhC-ccccc-EEECcCCcccccCHhhcccCCCCCEEeCCCCCc
Confidence            4433222 35888 999999976554555567789999999998764

>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=99.97  E-value=3.7e-30  Score=318.35  Aligned_cols=89  Identities=19%  Similarity=0.297  Sum_probs=77.9

Q ss_pred             ccceeeeccCCccccccH-HHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhh
Q 000945          265 KKLEILSLVDSNIEQLPE-EMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQE  343 (1212)
Q Consensus       265 ~~Lr~L~ls~~~i~~lp~-~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~  343 (1212)
                      ..+++|++++|.+..++. .|+++.+|++|++++| .+..+++..|.++.+|++|++++|.+.           ...+..
T Consensus        32 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~i~~~~~~~l~~L~~L~Ls~n~l~-----------~~~p~~   99 (606)
T 3vq2_A           32 SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRC-EIETIEDKAWHGLHHLSNLILTGNPIQ-----------SFSPGS   99 (606)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTC-CCCEECTTTTTTCTTCCEEECTTCCCC-----------CCCTTS
T ss_pred             CCcCEEECCCCCcCEeChhhccCCccCcEEeCCCC-cccccCHHHhhchhhcCEeECCCCccc-----------ccChhh
Confidence            379999999999998865 8999999999999999 899987777999999999999999885           334677


Q ss_pred             hhcCCCCCcceeeecccccCCC
Q 000945          344 LKLLSHLTTLEIQICDAMILPK  365 (1212)
Q Consensus       344 L~~l~~L~~L~l~~~~~~~~p~  365 (1212)
                      +.++.+|++|+++.|.+..++.
T Consensus       100 ~~~l~~L~~L~L~~n~l~~~~~  121 (606)
T 3vq2_A          100 FSGLTSLENLVAVETKLASLES  121 (606)
T ss_dssp             STTCTTCCEEECTTSCCCCSSS
T ss_pred             cCCcccCCEEEccCCccccccc
Confidence            8899999999999998776653

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.96  E-value=1.7e-28  Score=313.23  Aligned_cols=85  Identities=22%  Similarity=0.255  Sum_probs=53.5

Q ss_pred             cceeeeccCCccccc-cHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhh
Q 000945          266 KLEILSLVDSNIEQL-PEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL  344 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L  344 (1212)
                      .+++|++++|.|..+ |.+|+++.+|++|++++|..+..++++.+.++.+|++|++++|.+.           ...+..+
T Consensus        25 ~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~-----------~~~p~~~   93 (844)
T 3j0a_A           25 TTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIY-----------FLHPDAF   93 (844)
T ss_dssp             TCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCC-----------EECTTSS
T ss_pred             CcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCc-----------ccCHhHc
Confidence            566677777766665 5566667777777777664455564444667777777777766654           2234556


Q ss_pred             hcCCCCCcceeeecccc
Q 000945          345 KLLSHLTTLEIQICDAM  361 (1212)
Q Consensus       345 ~~l~~L~~L~l~~~~~~  361 (1212)
                      ..+.+|++|+++.|.+.
T Consensus        94 ~~l~~L~~L~Ls~n~l~  110 (844)
T 3j0a_A           94 QGLFHLFELRLYFCGLS  110 (844)
T ss_dssp             CSCSSCCCEECTTCCCS
T ss_pred             cCCcccCEeeCcCCCCC
Confidence            66666666666666544

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.95  E-value=7.4e-27  Score=298.09  Aligned_cols=533  Identities=16%  Similarity=0.138  Sum_probs=321.9

Q ss_pred             eeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccc-hhhhhc
Q 000945          268 EILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNAS-LQELKL  346 (1212)
Q Consensus       268 r~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~-~~~L~~  346 (1212)
                      ++.+.+++++..+|.   -..++++|+|++| .+..++...+.++.+|++|++++|...           ..+ +..+.+
T Consensus         7 ~~~dcs~~~L~~vP~---lp~~l~~LdLs~N-~i~~i~~~~~~~l~~L~~LdLs~n~~~-----------~~i~~~~f~~   71 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ---VLNTTERLLLSFN-YIRTVTASSFPFLEQLQLLELGSQYTP-----------LTIDKEAFRN   71 (844)
T ss_dssp             EEEEESCCCSSCCCS---SCTTCCEEEEESC-CCCEECSSSCSSCCSCSEEEECTTCCC-----------CEECTTTTSS
T ss_pred             eEEEccCCCCCCCCC---CCCCcCEEECCCC-cCCccChhHCcccccCeEEeCCCCCCc-----------cccCHHHhcC
Confidence            466788889999997   5679999999999 788886666999999999999999542           222 567889


Q ss_pred             CCCCCcceeeecccccC-CCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCCc
Q 000945          347 LSHLTTLEIQICDAMIL-PKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGI  425 (1212)
Q Consensus       347 l~~L~~L~l~~~~~~~~-p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~~  425 (1212)
                      +.+|++|+++.|.+..+ |..+.                                                         
T Consensus        72 L~~L~~L~Ls~N~l~~~~p~~~~---------------------------------------------------------   94 (844)
T 3j0a_A           72 LPNLRILDLGSSKIYFLHPDAFQ---------------------------------------------------------   94 (844)
T ss_dssp             CTTCCEEECTTCCCCEECTTSSC---------------------------------------------------------
T ss_pred             CCCCCEEECCCCcCcccCHhHcc---------------------------------------------------------
Confidence            99999999998877654 22220                                                         


Q ss_pred             ccccccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCC
Q 000945          426 KNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCD  505 (1212)
Q Consensus       426 ~~~~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~  505 (1212)
                                .+++|++|++++|.....++..   .....+++|+.|+++++.. ..+. .+..++.+++|++|+|+++ 
T Consensus        95 ----------~l~~L~~L~Ls~n~l~~~~~~~---~~~~~L~~L~~L~Ls~N~l-~~~~-~~~~~~~L~~L~~L~Ls~N-  158 (844)
T 3j0a_A           95 ----------GLFHLFELRLYFCGLSDAVLKD---GYFRNLKALTRLDLSKNQI-RSLY-LHPSFGKLNSLKSIDFSSN-  158 (844)
T ss_dssp             ----------SCSSCCCEECTTCCCSSCCSTT---CCCSSCSSCCEEEEESCCC-CCCC-CCGGGGTCSSCCEEEEESS-
T ss_pred             ----------CCcccCEeeCcCCCCCcccccC---ccccccCCCCEEECCCCcc-cccc-cchhHhhCCCCCEEECCCC-
Confidence                      2334444444443211111110   0022344444444444321 1100 0122445555555555553 


Q ss_pred             CCCccCchhhhccC--CCccEEEEccCcCcchhhcccccCCccCCccCceecc------cccEEecccCCcccccccccc
Q 000945          506 KLKNIFSFSFVRGL--PQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFS------QLHSLTLKFLPQLTSFYSQVK  577 (1212)
Q Consensus       506 ~l~~l~~~~~~~~L--~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~------~L~~L~l~~~~~l~~~~~~~~  577 (1212)
                      .+..+.+ ..+..+  ++|+.|+++++......+.            .+..++      .|+.|+++++.--...+....
T Consensus       159 ~i~~~~~-~~l~~l~~~~L~~L~L~~n~l~~~~~~------------~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~  225 (844)
T 3j0a_A          159 QIFLVCE-HELEPLQGKTLSFFSLAANSLYSRVSV------------DWGKCMNPFRNMVLEILDVSGNGWTVDITGNFS  225 (844)
T ss_dssp             CCCCCCS-GGGHHHHHCSSCCCEECCSBSCCCCCC------------CCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGG
T ss_pred             cCCeeCH-HHcccccCCccceEECCCCcccccccc------------chhhcCCccccCceeEEecCCCcCchhHHHHHH
Confidence            3333321 223333  4555555555442222221            111111      255555554321111100000


Q ss_pred             cchhhHhhhcccccccCCcc----eeccccccccc-ccccccccccccceeeccccccceecccCcccccCcCccEEEEe
Q 000945          578 TSAASQTRLKELSTHTLPRE----VILEDECDTLM-PFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVH  652 (1212)
Q Consensus       578 ~~~~~~~~l~~L~~~~l~~~----~~~~~~~~~l~-~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~  652 (1212)
                      ... ....+..+   .+...    ........... ..+.. ...++|+.|++++|.+..+....+.  .+++|+.|+|+
T Consensus       226 ~~l-~~~~l~~L---~l~~~~~~~~~~~~~l~~~~~~~f~~-l~~~~L~~L~Ls~n~l~~~~~~~~~--~l~~L~~L~L~  298 (844)
T 3j0a_A          226 NAI-SKSQAFSL---ILAHHIMGAGFGFHNIKDPDQNTFAG-LARSSVRHLDLSHGFVFSLNSRVFE--TLKDLKVLNLA  298 (844)
T ss_dssp             GTS-CSCCBSEE---ECCSSCCBCSSSCSSSTTGGGTTTTT-TTTSCCCEEECTTCCCCEECSCCSS--SCCCCCEEEEE
T ss_pred             hhc-Ccccccce---ecccccccccccccccCCCChhhhhc-cccCCccEEECCCCcccccChhhhh--cCCCCCEEECC
Confidence            000 00000000   00000    00000000000 01111 1247899999999977766544443  68999999999


Q ss_pred             cCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCCCCccE
Q 000945          653 GCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKK  732 (1212)
Q Consensus       653 ~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~  732 (1212)
                      +| .+..+++.. ++.+++|++|++++|. +..+...       ....+++|+.|++.++ .+..+.... ...+++|+.
T Consensus       299 ~n-~i~~~~~~~-~~~l~~L~~L~Ls~N~-l~~~~~~-------~~~~l~~L~~L~L~~N-~i~~~~~~~-~~~l~~L~~  366 (844)
T 3j0a_A          299 YN-KINKIADEA-FYGLDNLQVLNLSYNL-LGELYSS-------NFYGLPKVAYIDLQKN-HIAIIQDQT-FKFLEKLQT  366 (844)
T ss_dssp             SC-CCCEECTTT-TTTCSSCCEEEEESCC-CSCCCSC-------SCSSCTTCCEEECCSC-CCCCCCSSC-SCSCCCCCE
T ss_pred             CC-cCCCCChHH-hcCCCCCCEEECCCCC-CCccCHH-------HhcCCCCCCEEECCCC-CCCccChhh-hcCCCCCCE
Confidence            96 566665543 5889999999999997 5555322       3445899999999987 355544332 236899999


Q ss_pred             EEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCC
Q 000945          733 LEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDE  812 (1212)
Q Consensus       733 L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~  812 (1212)
                      |++++| .+..++                           .+++|+.|++++|.+..++.      ...+++.|++++|.
T Consensus       367 L~Ls~N-~l~~i~---------------------------~~~~L~~L~l~~N~l~~l~~------~~~~l~~L~ls~N~  412 (844)
T 3j0a_A          367 LDLRDN-ALTTIH---------------------------FIPSIPDIFLSGNKLVTLPK------INLTANLIHLSENR  412 (844)
T ss_dssp             EEEETC-CSCCCS---------------------------SCCSCSEEEEESCCCCCCCC------CCTTCCEEECCSCC
T ss_pred             EECCCC-CCCccc---------------------------CCCCcchhccCCCCcccccc------cccccceeecccCc
Confidence            999997 455442                           16789999999999987753      25689999999998


Q ss_pred             ccccchH-HHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhc--cCCCCccccCcccEEEE
Q 000945          813 SENFRIG-FLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWK--QDSKLDSITENLESLEV  889 (1212)
Q Consensus       813 ~~~~p~~-~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~--~~~~~~~~l~~L~~L~l  889 (1212)
                      +..++.. .+..+++|+.|+++.|.++.+++..    .+..+++|+.|+++++. +..++.  ..+..+..+++|+.|++
T Consensus       413 l~~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~----~~~~~~~L~~L~Ls~N~-l~~~~~~~~~~~~~~~l~~L~~L~L  487 (844)
T 3j0a_A          413 LENLDILYFLLRVPHLQILILNQNRFSSCSGDQ----TPSENPSLEQLFLGENM-LQLAWETELCWDVFEGLSHLQVLYL  487 (844)
T ss_dssp             CCSSTTHHHHTTCTTCCEEEEESCCCCCCCSSS----SSCSCTTCCBCEEESCC-CSSSCCSCCCSSCSSCBCCEECCCC
T ss_pred             cccCchhhhhhcCCccceeeCCCCccccccccc----ccccCCccccccCCCCc-cccccccccchhhhcCcccccEEEC
Confidence            8887643 3568999999999988887654321    12236899999999864 333321  12345778899999999


Q ss_pred             ecCCCcccccC-CccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhh
Q 000945          890 WWCENLINLVP-SSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWV  968 (1212)
Q Consensus       890 ~~c~~l~~lp~-~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L  968 (1212)
                      ++|. ++.+|+ .+..+++|+.|++++| +++.+|+..+.   ++|+.|++++|. +..++.         ..+++|+.|
T Consensus       488 s~N~-l~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~~~---~~L~~L~Ls~N~-l~~~~~---------~~~~~L~~l  552 (844)
T 3j0a_A          488 NHNY-LNSLPPGVFSHLTALRGLSLNSN-RLTVLSHNDLP---ANLEILDISRNQ-LLAPNP---------DVFVSLSVL  552 (844)
T ss_dssp             CHHH-HTTCCTTSSSSCCSCSEEEEESC-CCSSCCCCCCC---SCCCEEEEEEEC-CCCCCS---------CCCSSCCEE
T ss_pred             CCCc-ccccChhHccchhhhheeECCCC-CCCccChhhhh---ccccEEECCCCc-CCCCCh---------hHhCCcCEE
Confidence            9984 555554 4678899999999995 78888754443   789999999887 444332         125678888


Q ss_pred             hhccCC
Q 000945          969 SLERLE  974 (1212)
Q Consensus       969 ~l~~~~  974 (1212)
                      ++.++|
T Consensus       553 ~l~~Np  558 (844)
T 3j0a_A          553 DITHNK  558 (844)
T ss_dssp             EEEEEC
T ss_pred             EecCCC
Confidence            888765

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.95  E-value=1.4e-26  Score=284.46  Aligned_cols=486  Identities=16%  Similarity=0.154  Sum_probs=271.2

Q ss_pred             cceeeeccCCcccccc-HHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhh
Q 000945          266 KLEILSLVDSNIEQLP-EEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL  344 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L  344 (1212)
                      .++.|++++|.+..++ ..|..+.+|++|++++| .+..++.+.+.++.+|++|++++|.+.           ...+..+
T Consensus        29 ~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n-~i~~i~~~~~~~l~~L~~L~L~~n~l~-----------~~~~~~~   96 (570)
T 2z63_A           29 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNPIQ-----------SLALGAF   96 (570)
T ss_dssp             SCCEEECCSCCCCEECTTTTTTCSSCCEEECTTC-CCCEECTTTTTTCTTCCEEECTTCCCC-----------EECTTTT
T ss_pred             cccEEEccCCccCccChhHhhCCCCceEEECCCC-cCCccCcccccCchhCCEEeCcCCcCC-----------ccCHhhh
Confidence            5777888888777774 46777888888888888 677777666778888888888877764           2223556


Q ss_pred             hcCCCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCC
Q 000945          345 KLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPG  424 (1212)
Q Consensus       345 ~~l~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~  424 (1212)
                      ..+.+|++|+++.|.+..++...                                                         
T Consensus        97 ~~l~~L~~L~L~~n~l~~l~~~~---------------------------------------------------------  119 (570)
T 2z63_A           97 SGLSSLQKLVAVETNLASLENFP---------------------------------------------------------  119 (570)
T ss_dssp             TTCTTCCEEECTTSCCCCSTTCS---------------------------------------------------------
T ss_pred             cCccccccccccccccccCCCcc---------------------------------------------------------
Confidence            77777777777777655544321                                                         


Q ss_pred             cccccccCCccccCCCcEEEeecCCCce-eeecCcchhccccccccceeecccccccceeecccCCccccCCc----cEE
Q 000945          425 IKNVLYDLDIEGFLQLKHLHVQNNPFIL-FIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKL----KII  499 (1212)
Q Consensus       425 ~~~~~~~l~~~~l~~L~~L~l~~~~~~~-~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L----~~L  499 (1212)
                               +..+++|++|++++|.... .+|..     ...+++|++|+++++. +..+  .+..++.+.+|    +.|
T Consensus       120 ---------~~~l~~L~~L~L~~n~l~~~~lp~~-----~~~l~~L~~L~l~~n~-l~~~--~~~~~~~l~~L~~~~~~L  182 (570)
T 2z63_A          120 ---------IGHLKTLKELNVAHNLIQSFKLPEY-----FSNLTNLEHLDLSSNK-IQSI--YCTDLRVLHQMPLLNLSL  182 (570)
T ss_dssp             ---------CTTCTTCCEEECCSSCCCCCCCCGG-----GGGCTTCCEEECTTSC-CCEE--CGGGGHHHHTCTTCCCEE
T ss_pred             ---------ccccccccEEecCCCccceecChhh-----hcccCCCCEEeCcCCc-ccee--cHHHccchhccchhhhhc
Confidence                     1145556666665552111 01111     3345566666666552 2221  12334455555    666


Q ss_pred             EEecCCCCCccCchhhhccCCCccEEEEccCcC-cchhhcccccCCccCCccCceecccccEEecc--cCCc---ccccc
Q 000945          500 KVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKN-MKEIFTVGRENDVDCHEVDKIEFSQLHSLTLK--FLPQ---LTSFY  573 (1212)
Q Consensus       500 ~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~-l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~--~~~~---l~~~~  573 (1212)
                      +++++ .+..+++ ..+..+ +|++|+++++.. ...++.            .+..+++++.+.+.  ....   +..+.
T Consensus       183 ~l~~n-~l~~~~~-~~~~~~-~L~~L~l~~n~~~~~~~~~------------~~~~l~~l~~~~l~~~~~~~~~~l~~~~  247 (570)
T 2z63_A          183 DLSLN-PMNFIQP-GAFKEI-RLHKLTLRNNFDSLNVMKT------------CIQGLAGLEVHRLVLGEFRNEGNLEKFD  247 (570)
T ss_dssp             ECTTC-CCCEECT-TTTTTC-EEEEEEEESCCSCTTHHHH------------HHHTTTTCEEEEEEEEECCCCSSCEECC
T ss_pred             ccCCC-CceecCH-HHhccC-cceeEecccccccccchhh------------hhcCccccceeeeccccccCchhhhhcc
Confidence            66663 4555543 222332 677777766421 111111            22233333322221  1111   11100


Q ss_pred             cccccchhhHhhhcccccccCCcceecccccccccccccccccccccceeecccc-ccceecccCcccccCcCccEEEEe
Q 000945          574 SQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAI-STEKIWCNQLAAVYSQNLTRLIVH  652 (1212)
Q Consensus       574 ~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~-~l~~~~~~~~~~~~l~~L~~L~L~  652 (1212)
                      ..                                  .+..+.. -.++.++++++ .+.......+  ..+++|+.|+++
T Consensus       248 ~~----------------------------------~~~~l~~-l~l~~l~l~~~~~~~~~~~~~~--~~l~~L~~L~l~  290 (570)
T 2z63_A          248 KS----------------------------------ALEGLCN-LTIEEFRLAYLDYYLDDIIDLF--NCLTNVSSFSLV  290 (570)
T ss_dssp             TT----------------------------------TTGGGGG-SEEEEEEEEETTEEESCSTTTT--GGGTTCSEEEEE
T ss_pred             hh----------------------------------hhccccc-cchhhhhhhcchhhhhhchhhh--cCcCcccEEEec
Confidence            00                                  0000000 12444444444 2222111111  245667777776


Q ss_pred             cCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCCCCccE
Q 000945          653 GCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKK  732 (1212)
Q Consensus       653 ~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~  732 (1212)
                      +| .+..+|..  +..+ +|++|++++|. +..++.          ..+++|+.|.+.++.....++.    ..+++|+.
T Consensus       291 ~~-~l~~l~~~--~~~~-~L~~L~l~~n~-~~~l~~----------~~l~~L~~L~l~~n~~~~~~~~----~~~~~L~~  351 (570)
T 2z63_A          291 SV-TIERVKDF--SYNF-GWQHLELVNCK-FGQFPT----------LKLKSLKRLTFTSNKGGNAFSE----VDLPSLEF  351 (570)
T ss_dssp             SC-EECSCCBC--CSCC-CCSEEEEESCB-CSSCCB----------CBCSSCCEEEEESCBSCCBCCC----CBCTTCCE
T ss_pred             Cc-cchhhhhh--hccC-CccEEeeccCc-ccccCc----------ccccccCEEeCcCCcccccccc----ccCCCCCE
Confidence            65 34454443  4455 77777777665 333321          2466677777666653333222    25677777


Q ss_pred             EEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCC
Q 000945          733 LEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDE  812 (1212)
Q Consensus       733 L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~  812 (1212)
                      |++++|. +.........+                    ..+++|++|++++|.+..+.+.   ...+++|++|++++|.
T Consensus       352 L~l~~n~-l~~~~~~~~~~--------------------~~~~~L~~L~l~~n~l~~~~~~---~~~l~~L~~L~l~~n~  407 (570)
T 2z63_A          352 LDLSRNG-LSFKGCCSQSD--------------------FGTTSLKYLDLSFNGVITMSSN---FLGLEQLEHLDFQHSN  407 (570)
T ss_dssp             EECCSSC-CBEEEEEEHHH--------------------HTCSCCCEEECCSCSEEEEEEE---EETCTTCCEEECTTSE
T ss_pred             EeCcCCc-cCccccccccc--------------------cccCccCEEECCCCcccccccc---ccccCCCCEEEccCCc
Confidence            7777763 33221000001                    1156778888877777766532   4567778888888766


Q ss_pred             ccccch-HHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccc-hhhhccCCCCccccCcccEEEEe
Q 000945          813 SENFRI-GFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDL-MYIWKQDSKLDSITENLESLEVW  890 (1212)
Q Consensus       813 ~~~~p~-~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l-~~l~~~~~~~~~~l~~L~~L~l~  890 (1212)
                      +...++ ..+..+++|+.|+++.+.+...++     ..+..+++|+.|++++|.-. ..+    |..+..+++|++|+++
T Consensus       408 l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-----~~~~~l~~L~~L~l~~n~l~~~~~----p~~~~~l~~L~~L~l~  478 (570)
T 2z63_A          408 LKQMSEFSVFLSLRNLIYLDISHTHTRVAFN-----GIFNGLSSLEVLKMAGNSFQENFL----PDIFTELRNLTFLDLS  478 (570)
T ss_dssp             EESCTTSCTTTTCTTCCEEECTTSCCEECCT-----TTTTTCTTCCEEECTTCEEGGGEE----CSCCTTCTTCCEEECT
T ss_pred             cccccchhhhhcCCCCCEEeCcCCcccccch-----hhhhcCCcCcEEECcCCcCccccc----hhhhhcccCCCEEECC
Confidence            665543 446778888888888555655443     22344778888888877522 123    5667778888888888


Q ss_pred             cCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcc
Q 000945          891 WCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       891 ~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      +|...+..|..+..+++|+.|++++| .++.+++ ..+..+++|+.|++++|+
T Consensus       479 ~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~-~~~~~l~~L~~L~l~~N~  529 (570)
T 2z63_A          479 QCQLEQLSPTAFNSLSSLQVLNMASN-QLKSVPD-GIFDRLTSLQKIWLHTNP  529 (570)
T ss_dssp             TSCCCEECTTTTTTCTTCCEEECCSS-CCSCCCT-TTTTTCTTCCEEECCSSC
T ss_pred             CCccccCChhhhhcccCCCEEeCCCC-cCCCCCH-HHhhcccCCcEEEecCCc
Confidence            87655555666777888888888886 5666653 345677888888888776

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.95  E-value=7.4e-27  Score=286.88  Aligned_cols=459  Identities=15%  Similarity=0.138  Sum_probs=255.6

Q ss_pred             eeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhcC
Q 000945          268 EILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLL  347 (1212)
Q Consensus       268 r~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~l  347 (1212)
                      +..+.++.++..+|..+.  .++++|++++| .+..++...+.++.+|++|++++|.+.           ......+..+
T Consensus        10 ~~~~c~~~~l~~ip~~l~--~~l~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~n~i~-----------~i~~~~~~~l   75 (570)
T 2z63_A           10 ITYQCMELNFYKIPDNLP--FSTKNLDLSFN-PLRHLGSYSFFSFPELQVLDLSRCEIQ-----------TIEDGAYQSL   75 (570)
T ss_dssp             TEEECCSSCCSSCCSSSC--SSCCEEECCSC-CCCEECTTTTTTCSSCCEEECTTCCCC-----------EECTTTTTTC
T ss_pred             cEEEeCCCCccccCCCcc--ccccEEEccCC-ccCccChhHhhCCCCceEEECCCCcCC-----------ccCcccccCc
Confidence            455667778888887664  57999999999 798888777999999999999999875           2234567788


Q ss_pred             CCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCCccc
Q 000945          348 SHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKN  427 (1212)
Q Consensus       348 ~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~~~~  427 (1212)
                      .+|++|+++.|.+..++.+.                                                            
T Consensus        76 ~~L~~L~L~~n~l~~~~~~~------------------------------------------------------------   95 (570)
T 2z63_A           76 SHLSTLILTGNPIQSLALGA------------------------------------------------------------   95 (570)
T ss_dssp             TTCCEEECTTCCCCEECTTT------------------------------------------------------------
T ss_pred             hhCCEEeCcCCcCCccCHhh------------------------------------------------------------
Confidence            89999988877655433211                                                            


Q ss_pred             ccccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCCCC
Q 000945          428 VLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKL  507 (1212)
Q Consensus       428 ~~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l  507 (1212)
                          +  ..+++|++|++.+|. +..++..    ....+++|++|+++++. +..+ ..|..++.+++|++|+++++ .+
T Consensus        96 ----~--~~l~~L~~L~L~~n~-l~~l~~~----~~~~l~~L~~L~L~~n~-l~~~-~lp~~~~~l~~L~~L~l~~n-~l  161 (570)
T 2z63_A           96 ----F--SGLSSLQKLVAVETN-LASLENF----PIGHLKTLKELNVAHNL-IQSF-KLPEYFSNLTNLEHLDLSSN-KI  161 (570)
T ss_dssp             ----T--TTCTTCCEEECTTSC-CCCSTTC----SCTTCTTCCEEECCSSC-CCCC-CCCGGGGGCTTCCEEECTTS-CC
T ss_pred             ----h--cCccccccccccccc-cccCCCc----cccccccccEEecCCCc-ccee-cChhhhcccCCCCEEeCcCC-cc
Confidence                1  157788888888773 3333221    13467788888888763 2211 12556777888888888874 56


Q ss_pred             CccCchhhhccCCCc----cEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccccccccccchhhH
Q 000945          508 KNIFSFSFVRGLPQL----QTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQ  583 (1212)
Q Consensus       508 ~~l~~~~~~~~L~~L----~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~  583 (1212)
                      ..+++ ..++.+.+|    ++|+++++. +..++.            ......+|+.|++.+...-....         .
T Consensus       162 ~~~~~-~~~~~l~~L~~~~~~L~l~~n~-l~~~~~------------~~~~~~~L~~L~l~~n~~~~~~~---------~  218 (570)
T 2z63_A          162 QSIYC-TDLRVLHQMPLLNLSLDLSLNP-MNFIQP------------GAFKEIRLHKLTLRNNFDSLNVM---------K  218 (570)
T ss_dssp             CEECG-GGGHHHHTCTTCCCEEECTTCC-CCEECT------------TTTTTCEEEEEEEESCCSCTTHH---------H
T ss_pred             ceecH-HHccchhccchhhhhcccCCCC-ceecCH------------HHhccCcceeEecccccccccch---------h
Confidence            66543 345666666    778888765 444443            11222367777776532110000         0


Q ss_pred             hhhcccccccCCcceecccccccccccccccccccccceeecccc------ccceecccCcccccCcCccEEEEecCCCc
Q 000945          584 TRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAI------STEKIWCNQLAAVYSQNLTRLIVHGCEKL  657 (1212)
Q Consensus       584 ~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~------~l~~~~~~~~~~~~l~~L~~L~L~~c~~l  657 (1212)
                      ..+                            ..+++++.+.+...      .+..+....+....--.++.+++.++..+
T Consensus       219 ~~~----------------------------~~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~l~~l~l~~l~l~~~~~~  270 (570)
T 2z63_A          219 TCI----------------------------QGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYY  270 (570)
T ss_dssp             HHH----------------------------HTTTTCEEEEEEEEECCCCSSCEECCTTTTGGGGGSEEEEEEEEETTEE
T ss_pred             hhh----------------------------cCccccceeeeccccccCchhhhhcchhhhccccccchhhhhhhcchhh
Confidence            000                            01122222111110      01111111111000112455666655344


Q ss_pred             cccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEec
Q 000945          658 KYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYG  737 (1212)
Q Consensus       658 ~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~  737 (1212)
                      ....+. .++.+++|++|++++|. +..++.        ....+ +                          |+.|++.+
T Consensus       271 ~~~~~~-~~~~l~~L~~L~l~~~~-l~~l~~--------~~~~~-~--------------------------L~~L~l~~  313 (570)
T 2z63_A          271 LDDIID-LFNCLTNVSSFSLVSVT-IERVKD--------FSYNF-G--------------------------WQHLELVN  313 (570)
T ss_dssp             ESCSTT-TTGGGTTCSEEEEESCE-ECSCCB--------CCSCC-C--------------------------CSEEEEES
T ss_pred             hhhchh-hhcCcCcccEEEecCcc-chhhhh--------hhccC-C--------------------------ccEEeecc
Confidence            333332 24667777777777665 333321        11112 4                          44445544


Q ss_pred             CCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCCccccc
Q 000945          738 CDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFR  817 (1212)
Q Consensus       738 C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p  817 (1212)
                      |. +..+|.                         ..+++|+.|++++|.+....+    ...+++|++|++++|.+...+
T Consensus       314 n~-~~~l~~-------------------------~~l~~L~~L~l~~n~~~~~~~----~~~~~~L~~L~l~~n~l~~~~  363 (570)
T 2z63_A          314 CK-FGQFPT-------------------------LKLKSLKRLTFTSNKGGNAFS----EVDLPSLEFLDLSRNGLSFKG  363 (570)
T ss_dssp             CB-CSSCCB-------------------------CBCSSCCEEEEESCBSCCBCC----CCBCTTCCEEECCSSCCBEEE
T ss_pred             Cc-ccccCc-------------------------ccccccCEEeCcCCccccccc----cccCCCCCEEeCcCCccCccc
Confidence            42 222210                         013455555555544433321    134556666666665555442


Q ss_pred             --hHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCc
Q 000945          818 --IGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENL  895 (1212)
Q Consensus       818 --~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l  895 (1212)
                        +..+..+++|+.|+++.|.+..+++.      +..+++|+.|++++|.- ..+.  ....+..+++|++|++++|...
T Consensus       364 ~~~~~~~~~~~L~~L~l~~n~l~~~~~~------~~~l~~L~~L~l~~n~l-~~~~--~~~~~~~l~~L~~L~l~~n~l~  434 (570)
T 2z63_A          364 CCSQSDFGTTSLKYLDLSFNGVITMSSN------FLGLEQLEHLDFQHSNL-KQMS--EFSVFLSLRNLIYLDISHTHTR  434 (570)
T ss_dssp             EEEHHHHTCSCCCEEECCSCSEEEEEEE------EETCTTCCEEECTTSEE-ESCT--TSCTTTTCTTCCEEECTTSCCE
T ss_pred             cccccccccCccCEEECCCCcccccccc------ccccCCCCEEEccCCcc-cccc--chhhhhcCCCCCEEeCcCCccc
Confidence              23366677777777775556554431      33467777777777542 2211  0134566777777777777665


Q ss_pred             ccccCCccccCCccEEeeccccCc-ccccchhhhcccccccEEEecCcc
Q 000945          896 INLVPSSASFKNLTTLELWYCQRL-MNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       896 ~~lp~~~~~l~~L~~L~l~~c~~l-~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      ...|..+..+++|+.|++++|.-. ..+|  ..+..+++|+.|++++|.
T Consensus       435 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~p--~~~~~l~~L~~L~l~~n~  481 (570)
T 2z63_A          435 VAFNGIFNGLSSLEVLKMAGNSFQENFLP--DIFTELRNLTFLDLSQCQ  481 (570)
T ss_dssp             ECCTTTTTTCTTCCEEECTTCEEGGGEEC--SCCTTCTTCCEEECTTSC
T ss_pred             ccchhhhhcCCcCcEEECcCCcCccccch--hhhhcccCCCEEECCCCc
Confidence            556666677777777777776422 1343  445667777777777775

>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=99.95  E-value=2.5e-27  Score=289.27  Aligned_cols=495  Identities=16%  Similarity=0.173  Sum_probs=281.5

Q ss_pred             eeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhcCC
Q 000945          269 ILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLS  348 (1212)
Q Consensus       269 ~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~l~  348 (1212)
                      +.+.+++.++.+|..+.  .+|++|++++| .+..+++..+.++.+|++|++++|.+.           ...+..+..+.
T Consensus         9 ~c~~~~~~l~~ip~~~~--~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~Ls~n~i~-----------~~~~~~~~~l~   74 (549)
T 2z81_A            9 VCDGRSRSFTSIPSGLT--AAMKSLDLSFN-KITYIGHGDLRACANLQVLILKSSRIN-----------TIEGDAFYSLG   74 (549)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCCEEECCSS-CCCEECSSTTSSCTTCCEEECTTSCCC-----------EECTTTTTTCT
T ss_pred             eEECCCCccccccccCC--CCccEEECcCC-ccCccChhhhhcCCcccEEECCCCCcC-----------ccChhhccccc
Confidence            35677778888887664  67888888888 687776555888888888888888775           22335566777


Q ss_pred             CCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCCcccc
Q 000945          349 HLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIKNV  428 (1212)
Q Consensus       349 ~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~~~~~  428 (1212)
                      +|++|+++.|.+..++...                                                             
T Consensus        75 ~L~~L~Ls~n~l~~~~~~~-------------------------------------------------------------   93 (549)
T 2z81_A           75 SLEHLDLSDNHLSSLSSSW-------------------------------------------------------------   93 (549)
T ss_dssp             TCCEEECTTSCCCSCCHHH-------------------------------------------------------------
T ss_pred             cCCEEECCCCccCccCHHH-------------------------------------------------------------
Confidence            7777777766554333210                                                             


Q ss_pred             cccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCCCCC
Q 000945          429 LYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLK  508 (1212)
Q Consensus       429 ~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~  508 (1212)
                         +  ..+++|++|++++|.. ..+                              ..+..++.+++|++|++++|..+.
T Consensus        94 ---~--~~l~~L~~L~Ls~n~l-~~~------------------------------~~~~~~~~l~~L~~L~L~~n~~~~  137 (549)
T 2z81_A           94 ---F--GPLSSLKYLNLMGNPY-QTL------------------------------GVTSLFPNLTNLQTLRIGNVETFS  137 (549)
T ss_dssp             ---H--TTCTTCCEEECTTCCC-SSS------------------------------CSSCSCTTCTTCCEEEEEESSSCC
T ss_pred             ---h--ccCCCCcEEECCCCcc-ccc------------------------------chhhhhhccCCccEEECCCCcccc
Confidence               0  1455666666665521 100                              012234566777777777765556


Q ss_pred             ccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccccccccccchhhHhhhcc
Q 000945          509 NIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKE  588 (1212)
Q Consensus       509 ~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~l~~  588 (1212)
                      .+++ ..+.++++|++|++++|..-...|.            .+..+++|++|++.+... ..++..             
T Consensus       138 ~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~------------~l~~l~~L~~L~l~~n~~-~~~~~~-------------  190 (549)
T 2z81_A          138 EIRR-IDFAGLTSLNELEIKALSLRNYQSQ------------SLKSIRDIHHLTLHLSES-AFLLEI-------------  190 (549)
T ss_dssp             EECT-TTTTTCCEEEEEEEEETTCCEECTT------------TTTTCSEEEEEEEECSBS-TTHHHH-------------
T ss_pred             ccCH-hhhhcccccCeeeccCCcccccChh------------hhhccccCceEecccCcc-cccchh-------------
Confidence            6543 3456677777777777653222332            445566666666654321 110000             


Q ss_pred             cccccCCcceecccccccccccccccccccccceeeccccccceecccCcc-cccCcCccEEEEecCCCccccCch---h
Q 000945          589 LSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLA-AVYSQNLTRLIVHGCEKLKYLFPS---S  664 (1212)
Q Consensus       589 L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~-~~~l~~L~~L~L~~c~~l~~l~~~---~  664 (1212)
                                              ....+++|+.|++++|.+........+ ...+++|+.|+++++. +....+.   .
T Consensus       191 ------------------------~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~l~~  245 (549)
T 2z81_A          191 ------------------------FADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSV-LTDESFNELLK  245 (549)
T ss_dssp             ------------------------HHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCE-EEHHHHHHHHG
T ss_pred             ------------------------hHhhcccccEEEccCCccccccccccchhhhhhcccceeccccc-cchhHHHHHHH
Confidence                                    001246677777777754432110000 0135666777766652 2211111   0


Q ss_pred             hhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccc
Q 000945          665 MIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIF  744 (1212)
Q Consensus       665 ~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l  744 (1212)
                      .+..+++|+.|++++|. +..+..            ++   .+.            ......+++|+.|.+.++. +...
T Consensus       246 ~~~~~~~L~~l~l~~~~-~~~~~~------------~~---~~~------------~~~~~~l~~L~~L~l~~~~-i~~~  296 (549)
T 2z81_A          246 LLRYILELSEVEFDDCT-LNGLGD------------FN---PSE------------SDVVSELGKVETVTIRRLH-IPQF  296 (549)
T ss_dssp             GGGGCTTCCEEEEESCE-EECCSC------------CC---CCT------------TTCCCCCTTCCEEEEESCB-CSCG
T ss_pred             Hhhhhcccccccccccc-cccccc------------cc---ccc------------hhhhhhhcccccccccccc-cchh
Confidence            12445566666666664 111100            00   000            0001134455555555542 1110


Q ss_pred             cccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhc
Q 000945          745 TSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERF  824 (1212)
Q Consensus       745 p~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l  824 (1212)
                      .       .                    .          .++..+      ...+.+|+.|++++|.+..+|.+++..+
T Consensus       297 ~-------~--------------------~----------~~l~~~------~~~~~~L~~L~l~~n~l~~ip~~~~~~l  333 (549)
T 2z81_A          297 Y-------L--------------------F----------YDLSTV------YSLLEKVKRITVENSKVFLVPCSFSQHL  333 (549)
T ss_dssp             G-------G--------------------S----------CCCCHH------HHHSTTCCEEEEESSCCCCCCHHHHHHC
T ss_pred             h-------h--------------------c----------ccchhh------hhhcccceEEEeccCccccCCHHHHhcC
Confidence            0       0                    0          000000      1123567777777777777777766777


Q ss_pred             CccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccc
Q 000945          825 HNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSAS  904 (1212)
Q Consensus       825 ~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~  904 (1212)
                      ++|+.|+++.|.+.+..+..  ...++.+++|+.|++++|. +..++.. ...+..+++|++|++++| .++.+|..+..
T Consensus       334 ~~L~~L~Ls~N~l~~~~~~~--~~~~~~l~~L~~L~Ls~N~-l~~~~~~-~~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~  408 (549)
T 2z81_A          334 KSLEFLDLSENLMVEEYLKN--SACKGAWPSLQTLVLSQNH-LRSMQKT-GEILLTLKNLTSLDISRN-TFHPMPDSCQW  408 (549)
T ss_dssp             TTCCEEECCSSCCCHHHHHH--HTCTTSSTTCCEEECTTSC-CCCHHHH-HHHGGGCTTCCEEECTTC-CCCCCCSCCCC
T ss_pred             ccccEEEccCCccccccccc--hhhhhccccCcEEEccCCc-ccccccc-hhhhhcCCCCCEEECCCC-CCccCChhhcc
Confidence            88888888855555432110  0123346778888887764 4333210 022566788888888876 55577777777


Q ss_pred             cCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCc
Q 000945          905 FKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNY  984 (1212)
Q Consensus       905 l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~  984 (1212)
                      +++|++|++++| .++.++.. .   .++|+.|++++|. +..++          ..+++|+.|+++++ .++.+|... 
T Consensus       409 ~~~L~~L~Ls~N-~l~~l~~~-~---~~~L~~L~Ls~N~-l~~~~----------~~l~~L~~L~Ls~N-~l~~ip~~~-  470 (549)
T 2z81_A          409 PEKMRFLNLSST-GIRVVKTC-I---PQTLEVLDVSNNN-LDSFS----------LFLPRLQELYISRN-KLKTLPDAS-  470 (549)
T ss_dssp             CTTCCEEECTTS-CCSCCCTT-S---CTTCSEEECCSSC-CSCCC----------CCCTTCCEEECCSS-CCSSCCCGG-
T ss_pred             cccccEEECCCC-Ccccccch-h---cCCceEEECCCCC-hhhhc----------ccCChhcEEECCCC-ccCcCCCcc-
Confidence            788888888886 46666421 1   2568888888875 44333          23678888888887 567777632 


Q ss_pred             eeecCCccEEEeccCCCccccC-cCCcCCCccceEEeccCc
Q 000945          985 TLKFPSLEDLFVIECPKMKIFS-HRVLSTPRLREVRQNWGL 1024 (1212)
Q Consensus       985 ~~~~~sL~~L~i~~C~~l~~lp-~~~~~~~~L~~l~~~~~~ 1024 (1212)
                        .+++|++|++++|. +..+| ..+..+++|+.+++++|.
T Consensus       471 --~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~l~~N~  508 (549)
T 2z81_A          471 --LFPVLLVMKISRNQ-LKSVPDGIFDRLTSLQKIWLHTNP  508 (549)
T ss_dssp             --GCTTCCEEECCSSC-CCCCCTTGGGGCTTCCEEECCSSC
T ss_pred             --cCccCCEEecCCCc-cCCcCHHHHhcCcccCEEEecCCC
Confidence              35889999998875 44554 446778889999988776

>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=99.95  E-value=7.2e-27  Score=285.27  Aligned_cols=180  Identities=16%  Similarity=0.176  Sum_probs=128.9

Q ss_pred             cceeeeccCCccccc-cHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhh
Q 000945          266 KLEILSLVDSNIEQL-PEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL  344 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L  344 (1212)
                      .+++|++++|.+..+ |..++.+.+|++|++++| .+..++++.+.++.+|++|++++|.+.           ...+..+
T Consensus        27 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~Ls~n~l~-----------~~~~~~~   94 (549)
T 2z81_A           27 AMKSLDLSFNKITYIGHGDLRACANLQVLILKSS-RINTIEGDAFYSLGSLEHLDLSDNHLS-----------SLSSSWF   94 (549)
T ss_dssp             TCCEEECCSSCCCEECSSTTSSCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTSCCC-----------SCCHHHH
T ss_pred             CccEEECcCCccCccChhhhhcCCcccEEECCCC-CcCccChhhccccccCCEEECCCCccC-----------ccCHHHh
Confidence            799999999999988 678999999999999999 898888777999999999999999885           3344558


Q ss_pred             hcCCCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCC
Q 000945          345 KLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPG  424 (1212)
Q Consensus       345 ~~l~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~  424 (1212)
                      ..+.+|++|+++.|.+..++..                                                          
T Consensus        95 ~~l~~L~~L~Ls~n~l~~~~~~----------------------------------------------------------  116 (549)
T 2z81_A           95 GPLSSLKYLNLMGNPYQTLGVT----------------------------------------------------------  116 (549)
T ss_dssp             TTCTTCCEEECTTCCCSSSCSS----------------------------------------------------------
T ss_pred             ccCCCCcEEECCCCcccccchh----------------------------------------------------------
Confidence            8999999999998876532210                                                          


Q ss_pred             cccccccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecC
Q 000945          425 IKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNC  504 (1212)
Q Consensus       425 ~~~~~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c  504 (1212)
                           ..+  ..+++|++|++.+|..+..++..    ....+++|+.|+++++. +..  ..|..++.+++|++|+++++
T Consensus       117 -----~~~--~~l~~L~~L~L~~n~~~~~~~~~----~~~~l~~L~~L~L~~n~-l~~--~~~~~l~~l~~L~~L~l~~n  182 (549)
T 2z81_A          117 -----SLF--PNLTNLQTLRIGNVETFSEIRRI----DFAGLTSLNELEIKALS-LRN--YQSQSLKSIRDIHHLTLHLS  182 (549)
T ss_dssp             -----CSC--TTCTTCCEEEEEESSSCCEECTT----TTTTCCEEEEEEEEETT-CCE--ECTTTTTTCSEEEEEEEECS
T ss_pred             -----hhh--hccCCccEEECCCCccccccCHh----hhhcccccCeeeccCCc-ccc--cChhhhhccccCceEecccC
Confidence                 001  14667778888777544444321    13456677777777663 221  23555677778888888774


Q ss_pred             CCCCccCchhhhccCCCccEEEEccCc
Q 000945          505 DKLKNIFSFSFVRGLPQLQTLNVINCK  531 (1212)
Q Consensus       505 ~~l~~l~~~~~~~~L~~L~~L~l~~c~  531 (1212)
                       .+..++. ..+..+++|++|+++++.
T Consensus       183 -~~~~~~~-~~~~~l~~L~~L~L~~n~  207 (549)
T 2z81_A          183 -ESAFLLE-IFADILSSVRYLELRDTN  207 (549)
T ss_dssp             -BSTTHHH-HHHHSTTTBSEEEEESCB
T ss_pred             -cccccch-hhHhhcccccEEEccCCc
Confidence             3444432 234567888888888765

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.94  E-value=1.1e-26  Score=286.02  Aligned_cols=163  Identities=15%  Similarity=0.179  Sum_probs=102.0

Q ss_pred             ccCCcc--ccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcc--hhhcccccCCccCCccCceec------
Q 000945          486 GQLRAE--SFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMK--EIFTVGRENDVDCHEVDKIEF------  555 (1212)
Q Consensus       486 ~~~~~~--~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~--~l~~~~~~~~~~~~~~~l~~l------  555 (1212)
                      .|..++  .+++|++|+|++|.....+|  ..+.++++|++|++++|..+.  .+|.            .+..+      
T Consensus       239 ip~~l~~~~l~~L~~L~L~~n~l~~~~p--~~l~~l~~L~~L~Ls~n~~l~~~~lp~------------~~~~L~~~~~l  304 (636)
T 4eco_A          239 KTEDLKWDNLKDLTDVEVYNCPNLTKLP--TFLKALPEMQLINVACNRGISGEQLKD------------DWQALADAPVG  304 (636)
T ss_dssp             TTSCCCGGGCTTCCEEEEECCTTCSSCC--TTTTTCSSCCEEECTTCTTSCHHHHHH------------HHHHHHHSGGG
T ss_pred             CchhhhhcccCCCCEEEecCCcCCccCh--HHHhcCCCCCEEECcCCCCCccccchH------------HHHhhhccccC
Confidence            466777  89999999999986666676  567889999999999987444  4665            44444      


Q ss_pred             ccccEEecccCCcccccccccccchhhHhhhcccccccCCcceecccccccccccccccccccccceeeccccccc-eec
Q 000945          556 SQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTE-KIW  634 (1212)
Q Consensus       556 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~-~~~  634 (1212)
                      ++|+.|+++++.- ..++.                                    ...+..+++|+.|++++|.+. .+.
T Consensus       305 ~~L~~L~L~~n~l-~~ip~------------------------------------~~~l~~l~~L~~L~L~~N~l~g~ip  347 (636)
T 4eco_A          305 EKIQIIYIGYNNL-KTFPV------------------------------------ETSLQKMKKLGMLECLYNQLEGKLP  347 (636)
T ss_dssp             GTCCEEECCSSCC-SSCCC------------------------------------HHHHTTCTTCCEEECCSCCCEEECC
T ss_pred             CCCCEEECCCCcC-CccCc------------------------------------hhhhccCCCCCEEeCcCCcCccchh
Confidence            7777877776532 12211                                    002234577777777777665 333


Q ss_pred             ccCcccccCcCccEEEEecCCCccccCchhhhhccCC-CcEEEeccccccceeecccccccccccccCCccceeecccCC
Q 000945          635 CNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQ-LEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLS  713 (1212)
Q Consensus       635 ~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~-L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~  713 (1212)
                        .+  ..+++|+.|++++| .+..+|..  ++.+++ |++|++++|. +..++.. +     ....+++|+.|+++++.
T Consensus       348 --~~--~~l~~L~~L~L~~N-~l~~lp~~--l~~l~~~L~~L~Ls~N~-l~~lp~~-~-----~~~~l~~L~~L~Ls~N~  413 (636)
T 4eco_A          348 --AF--GSEIKLASLNLAYN-QITEIPAN--FCGFTEQVENLSFAHNK-LKYIPNI-F-----DAKSVSVMSAIDFSYNE  413 (636)
T ss_dssp             --CC--EEEEEESEEECCSS-EEEECCTT--SEEECTTCCEEECCSSC-CSSCCSC-C-----CTTCSSCEEEEECCSSC
T ss_pred             --hh--CCCCCCCEEECCCC-ccccccHh--hhhhcccCcEEEccCCc-Ccccchh-h-----hhcccCccCEEECcCCc
Confidence              22  24677777777775 45555543  567777 7777777776 4444321 0     11123456666666553

>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=99.94  E-value=2.2e-26  Score=278.58  Aligned_cols=154  Identities=12%  Similarity=0.075  Sum_probs=112.5

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccch--HHHhhcCccceeEEEccceeE-eccccchhhcc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRI--GFLERFHNLEKLELRWSSYKE-IFSNEEIVEHA  850 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~--~~l~~l~~L~~L~l~c~~l~~-~~~~~~~~~~~  850 (1212)
                      +++|++|++++|.+.+..+  .....+++|++|++++|.+..++.  ..+..+++|+.|+++.|.+.. ++..     .+
T Consensus       323 l~~L~~L~Ls~n~l~~~~~--~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~-----~~  395 (520)
T 2z7x_B          323 ISPFLHLDFSNNLLTDTVF--ENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKG-----DC  395 (520)
T ss_dssp             CCCCCEEECCSSCCCTTTT--TTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGC-----SC
T ss_pred             CCcccEEEeECCccChhhh--hhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccc-----hh
Confidence            5677777777777776443  234567888888888887776543  347888899999998777766 4321     23


Q ss_pred             ccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcc
Q 000945          851 EMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKS  930 (1212)
Q Consensus       851 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~  930 (1212)
                      ..+++|+.|++++|.--..+    +..+.  ++|+.|++++| .++.+|..+..+++|+.|++++| .++.+|.. .+..
T Consensus       396 ~~l~~L~~L~Ls~N~l~~~~----~~~l~--~~L~~L~Ls~N-~l~~ip~~~~~l~~L~~L~L~~N-~l~~l~~~-~~~~  466 (520)
T 2z7x_B          396 SWTKSLLSLNMSSNILTDTI----FRCLP--PRIKVLDLHSN-KIKSIPKQVVKLEALQELNVASN-QLKSVPDG-IFDR  466 (520)
T ss_dssp             CCCTTCCEEECCSSCCCGGG----GGSCC--TTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSS-CCCCCCTT-TTTT
T ss_pred             ccCccCCEEECcCCCCCcch----hhhhc--ccCCEEECCCC-cccccchhhhcCCCCCEEECCCC-cCCccCHH-Hhcc
Confidence            34788999999887633333    22221  78999999987 45688888889999999999996 78888743 4678


Q ss_pred             cccccEEEecCcc
Q 000945          931 LVCLTKLRIDGCR  943 (1212)
Q Consensus       931 l~~L~~L~i~~c~  943 (1212)
                      +++|+.|++++|+
T Consensus       467 l~~L~~L~l~~N~  479 (520)
T 2z7x_B          467 LTSLQKIWLHTNP  479 (520)
T ss_dssp             CTTCCEEECCSSC
T ss_pred             CCcccEEECcCCC
Confidence            8999999999887

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.94  E-value=1.2e-25  Score=279.92  Aligned_cols=361  Identities=13%  Similarity=0.075  Sum_probs=231.3

Q ss_pred             CCccCchhhhccCCCccEEEEccCcCcch------------------hhcccccCCccCCccCce--ecccccEEecccC
Q 000945          507 LKNIFSFSFVRGLPQLQTLNVINCKNMKE------------------IFTVGRENDVDCHEVDKI--EFSQLHSLTLKFL  566 (1212)
Q Consensus       507 l~~l~~~~~~~~L~~L~~L~l~~c~~l~~------------------l~~~~~~~~~~~~~~~l~--~l~~L~~L~l~~~  566 (1212)
                      ++.+|  ..++++++|++|+++++. +..                  +|.            .+.  .+++|+.|+|+++
T Consensus       437 L~~IP--~~l~~L~~L~~L~Ls~N~-Lsg~~i~~~~~~~s~n~~~g~iP~------------~l~f~~L~~L~~L~Ls~N  501 (876)
T 4ecn_A          437 ITFIS--KAIQRLTKLQIIYFANSP-FTYDNIAVDWEDANSDYAKQYENE------------ELSWSNLKDLTDVELYNC  501 (876)
T ss_dssp             EEEEC--GGGGGCTTCCEEEEESCC-CCGGGBSSSCSCTTSHHHHHHTTS------------CCCGGGCTTCCEEEEESC
T ss_pred             ccchh--HHHhcCCCCCEEECcCCc-CCCCcccccccccccccccccCCh------------hhhhccCCCCCEEECcCC
Confidence            33455  346777888888888766 444                  554            444  7777888887776


Q ss_pred             CcccccccccccchhhHhhhcccccccCCcceecccccccccccccccccccccceeeccccc-cce--ecccC--c--c
Q 000945          567 PQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAIS-TEK--IWCNQ--L--A  639 (1212)
Q Consensus       567 ~~l~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~-l~~--~~~~~--~--~  639 (1212)
                      .....++                                      ..+..+++|+.|+|++|. +..  ++...  +  .
T Consensus       502 ~l~~~iP--------------------------------------~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~  543 (876)
T 4ecn_A          502 PNMTQLP--------------------------------------DFLYDLPELQSLNIACNRGISAAQLKADWTRLADD  543 (876)
T ss_dssp             TTCCSCC--------------------------------------GGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHC
T ss_pred             CCCccCh--------------------------------------HHHhCCCCCCEEECcCCCCcccccchHHHHhhhhc
Confidence            5333322                                      223456778888888875 543  21100  0  0


Q ss_pred             cccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceec
Q 000945          640 AVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFY  719 (1212)
Q Consensus       640 ~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~  719 (1212)
                      ...+++|+.|+|++| .+..+|....++++++|++|++++|. +..++         ....+++|+.|+++++. +..++
T Consensus       544 ~~~l~~L~~L~Ls~N-~L~~ip~~~~l~~L~~L~~L~Ls~N~-l~~lp---------~~~~L~~L~~L~Ls~N~-l~~lp  611 (876)
T 4ecn_A          544 EDTGPKIQIFYMGYN-NLEEFPASASLQKMVKLGLLDCVHNK-VRHLE---------AFGTNVKLTDLKLDYNQ-IEEIP  611 (876)
T ss_dssp             TTTTTTCCEEECCSS-CCCBCCCHHHHTTCTTCCEEECTTSC-CCBCC---------CCCTTSEESEEECCSSC-CSCCC
T ss_pred             ccccCCccEEEeeCC-cCCccCChhhhhcCCCCCEEECCCCC-cccch---------hhcCCCcceEEECcCCc-cccch
Confidence            024568888888886 45566652236788888888888886 44553         23347888888888775 33444


Q ss_pred             cCCCcCCCCC-ccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccC---
Q 000945          720 PGTHTSKWPM-LKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQF---  795 (1212)
Q Consensus       720 ~~~~~~~~~~-L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~---  795 (1212)
                      ..  ...+++ |+.|++++|. +..+|....   .                  ...++|+.|++++|.+.+..+...   
T Consensus       612 ~~--l~~l~~~L~~L~Ls~N~-L~~lp~~~~---~------------------~~~~~L~~L~Ls~N~l~g~ip~l~~~l  667 (876)
T 4ecn_A          612 ED--FCAFTDQVEGLGFSHNK-LKYIPNIFN---A------------------KSVYVMGSVDFSYNKIGSEGRNISCSM  667 (876)
T ss_dssp             TT--SCEECTTCCEEECCSSC-CCSCCSCCC---T------------------TCSSCEEEEECCSSCTTTTSSSCSSCT
T ss_pred             HH--HhhccccCCEEECcCCC-CCcCchhhh---c------------------cccCCCCEEECcCCcCCCccccchhhh
Confidence            33  235677 8999998874 555542110   0                  013459999999988876543211   


Q ss_pred             cccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccch--hhccccccccceEeeCCCccchhhhcc
Q 000945          796 PKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEI--VEHAEMLTQVKSLKLWELSDLMYIWKQ  873 (1212)
Q Consensus       796 ~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~--~~~~~~l~~L~~L~l~~c~~l~~l~~~  873 (1212)
                      ....+++|+.|++++|.+..+|...+..+++|+.|+|+.|.++.++.....  .....++++|+.|+|++|. +..+   
T Consensus       668 ~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~-L~~l---  743 (876)
T 4ecn_A          668 DDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNK-LTSL---  743 (876)
T ss_dssp             TTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCSSC-CCCC---
T ss_pred             ccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCCcCCccChHHhccccccccccCCccEEECCCCC-Cccc---
Confidence            111345899999999999999998888899999999997788766542210  0001223488888888873 4444   


Q ss_pred             CCCCcc--ccCcccEEEEecCCCcccccCCccccCCccEEeeccc------cCcccccchhhhcccccccEEEecCcchh
Q 000945          874 DSKLDS--ITENLESLEVWWCENLINLVPSSASFKNLTTLELWYC------QRLMNLVTSSTAKSLVCLTKLRIDGCRML  945 (1212)
Q Consensus       874 ~~~~~~--~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c------~~l~~l~~~~~~~~l~~L~~L~i~~c~~l  945 (1212)
                       |..+.  .+++|+.|++++|.. +.+|..+..+++|+.|++++|      .-...+|  ..+..+++|+.|++++|. +
T Consensus       744 -p~~l~~~~l~~L~~L~Ls~N~L-~~lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip--~~l~~L~~L~~L~Ls~N~-L  818 (876)
T 4ecn_A          744 -SDDFRATTLPYLSNMDVSYNCF-SSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWP--TGITTCPSLIQLQIGSND-I  818 (876)
T ss_dssp             -CGGGSTTTCTTCCEEECCSSCC-SSCCCGGGGCTTCCEEECCCCBCTTCCBCCCCCC--TTGGGCSSCCEEECCSSC-C
T ss_pred             -hHHhhhccCCCcCEEEeCCCCC-CccchhhhcCCCCCEEECCCCCCcccccccccCh--HHHhcCCCCCEEECCCCC-C
Confidence             45554  788888888888644 447877888888888888763      2233443  445677888888888877 3


Q ss_pred             hHhhccCccccccceeccchhhhhhccCC
Q 000945          946 TEIISKEEDVAEDEIVFSKLKWVSLERLE  974 (1212)
Q Consensus       946 ~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  974 (1212)
                      ..+|..         ..++|+.|++++|+
T Consensus       819 ~~Ip~~---------l~~~L~~LdLs~N~  838 (876)
T 4ecn_A          819 RKVDEK---------LTPQLYILDIADNP  838 (876)
T ss_dssp             CBCCSC---------CCSSSCEEECCSCT
T ss_pred             CccCHh---------hcCCCCEEECCCCC
Confidence            666521         23677777777775

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.93  E-value=2.3e-25  Score=274.20  Aligned_cols=210  Identities=13%  Similarity=0.081  Sum_probs=124.1

Q ss_pred             ccceeeeeccccccccccccCc-----ccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccch--h
Q 000945          775 SKLEELKLSGKDIAMICQSQFP-----KHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEI--V  847 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~-----~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~--~  847 (1212)
                      ++|+.|++++|.+.+..+..+.     ...+++|++|++++|.+..+|...+..+++|+.|+++.|.++.++.....  .
T Consensus       402 ~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~  481 (636)
T 4eco_A          402 SVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDEN  481 (636)
T ss_dssp             SCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSSCCSBCCSSSSEETT
T ss_pred             CccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCCCCCCcCHHHhcccc
Confidence            4677777777777665432221     01455778888888777788877777778888888886667655432110  0


Q ss_pred             hccccccccceEeeCCCccchhhhccCCCCcc--ccCcccEEEEecCCCcccccCCccccCCccEEeecc------ccCc
Q 000945          848 EHAEMLTQVKSLKLWELSDLMYIWKQDSKLDS--ITENLESLEVWWCENLINLVPSSASFKNLTTLELWY------CQRL  919 (1212)
Q Consensus       848 ~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~--~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~------c~~l  919 (1212)
                      ..+..+++|+.|++++|. +..+    |..+.  .+++|+.|++++|... .+|..+..+++|+.|++++      |.-.
T Consensus       482 ~~~~~l~~L~~L~Ls~N~-l~~l----p~~~~~~~l~~L~~L~Ls~N~l~-~ip~~~~~l~~L~~L~Ls~N~~ls~N~l~  555 (636)
T 4eco_A          482 ENFKNTYLLTSIDLRFNK-LTKL----SDDFRATTLPYLVGIDLSYNSFS-KFPTQPLNSSTLKGFGIRNQRDAQGNRTL  555 (636)
T ss_dssp             EECTTGGGCCEEECCSSC-CCBC----CGGGSTTTCTTCCEEECCSSCCS-SCCCGGGGCSSCCEEECCSCBCTTCCBCC
T ss_pred             ccccccCCccEEECcCCc-CCcc----ChhhhhccCCCcCEEECCCCCCC-CcChhhhcCCCCCEEECCCCcccccCccc
Confidence            001122377888887764 3444    44454  7777888888876544 3777777778888888754      3223


Q ss_pred             ccccchhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCc-e------eecCCcc
Q 000945          920 MNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNY-T------LKFPSLE  992 (1212)
Q Consensus       920 ~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~-~------~~~~sL~  992 (1212)
                      ..+|  ..+..+++|+.|++++|. +..+|..         ..++|+.|++++++ +.+++.... +      ..+...+
T Consensus       556 ~~~p--~~l~~l~~L~~L~Ls~N~-l~~ip~~---------~~~~L~~L~Ls~N~-l~~~~~~~~~~~~~~~~~~l~~~~  622 (636)
T 4eco_A          556 REWP--EGITLCPSLTQLQIGSND-IRKVNEK---------ITPNISVLDIKDNP-NISIDLSYVCPYIEAGMYMLFYDK  622 (636)
T ss_dssp             CCCC--TTGGGCSSCCEEECCSSC-CCBCCSC---------CCTTCCEEECCSCT-TCEEECTTTHHHHHTTCCEEECCT
T ss_pred             ccCh--HHHhcCCCCCEEECCCCc-CCccCHh---------HhCcCCEEECcCCC-CccccHHhcchhhhcccceeecCC
Confidence            3444  445667777777777776 3555521         23677777777774 333332111 0      0112334


Q ss_pred             EEEeccCCCcc
Q 000945          993 DLFVIECPKMK 1003 (1212)
Q Consensus       993 ~L~i~~C~~l~ 1003 (1212)
                      ..+|++|+.++
T Consensus       623 ~~~i~~C~~L~  633 (636)
T 4eco_A          623 TQDIRGCDALD  633 (636)
T ss_dssp             TSEEESCGGGC
T ss_pred             ccccCCCcccc
Confidence            45677777654

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.93  E-value=8.6e-25  Score=272.32  Aligned_cols=359  Identities=14%  Similarity=0.089  Sum_probs=253.3

Q ss_pred             ccCCccccCCccEEEEecCCCCCc------------------cCchhhhc--cCCCccEEEEccCcCcchhhcccccCCc
Q 000945          486 GQLRAESFYKLKIIKVRNCDKLKN------------------IFSFSFVR--GLPQLQTLNVINCKNMKEIFTVGRENDV  545 (1212)
Q Consensus       486 ~~~~~~~l~~L~~L~L~~c~~l~~------------------l~~~~~~~--~L~~L~~L~l~~c~~l~~l~~~~~~~~~  545 (1212)
                      .|..++.+++|++|+|+++ .+..                  +|.  .++  ++++|++|++++|.....+|.       
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~-------  509 (876)
T 4ecn_A          440 ISKAIQRLTKLQIIYFANS-PFTYDNIAVDWEDANSDYAKQYENE--ELSWSNLKDLTDVELYNCPNMTQLPD-------  509 (876)
T ss_dssp             ECGGGGGCTTCCEEEEESC-CCCGGGBSSSCSCTTSHHHHHHTTS--CCCGGGCTTCCEEEEESCTTCCSCCG-------
T ss_pred             hhHHHhcCCCCCEEECcCC-cCCCCcccccccccccccccccCCh--hhhhccCCCCCEEECcCCCCCccChH-------
Confidence            4778899999999999995 5777                  763  345  999999999999987778876       


Q ss_pred             cCCccCceecccccEEecccCCcccc--cccccccchhhHhhhcccccccCCcceeccccccccccccccccccccccee
Q 000945          546 DCHEVDKIEFSQLHSLTLKFLPQLTS--FYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETL  623 (1212)
Q Consensus       546 ~~~~~~l~~l~~L~~L~l~~~~~l~~--~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L  623 (1212)
                           .+..+++|+.|+++++..+..  ++...       ..+.                        ..+..+++|+.|
T Consensus       510 -----~l~~L~~L~~L~Ls~N~~lsg~~iP~~i-------~~L~------------------------~~~~~l~~L~~L  553 (876)
T 4ecn_A          510 -----FLYDLPELQSLNIACNRGISAAQLKADW-------TRLA------------------------DDEDTGPKIQIF  553 (876)
T ss_dssp             -----GGGGCSSCCEEECTTCTTSCHHHHHHHH-------HHHH------------------------HCTTTTTTCCEE
T ss_pred             -----HHhCCCCCCEEECcCCCCcccccchHHH-------Hhhh------------------------hcccccCCccEE
Confidence                 788999999999999874543  33211       0000                        012345789999


Q ss_pred             eccccccceecc-cCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCC
Q 000945          624 ELCAISTEKIWC-NQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFP  702 (1212)
Q Consensus       624 ~l~~~~l~~~~~-~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~  702 (1212)
                      ++++|.+..++. ..+  ..+++|+.|+|++| .+..+|.   ++.+++|+.|++++|. +..++.        ....++
T Consensus       554 ~Ls~N~L~~ip~~~~l--~~L~~L~~L~Ls~N-~l~~lp~---~~~L~~L~~L~Ls~N~-l~~lp~--------~l~~l~  618 (876)
T 4ecn_A          554 YMGYNNLEEFPASASL--QKMVKLGLLDCVHN-KVRHLEA---FGTNVKLTDLKLDYNQ-IEEIPE--------DFCAFT  618 (876)
T ss_dssp             ECCSSCCCBCCCHHHH--TTCTTCCEEECTTS-CCCBCCC---CCTTSEESEEECCSSC-CSCCCT--------TSCEEC
T ss_pred             EeeCCcCCccCChhhh--hcCCCCCEEECCCC-Ccccchh---hcCCCcceEEECcCCc-cccchH--------HHhhcc
Confidence            999997765543 112  25888999999886 4556662   6888999999998887 555532        244577


Q ss_pred             c-cceeecccCCccceeccCCCcCCCCCccEEEEecCCCccccccccc-chhhccCCCCCCccccceeeeeeecccceee
Q 000945          703 K-VTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFL-RFQEINEGQFDIPTQQALFLVEKVTSKLEEL  780 (1212)
Q Consensus       703 ~-L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~-~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L  780 (1212)
                      + |+.|+++++. +..++........++|+.|++++|.--..+| ..+ .+..                  ..+++|+.|
T Consensus       619 ~~L~~L~Ls~N~-L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip-~l~~~l~~------------------~~~~~L~~L  678 (876)
T 4ecn_A          619 DQVEGLGFSHNK-LKYIPNIFNAKSVYVMGSVDFSYNKIGSEGR-NISCSMDD------------------YKGINASTV  678 (876)
T ss_dssp             TTCCEEECCSSC-CCSCCSCCCTTCSSCEEEEECCSSCTTTTSS-SCSSCTTT------------------CCCCCEEEE
T ss_pred             ccCCEEECcCCC-CCcCchhhhccccCCCCEEECcCCcCCCccc-cchhhhcc------------------ccCCCcCEE
Confidence            7 9999998875 4455533222233458999999874322221 111 0000                  014689999


Q ss_pred             eeccccccccccccCcccccccceEeEeecCCccccchHHHhh-------cCccceeEEEccceeEeccccchhhccc--
Q 000945          781 KLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLER-------FHNLEKLELRWSSYKEIFSNEEIVEHAE--  851 (1212)
Q Consensus       781 ~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~-------l~~L~~L~l~c~~l~~~~~~~~~~~~~~--  851 (1212)
                      ++++|.+..++..  ....+++|+.|++++|.+..+|.+.+..       +++|+.|+|+.|.++.++.      .+.  
T Consensus       679 ~Ls~N~L~~lp~~--~~~~l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~------~l~~~  750 (876)
T 4ecn_A          679 TLSYNEIQKFPTE--LFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSD------DFRAT  750 (876)
T ss_dssp             ECCSSCCCSCCHH--HHHTTCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCSSCCCCCCG------GGSTT
T ss_pred             EccCCcCCccCHH--HHccCCCCCEEECCCCcCCccChHHhccccccccccCCccEEECCCCCCccchH------Hhhhc
Confidence            9999988866431  1235788999999998888888876543       3489999999777876553      222  


Q ss_pred             cccccceEeeCCCccchhhhccCCCCccccCcccEEEEec------CCCcccccCCccccCCccEEeeccccCcccccch
Q 000945          852 MLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWW------CENLINLVPSSASFKNLTTLELWYCQRLMNLVTS  925 (1212)
Q Consensus       852 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~------c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~  925 (1212)
                      .+++|+.|+|++|. +..+    |..+..+++|+.|++++      |...+.+|..+..+++|+.|++++| .+..+|..
T Consensus       751 ~l~~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~~  824 (876)
T 4ecn_A          751 TLPYLSNMDVSYNC-FSSF----PTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSN-DIRKVDEK  824 (876)
T ss_dssp             TCTTCCEEECCSSC-CSSC----CCGGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSS-CCCBCCSC
T ss_pred             cCCCcCEEEeCCCC-CCcc----chhhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCCC-CCCccCHh
Confidence            47899999998864 4444    66778899999999976      5556778888888999999999997 56888743


Q ss_pred             hhhcccccccEEEecCcc
Q 000945          926 STAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       926 ~~~~~l~~L~~L~i~~c~  943 (1212)
                       +   .++|+.|++++|+
T Consensus       825 -l---~~~L~~LdLs~N~  838 (876)
T 4ecn_A          825 -L---TPQLYILDIADNP  838 (876)
T ss_dssp             -C---CSSSCEEECCSCT
T ss_pred             -h---cCCCCEEECCCCC
Confidence             2   2589999999997

>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=99.93  E-value=9.9e-25  Score=264.07  Aligned_cols=439  Identities=14%  Similarity=0.113  Sum_probs=279.1

Q ss_pred             cccceeecccccccceeecccCCccccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCcc
Q 000945          467 LLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVD  546 (1212)
Q Consensus       467 ~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~  546 (1212)
                      ++|++|+++++. +..+  .+..+..+++|++|++++| .++.+++ ..+.++++|++|+++++. ++.+|.        
T Consensus        21 ~~L~~L~Ls~n~-i~~~--~~~~~~~l~~L~~L~Ls~n-~l~~~~~-~~~~~l~~L~~L~Ls~N~-l~~lp~--------   86 (520)
T 2z7x_B           21 QKTTILNISQNY-ISEL--WTSDILSLSKLRILIISHN-RIQYLDI-SVFKFNQELEYLDLSHNK-LVKISC--------   86 (520)
T ss_dssp             TTCSEEECCSSC-CCCC--CHHHHTTCTTCCEEECCSS-CCCEEEG-GGGTTCTTCCEEECCSSC-CCEEEC--------
T ss_pred             ccccEEECCCCc-cccc--ChhhccccccccEEecCCC-ccCCcCh-HHhhcccCCCEEecCCCc-eeecCc--------
Confidence            566666666652 2211  1234566777777777774 5666533 346777777777777764 566665        


Q ss_pred             CCccCceecccccEEecccCCcccccccccccchhhHhhhcccccccCCcceecccccccccccccccccccccceeecc
Q 000945          547 CHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELC  626 (1212)
Q Consensus       547 ~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~  626 (1212)
                          .  .+++|++|+++++.- ..+                                    .+...+..+++|++|+++
T Consensus        87 ----~--~l~~L~~L~L~~N~l-~~~------------------------------------~~p~~~~~l~~L~~L~L~  123 (520)
T 2z7x_B           87 ----H--PTVNLKHLDLSFNAF-DAL------------------------------------PICKEFGNMSQLKFLGLS  123 (520)
T ss_dssp             ----C--CCCCCSEEECCSSCC-SSC------------------------------------CCCGGGGGCTTCCEEEEE
T ss_pred             ----c--ccCCccEEeccCCcc-ccc------------------------------------cchhhhccCCcceEEEec
Confidence                2  567777777766532 110                                    011223445777777777


Q ss_pred             ccccceecccCcccccCcCc--cEEEEecCCC--ccccCchhhhhccC-CCcEEEeccccccceeecccccccccccccC
Q 000945          627 AISTEKIWCNQLAAVYSQNL--TRLIVHGCEK--LKYLFPSSMIRNFV-QLEHLEICYCSSLESIVGKESGEEATTTFVF  701 (1212)
Q Consensus       627 ~~~l~~~~~~~~~~~~l~~L--~~L~L~~c~~--l~~l~~~~~l~~l~-~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~  701 (1212)
                      +|.+.....     ..+++|  +.|++++|..  ... .|.. ++.+. ....++++++.....+..       .....+
T Consensus       124 ~n~l~~~~~-----~~l~~L~L~~L~l~~n~l~~~~~-~~~~-l~~l~~~~l~l~l~~n~~~~~~~~-------~~~~~l  189 (520)
T 2z7x_B          124 TTHLEKSSV-----LPIAHLNISKVLLVLGETYGEKE-DPEG-LQDFNTESLHIVFPTNKEFHFILD-------VSVKTV  189 (520)
T ss_dssp             ESSCCGGGG-----GGGTTSCEEEEEEEECTTTTSSC-CTTT-TTTCCEEEEEEECCSSSCCCCCCC-------CCCTTC
T ss_pred             Ccccchhhc-----cccccceeeEEEeeccccccccc-cccc-ccccccceEEEEeccCcchhhhhh-------hhhhcc
Confidence            775544222     135666  7888877643  222 2211 23222 122344555543333221       123346


Q ss_pred             CccceeecccCCc------cceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecc
Q 000945          702 PKVTFLKLWNLSE------LKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTS  775 (1212)
Q Consensus       702 ~~L~~L~l~~~~~------L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~  775 (1212)
                      ++|+.|++.++..      +.....  ....+++|+.|++.+|.--...+...+..                    ...+
T Consensus       190 ~~L~~L~l~~n~~~~~~~~~~~~~~--~l~~l~~L~~L~l~~~~l~~~~~~~~~~~--------------------~~~~  247 (520)
T 2z7x_B          190 ANLELSNIKCVLEDNKCSYFLSILA--KLQTNPKLSNLTLNNIETTWNSFIRILQL--------------------VWHT  247 (520)
T ss_dssp             SEEEECCEEECCSTTTTHHHHHHHH--GGGGCTTCCEEEEEEEEEEHHHHHHHHHH--------------------HHTS
T ss_pred             cceeeccccccccccccceeecchh--hhccccchhhccccccccCHHHHHHHHHH--------------------hhhC
Confidence            7777777776531      111111  12257888888888763211110000000                    0145


Q ss_pred             cceeeeeccccccccccccC-c--ccccccceEeEeecCCccccchHHHhhc---CccceeEEEccceeEeccccchhhc
Q 000945          776 KLEELKLSGKDIAMICQSQF-P--KHIFRNLKNLEVVNDESENFRIGFLERF---HNLEKLELRWSSYKEIFSNEEIVEH  849 (1212)
Q Consensus       776 ~L~~L~l~~~~~~~l~~~~~-~--~~~~~~L~~L~l~~~~~~~~p~~~l~~l---~~L~~L~l~c~~l~~~~~~~~~~~~  849 (1212)
                      +|++|++++|.+.+..+... .  ...+++|+.++++++.+ .+|...+..+   ++|+.|+++.+.+......      
T Consensus       248 ~L~~L~l~~n~l~~~~p~~~~~~~~~~l~~L~~l~l~~n~~-~~p~~~~~~~~~~~~L~~L~l~~n~l~~~~~~------  320 (520)
T 2z7x_B          248 TVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVF-GFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCP------  320 (520)
T ss_dssp             SCSEEEEEEEEEESCCCCCCCCCCSCCCCEEEEEEEEECCC-CSCTHHHHHHHHTCCCSEEEEESSCCCCCCCC------
T ss_pred             cccEEEeecccccCccccchhhcccccCceeEeccccccce-ecchhhhhcccccCceeEEEcCCCccccccch------
Confidence            89999999988874333211 1  15688999999999888 8885445555   6799999996666544311      


Q ss_pred             cccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcc--cccCCccccCCccEEeeccccCccc-ccchh
Q 000945          850 AEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLI--NLVPSSASFKNLTTLELWYCQRLMN-LVTSS  926 (1212)
Q Consensus       850 ~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~--~lp~~~~~l~~L~~L~l~~c~~l~~-l~~~~  926 (1212)
                       ..+++|++|++++|.--.    ..|..+..+++|++|++++|....  .+|..+..+++|+.|++++| .++. +|. .
T Consensus       321 -~~l~~L~~L~Ls~n~l~~----~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N-~l~~~l~~-~  393 (520)
T 2z7x_B          321 -SKISPFLHLDFSNNLLTD----TVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQN-SVSYDEKK-G  393 (520)
T ss_dssp             -SSCCCCCEEECCSSCCCT----TTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSS-CCBCCGGG-C
T ss_pred             -hhCCcccEEEeECCccCh----hhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCC-cCCccccc-c
Confidence             237999999999975322    236778899999999999986554  56666788999999999996 5665 653 3


Q ss_pred             hhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccC
Q 000945          927 TAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFS 1006 (1212)
Q Consensus       927 ~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp 1006 (1212)
                      .+..+++|+.|++++|.....++..         ..++|+.|++++| .++.+|....  .+++|++|++++| .++.+|
T Consensus       394 ~~~~l~~L~~L~Ls~N~l~~~~~~~---------l~~~L~~L~Ls~N-~l~~ip~~~~--~l~~L~~L~L~~N-~l~~l~  460 (520)
T 2z7x_B          394 DCSWTKSLLSLNMSSNILTDTIFRC---------LPPRIKVLDLHSN-KIKSIPKQVV--KLEALQELNVASN-QLKSVP  460 (520)
T ss_dssp             SCCCCTTCCEEECCSSCCCGGGGGS---------CCTTCCEEECCSS-CCCCCCGGGG--GCTTCCEEECCSS-CCCCCC
T ss_pred             hhccCccCCEEECcCCCCCcchhhh---------hcccCCEEECCCC-cccccchhhh--cCCCCCEEECCCC-cCCccC
Confidence            4577899999999999844555421         1279999999999 5789987665  5699999999998 577899


Q ss_pred             cC-CcCCCccceEEeccCcc
Q 000945         1007 HR-VLSTPRLREVRQNWGLY 1025 (1212)
Q Consensus      1007 ~~-~~~~~~L~~l~~~~~~~ 1025 (1212)
                      .. +..+++|+.+++++|..
T Consensus       461 ~~~~~~l~~L~~L~l~~N~~  480 (520)
T 2z7x_B          461 DGIFDRLTSLQKIWLHTNPW  480 (520)
T ss_dssp             TTTTTTCTTCCEEECCSSCB
T ss_pred             HHHhccCCcccEEECcCCCC
Confidence            87 77899999999998764

>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=99.92  E-value=1.3e-23  Score=262.19  Aligned_cols=89  Identities=21%  Similarity=0.280  Sum_probs=77.4

Q ss_pred             cceeeeccCCcccccc-HHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhh
Q 000945          266 KLEILSLVDSNIEQLP-EEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL  344 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp-~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L  344 (1212)
                      .+++|||++|.|+.+| .+|+++.+|++|+|++| .|..+|+++|.+|.+|++|++++|.+.           ......|
T Consensus        53 ~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N-~i~~i~~~~f~~L~~L~~L~Ls~N~l~-----------~l~~~~f  120 (635)
T 4g8a_A           53 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNPIQ-----------SLALGAF  120 (635)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECTTC-CCCEECTTTTTTCTTCCEEECTTCCCC-----------EECGGGG
T ss_pred             CCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCC-cCCCcChhHhcCCCCCCEEEccCCcCC-----------CCCHHHh
Confidence            6899999999999996 57999999999999999 899999988999999999999999885           2233568


Q ss_pred             hcCCCCCcceeeecccccCCCC
Q 000945          345 KLLSHLTTLEIQICDAMILPKG  366 (1212)
Q Consensus       345 ~~l~~L~~L~l~~~~~~~~p~~  366 (1212)
                      .++.+|++|+++.|.+..+|..
T Consensus       121 ~~L~~L~~L~Ls~N~l~~l~~~  142 (635)
T 4g8a_A          121 SGLSSLQKLVAVETNLASLENF  142 (635)
T ss_dssp             TTCTTCCEEECTTSCCCCSTTC
T ss_pred             cCCCCCCEEECCCCcCCCCChh
Confidence            8899999999999988877654

>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=6.4e-25  Score=257.66  Aligned_cols=340  Identities=17%  Similarity=0.124  Sum_probs=165.8

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK  345 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~  345 (1212)
                      +|++|++++|.+..+|.+|+++.+|++|++++|.....+|.. ++++.+|+.+++..|..                    
T Consensus        12 ~L~~L~l~~n~l~~iP~~i~~L~~L~~L~l~~n~~~~~~p~~-~~~l~~L~~l~l~~c~~--------------------   70 (454)
T 1jl5_A           12 FLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPG-NGEQREMAVSRLRDCLD--------------------   70 (454)
T ss_dssp             ----------------------CCHHHHHHHHHHHHHTSCTT-SCCCHHHHHHHHHHHHH--------------------
T ss_pred             cchhhhcccCchhhCChhHhcccchhhhhccCCcccccCCcc-cccchhcchhhhhhhhc--------------------
Confidence            577788888888778888888888888888887322366766 67777665555444321                    


Q ss_pred             cCCCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCCc
Q 000945          346 LLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGI  425 (1212)
Q Consensus       346 ~l~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~~  425 (1212)
                        .++++|+++.+.+..+|..                                                           
T Consensus        71 --~~l~~L~l~~~~l~~lp~~-----------------------------------------------------------   89 (454)
T 1jl5_A           71 --RQAHELELNNLGLSSLPEL-----------------------------------------------------------   89 (454)
T ss_dssp             --HTCSEEECTTSCCSCCCSC-----------------------------------------------------------
T ss_pred             --cCCCEEEecCCccccCCCC-----------------------------------------------------------
Confidence              2344455555544433321                                                           


Q ss_pred             ccccccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCC
Q 000945          426 KNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCD  505 (1212)
Q Consensus       426 ~~~~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~  505 (1212)
                                 .++|++|++++|. +..++.        .+++|+.|+++++ .+..+   +.   ..++|++|++++| 
T Consensus        90 -----------~~~L~~L~l~~n~-l~~lp~--------~~~~L~~L~l~~n-~l~~l---~~---~~~~L~~L~L~~n-  141 (454)
T 1jl5_A           90 -----------PPHLESLVASCNS-LTELPE--------LPQSLKSLLVDNN-NLKAL---SD---LPPLLEYLGVSNN-  141 (454)
T ss_dssp             -----------CTTCSEEECCSSC-CSSCCC--------CCTTCCEEECCSS-CCSCC---CS---CCTTCCEEECCSS-
T ss_pred             -----------cCCCCEEEccCCc-CCcccc--------ccCCCcEEECCCC-ccCcc---cC---CCCCCCEEECcCC-
Confidence                       1345555554442 111221        1245555555554 22222   11   1156777777764 


Q ss_pred             CCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccccccccccchhhHhh
Q 000945          506 KLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTR  585 (1212)
Q Consensus       506 ~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~  585 (1212)
                      .++.+|   .++++++|++|++++|. +..+|.               .+++|++|+++++. +..++            
T Consensus       142 ~l~~lp---~~~~l~~L~~L~l~~N~-l~~lp~---------------~~~~L~~L~L~~n~-l~~l~------------  189 (454)
T 1jl5_A          142 QLEKLP---ELQNSSFLKIIDVDNNS-LKKLPD---------------LPPSLEFIAAGNNQ-LEELP------------  189 (454)
T ss_dssp             CCSSCC---CCTTCTTCCEEECCSSC-CSCCCC---------------CCTTCCEEECCSSC-CSSCC------------
T ss_pred             CCCCCc---ccCCCCCCCEEECCCCc-CcccCC---------------CcccccEEECcCCc-CCcCc------------
Confidence            566665   25677777777777764 555543               12466666666542 22111            


Q ss_pred             hcccccccCCcceecccccccccccccccccccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhh
Q 000945          586 LKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSM  665 (1212)
Q Consensus       586 l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~  665 (1212)
                                                 .+..+++|+.|++++|.+..+..      ..++|+.|++++| .+..+|.   
T Consensus       190 ---------------------------~~~~l~~L~~L~l~~N~l~~l~~------~~~~L~~L~l~~n-~l~~lp~---  232 (454)
T 1jl5_A          190 ---------------------------ELQNLPFLTAIYADNNSLKKLPD------LPLSLESIVAGNN-ILEELPE---  232 (454)
T ss_dssp             ---------------------------CCTTCTTCCEEECCSSCCSSCCC------CCTTCCEEECCSS-CCSSCCC---
T ss_pred             ---------------------------cccCCCCCCEEECCCCcCCcCCC------CcCcccEEECcCC-cCCcccc---
Confidence                                       12345777777777776554322      2357888888876 5556653   


Q ss_pred             hhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCccccc
Q 000945          666 IRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFT  745 (1212)
Q Consensus       666 l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp  745 (1212)
                      ++.+++|++|++++|. +..++.           .+++|+.|++.++. +..++.     .+++|+.|++++| .+..+|
T Consensus       233 ~~~l~~L~~L~l~~N~-l~~l~~-----------~~~~L~~L~l~~N~-l~~l~~-----~~~~L~~L~ls~N-~l~~l~  293 (454)
T 1jl5_A          233 LQNLPFLTTIYADNNL-LKTLPD-----------LPPSLEALNVRDNY-LTDLPE-----LPQSLTFLDVSEN-IFSGLS  293 (454)
T ss_dssp             CTTCTTCCEEECCSSC-CSSCCS-----------CCTTCCEEECCSSC-CSCCCC-----CCTTCCEEECCSS-CCSEES
T ss_pred             cCCCCCCCEEECCCCc-CCcccc-----------cccccCEEECCCCc-ccccCc-----ccCcCCEEECcCC-ccCccc
Confidence            5778888888888775 443321           13566666666553 222221     2355666666664 233331


Q ss_pred             ccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcC
Q 000945          746 SRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFH  825 (1212)
Q Consensus       746 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~  825 (1212)
                                                ..+++|+.|++++|.+.++..      ..++|++|++++|.+..+|..    ++
T Consensus       294 --------------------------~~~~~L~~L~l~~N~l~~i~~------~~~~L~~L~Ls~N~l~~lp~~----~~  337 (454)
T 1jl5_A          294 --------------------------ELPPNLYYLNASSNEIRSLCD------LPPSLEELNVSNNKLIELPAL----PP  337 (454)
T ss_dssp             --------------------------CCCTTCCEEECCSSCCSEECC------CCTTCCEEECCSSCCSCCCCC----CT
T ss_pred             --------------------------CcCCcCCEEECcCCcCCcccC------CcCcCCEEECCCCcccccccc----CC
Confidence                                      003456666666555554321      113555555555555554432    34


Q ss_pred             ccceeEEEccceeE
Q 000945          826 NLEKLELRWSSYKE  839 (1212)
Q Consensus       826 ~L~~L~l~c~~l~~  839 (1212)
                      +|+.|+++.|.++.
T Consensus       338 ~L~~L~L~~N~l~~  351 (454)
T 1jl5_A          338 RLERLIASFNHLAE  351 (454)
T ss_dssp             TCCEEECCSSCCSC
T ss_pred             cCCEEECCCCcccc
Confidence            45555555444443

>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=99.91  E-value=1.5e-23  Score=255.63  Aligned_cols=154  Identities=12%  Similarity=0.112  Sum_probs=111.9

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccch--HHHhhcCccceeEEEccceeE-eccccchhhcc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRI--GFLERFHNLEKLELRWSSYKE-IFSNEEIVEHA  850 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~--~~l~~l~~L~~L~l~c~~l~~-~~~~~~~~~~~  850 (1212)
                      +++|++|++++|.+.+..+  .....+++|+.|++++|.+..++.  ..+..+++|+.|+++.|.++. ++.     ..+
T Consensus       352 l~~L~~L~l~~n~l~~~~~--~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~-----~~~  424 (562)
T 3a79_B          352 PSSFTFLNFTQNVFTDSVF--QGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYD-----RTC  424 (562)
T ss_dssp             CCCCCEEECCSSCCCTTTT--TTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSS-----CCC
T ss_pred             CCCceEEECCCCccccchh--hhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccCh-----hhh
Confidence            5678888888777776443  234567888888888887777653  336788888888888777765 432     123


Q ss_pred             ccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcc
Q 000945          851 EMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKS  930 (1212)
Q Consensus       851 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~  930 (1212)
                      ..+++|+.|++++|.--..+    +..+.  ++|+.|++++| .++.+|..+..+++|+.|++++| .++.+|.. .+..
T Consensus       425 ~~l~~L~~L~l~~n~l~~~~----~~~l~--~~L~~L~L~~N-~l~~ip~~~~~l~~L~~L~L~~N-~l~~l~~~-~~~~  495 (562)
T 3a79_B          425 AWAESILVLNLSSNMLTGSV----FRCLP--PKVKVLDLHNN-RIMSIPKDVTHLQALQELNVASN-QLKSVPDG-VFDR  495 (562)
T ss_dssp             CCCTTCCEEECCSSCCCGGG----GSSCC--TTCSEEECCSS-CCCCCCTTTTSSCCCSEEECCSS-CCCCCCTT-STTT
T ss_pred             cCcccCCEEECCCCCCCcch----hhhhc--CcCCEEECCCC-cCcccChhhcCCCCCCEEECCCC-CCCCCCHH-HHhc
Confidence            34788899998887522222    23222  68999999987 67789888888999999999985 78888743 4678


Q ss_pred             cccccEEEecCcc
Q 000945          931 LVCLTKLRIDGCR  943 (1212)
Q Consensus       931 l~~L~~L~i~~c~  943 (1212)
                      +++|+.|++++|+
T Consensus       496 l~~L~~L~l~~N~  508 (562)
T 3a79_B          496 LTSLQYIWLHDNP  508 (562)
T ss_dssp             CTTCCCEECCSCC
T ss_pred             CCCCCEEEecCCC
Confidence            8899999999887

>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=99.90  E-value=3.9e-22  Score=248.73  Aligned_cols=83  Identities=19%  Similarity=0.231  Sum_probs=67.3

Q ss_pred             eeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhcCCC
Q 000945          270 LSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSH  349 (1212)
Q Consensus       270 L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~l~~  349 (1212)
                      .+-++-+++++|..+.  ..+++|||++| .|..+|+..|.++.+|++|++++|.+.           ......|.++.+
T Consensus        36 ~~c~~~~l~~vP~~lp--~~~~~LdLs~N-~i~~l~~~~f~~l~~L~~L~Ls~N~i~-----------~i~~~~f~~L~~  101 (635)
T 4g8a_A           36 YQCMELNFYKIPDNLP--FSTKNLDLSFN-PLRHLGSYSFFSFPELQVLDLSRCEIQ-----------TIEDGAYQSLSH  101 (635)
T ss_dssp             EECTTSCCSSCCSSSC--TTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTCCCC-----------EECTTTTTTCTT
T ss_pred             EECCCCCcCccCCCCC--cCCCEEEeeCC-CCCCCCHHHHhCCCCCCEEECCCCcCC-----------CcChhHhcCCCC
Confidence            3555667888887663  47899999999 899999877999999999999999886           223456889999


Q ss_pred             CCcceeeecccccCCCC
Q 000945          350 LTTLEIQICDAMILPKG  366 (1212)
Q Consensus       350 L~~L~l~~~~~~~~p~~  366 (1212)
                      |++|++++|.+..+|.+
T Consensus       102 L~~L~Ls~N~l~~l~~~  118 (635)
T 4g8a_A          102 LSTLILTGNPIQSLALG  118 (635)
T ss_dssp             CCEEECTTCCCCEECGG
T ss_pred             CCEEEccCCcCCCCCHH
Confidence            99999999887766653

>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=99.90  E-value=1.5e-23  Score=245.92  Aligned_cols=286  Identities=17%  Similarity=0.139  Sum_probs=136.1

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++|++|++++|.+..++.      ..++|++|++++| .++.++.   ++.+++|++|++++|. +..++.        
T Consensus       152 l~~L~~L~l~~N~l~~lp~------~~~~L~~L~L~~n-~l~~l~~---~~~l~~L~~L~l~~N~-l~~l~~--------  212 (454)
T 1jl5_A          152 SSFLKIIDVDNNSLKKLPD------LPPSLEFIAAGNN-QLEELPE---LQNLPFLTAIYADNNS-LKKLPD--------  212 (454)
T ss_dssp             CTTCCEEECCSSCCSCCCC------CCTTCCEEECCSS-CCSSCCC---CTTCTTCCEEECCSSC-CSSCCC--------
T ss_pred             CCCCCEEECCCCcCcccCC------CcccccEEECcCC-cCCcCcc---ccCCCCCCEEECCCCc-CCcCCC--------
Confidence            3555666666554443221      2346666666665 4444442   4666677777776665 333321        


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                         ..++|++|++.++ .+..++.   ...+++|+.|++++| ++..+|.                          .+++
T Consensus       213 ---~~~~L~~L~l~~n-~l~~lp~---~~~l~~L~~L~l~~N-~l~~l~~--------------------------~~~~  258 (454)
T 1jl5_A          213 ---LPLSLESIVAGNN-ILEELPE---LQNLPFLTTIYADNN-LLKTLPD--------------------------LPPS  258 (454)
T ss_dssp             ---CCTTCCEEECCSS-CCSSCCC---CTTCTTCCEEECCSS-CCSSCCS--------------------------CCTT
T ss_pred             ---CcCcccEEECcCC-cCCcccc---cCCCCCCCEEECCCC-cCCcccc--------------------------cccc
Confidence               1246666666665 2334432   225677777777775 3444421                          1467


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      |+.|++++|.+.+++.      .+++|+.|++++|.+..+|..    .++|+.|+++.|.++.++.         .+++|
T Consensus       259 L~~L~l~~N~l~~l~~------~~~~L~~L~ls~N~l~~l~~~----~~~L~~L~l~~N~l~~i~~---------~~~~L  319 (454)
T 1jl5_A          259 LEALNVRDNYLTDLPE------LPQSLTFLDVSENIFSGLSEL----PPNLYYLNASSNEIRSLCD---------LPPSL  319 (454)
T ss_dssp             CCEEECCSSCCSCCCC------CCTTCCEEECCSSCCSEESCC----CTTCCEEECCSSCCSEECC---------CCTTC
T ss_pred             cCEEECCCCcccccCc------ccCcCCEEECcCCccCcccCc----CCcCCEEECcCCcCCcccC---------CcCcC
Confidence            7777777777766542      236778888887777765532    3578888888666766532         13578


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccE
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTK  936 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~  936 (1212)
                      +.|+++++. +..+    |.   .+++|+.|++++| .++.+|.   .+++|+.|++++| .++.+|  ..+..   +..
T Consensus       320 ~~L~Ls~N~-l~~l----p~---~~~~L~~L~L~~N-~l~~lp~---~l~~L~~L~L~~N-~l~~l~--~ip~~---l~~  381 (454)
T 1jl5_A          320 EELNVSNNK-LIEL----PA---LPPRLERLIASFN-HLAEVPE---LPQNLKQLHVEYN-PLREFP--DIPES---VED  381 (454)
T ss_dssp             CEEECCSSC-CSCC----CC---CCTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSS-CCSSCC--CCCTT---CCE
T ss_pred             CEEECCCCc-cccc----cc---cCCcCCEEECCCC-ccccccc---hhhhccEEECCCC-CCCcCC--CChHH---HHh
Confidence            888888753 4433    22   2578888888876 4556776   4688888888875 555543  12222   333


Q ss_pred             EEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCCc
Q 000945          937 LRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVL 1010 (1212)
Q Consensus       937 L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~~ 1010 (1212)
                      |.  .+.....+|.          .+++|+.|++++++ ++.+|.     -+++|+.|.+.+|.-...+|.+..
T Consensus       382 L~--~n~~~~~i~~----------~~~~L~~L~ls~N~-l~~~~~-----iP~sl~~L~~~~~~~~~~~~~~~~  437 (454)
T 1jl5_A          382 LR--MNSHLAEVPE----------LPQNLKQLHVETNP-LREFPD-----IPESVEDLRMNSERVVDPYEFAHE  437 (454)
T ss_dssp             EE--CCC-------------------------------------------------------------------
T ss_pred             hh--hccccccccc----------ccCcCCEEECCCCc-CCcccc-----chhhHhheeCcCcccCCccccCHH
Confidence            32  2333445542          25889999999875 554432     135788888888876666665543

>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=99.89  E-value=1.8e-22  Score=246.21  Aligned_cols=460  Identities=13%  Similarity=0.064  Sum_probs=282.8

Q ss_pred             CCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCCCCCccCchhhhcc
Q 000945          439 QLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRG  518 (1212)
Q Consensus       439 ~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~  518 (1212)
                      ..++++++++ ++..+|..       .+++|+.|+++++. +..+  .+..++.+++|++|++++| .++.+++ ..+.+
T Consensus        32 ~~~~l~ls~~-~L~~ip~~-------~~~~L~~L~Ls~N~-i~~~--~~~~~~~l~~L~~L~Ls~N-~l~~~~~-~~~~~   98 (562)
T 3a79_B           32 LESMVDYSNR-NLTHVPKD-------LPPRTKALSLSQNS-ISEL--RMPDISFLSELRVLRLSHN-RIRSLDF-HVFLF   98 (562)
T ss_dssp             -CCEEECTTS-CCCSCCTT-------SCTTCCEEECCSSC-CCCC--CGGGTTTCTTCCEEECCSC-CCCEECT-TTTTT
T ss_pred             CCcEEEcCCC-CCccCCCC-------CCCCcCEEECCCCC-cccc--ChhhhccCCCccEEECCCC-CCCcCCH-HHhCC
Confidence            3467777766 34444432       23677777777763 2222  2345677788888888874 6666643 44677


Q ss_pred             CCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccccccccccchhhHhhhcccccccCCcce
Q 000945          519 LPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREV  598 (1212)
Q Consensus       519 L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~l~~L~~~~l~~~~  598 (1212)
                      +++|++|+++++. +.++|.            .  .+++|++|+++++. +..++                         
T Consensus        99 l~~L~~L~Ls~N~-l~~lp~------------~--~l~~L~~L~Ls~N~-l~~l~-------------------------  137 (562)
T 3a79_B           99 NQDLEYLDVSHNR-LQNISC------------C--PMASLRHLDLSFND-FDVLP-------------------------  137 (562)
T ss_dssp             CTTCCEEECTTSC-CCEECS------------C--CCTTCSEEECCSSC-CSBCC-------------------------
T ss_pred             CCCCCEEECCCCc-CCccCc------------c--ccccCCEEECCCCC-ccccC-------------------------
Confidence            8888888888865 666665            2  57778888777753 22211                         


Q ss_pred             ecccccccccccccccccccccceeeccccccceecccCcccccCcCc--cEEEEecCCCc-cccCchhhhhccCC-CcE
Q 000945          599 ILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNL--TRLIVHGCEKL-KYLFPSSMIRNFVQ-LEH  674 (1212)
Q Consensus       599 ~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L--~~L~L~~c~~l-~~l~~~~~l~~l~~-L~~  674 (1212)
                                 ....+..+++|++|++++|.+......     .+++|  +.|++++|... ....+.. +..+.. .-.
T Consensus       138 -----------~p~~~~~l~~L~~L~L~~n~l~~~~~~-----~l~~L~L~~L~L~~n~l~~~~~~~~~-l~~l~~~~l~  200 (562)
T 3a79_B          138 -----------VCKEFGNLTKLTFLGLSAAKFRQLDLL-----PVAHLHLSCILLDLVSYHIKGGETES-LQIPNTTVLH  200 (562)
T ss_dssp             -----------CCGGGGGCTTCCEEEEECSBCCTTTTG-----GGTTSCEEEEEEEESSCCCCSSSCCE-EEECCEEEEE
T ss_pred             -----------chHhhcccCcccEEecCCCccccCchh-----hhhhceeeEEEeecccccccccCccc-ccccCcceEE
Confidence                       011234457788888887765542221     34455  88888776430 2222211 222220 113


Q ss_pred             EEeccccccceeecccccccccccccCCccceeecccCC----ccceeccCCCcCCCCCccEEEEecCCCcccccccccc
Q 000945          675 LEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLS----ELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLR  750 (1212)
Q Consensus       675 L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~----~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~  750 (1212)
                      ++++++.....+..       .....+++|+.|++.++.    .+......  ...++.|+.+++.++.--.......+.
T Consensus       201 l~l~~n~~~~~~~~-------~~~~~l~~L~~L~l~~n~~~~~~l~~~~~~--l~~l~~L~~L~L~~~~l~~~~~~~~~~  271 (562)
T 3a79_B          201 LVFHPNSLFSVQVN-------MSVNALGHLQLSNIKLNDENCQRLMTFLSE--LTRGPTLLNVTLQHIETTWKCSVKLFQ  271 (562)
T ss_dssp             EEECSSSCCCCCCE-------EEESSEEEEEEEEEECCSTTHHHHHHHHHH--HHSCSSCEEEEEEEEEECHHHHHHHHH
T ss_pred             EEecCccchhhhhh-------hcccccceEEEecccccccccchHHHHHHH--HhccCcceEEEecCCcCcHHHHHHHHH
Confidence            34444442222211       122346677777776642    11111100  124567777777765211100000000


Q ss_pred             hhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcc---cccccceEeEeecCCccccchHHHhhc---
Q 000945          751 FQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPK---HIFRNLKNLEVVNDESENFRIGFLERF---  824 (1212)
Q Consensus       751 ~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~---~~~~~L~~L~l~~~~~~~~p~~~l~~l---  824 (1212)
                      .                    ...++|++|++++|.+.+..+.....   ..+.+|+.+++..+.+ .+|...+..+   
T Consensus       272 ~--------------------~~~~~L~~L~l~~n~l~~~ip~~~~~~~~~~L~~L~~~~~~~~~~-~~p~~~~~~~~~~  330 (562)
T 3a79_B          272 F--------------------FWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVF-LFSKEALYSVFAE  330 (562)
T ss_dssp             H--------------------HTTSSEEEEEEEEEEECSCCCCCCCCCCSCSCCEEEEEEEEECCC-SSCHHHHHHHHHT
T ss_pred             h--------------------hhcccccEEEEeccEeeccccchhhhcccccchheehhhccccee-ecChhhhhhhhcc
Confidence            0                    01358999999998887443322211   3455555555555666 7775444443   


Q ss_pred             CccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcc--cccCCc
Q 000945          825 HNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLI--NLVPSS  902 (1212)
Q Consensus       825 ~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~--~lp~~~  902 (1212)
                      .+|+.|+++.+.+..+..       ...+++|+.|+++++.--.    ..+..+..+++|++|++++|..-.  .+|..+
T Consensus       331 ~~L~~L~l~~n~~~~~~~-------~~~l~~L~~L~l~~n~l~~----~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~  399 (562)
T 3a79_B          331 MNIKMLSISDTPFIHMVC-------PPSPSSFTFLNFTQNVFTD----SVFQGCSTLKRLQTLILQRNGLKNFFKVALMT  399 (562)
T ss_dssp             CCCSEEEEESSCCCCCCC-------CSSCCCCCEEECCSSCCCT----TTTTTCCSCSSCCEEECCSSCCCBTTHHHHTT
T ss_pred             CcceEEEccCCCcccccC-------ccCCCCceEEECCCCcccc----chhhhhcccCCCCEEECCCCCcCCcccchhhh
Confidence            679999999555644321       1237999999999975222    236778899999999999974332  444567


Q ss_pred             cccCCccEEeeccccCccc-ccchhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccC
Q 000945          903 ASFKNLTTLELWYCQRLMN-LVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCS  981 (1212)
Q Consensus       903 ~~l~~L~~L~l~~c~~l~~-l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~  981 (1212)
                      ..+++|+.|++++| .++. +|. ..+..+++|+.|++++|.--..++..         ..++|+.|+++++ .++.+|.
T Consensus       400 ~~l~~L~~L~l~~N-~l~~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~---------l~~~L~~L~L~~N-~l~~ip~  467 (562)
T 3a79_B          400 KNMSSLETLDVSLN-SLNSHAYD-RTCAWAESILVLNLSSNMLTGSVFRC---------LPPKVKVLDLHNN-RIMSIPK  467 (562)
T ss_dssp             TTCTTCCEEECTTS-CCBSCCSS-CCCCCCTTCCEEECCSSCCCGGGGSS---------CCTTCSEEECCSS-CCCCCCT
T ss_pred             cCCCCCCEEECCCC-cCCCccCh-hhhcCcccCCEEECCCCCCCcchhhh---------hcCcCCEEECCCC-cCcccCh
Confidence            88999999999996 5665 653 34577899999999999844444421         1279999999999 6889998


Q ss_pred             CCceeecCCccEEEeccCCCccccCcC-CcCCCccceEEeccCcc
Q 000945          982 GNYTLKFPSLEDLFVIECPKMKIFSHR-VLSTPRLREVRQNWGLY 1025 (1212)
Q Consensus       982 ~~~~~~~~sL~~L~i~~C~~l~~lp~~-~~~~~~L~~l~~~~~~~ 1025 (1212)
                      +..  .+++|++|+++++ .+..+|.. +..+++|+.+++++|..
T Consensus       468 ~~~--~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~l~~N~~  509 (562)
T 3a79_B          468 DVT--HLQALQELNVASN-QLKSVPDGVFDRLTSLQYIWLHDNPW  509 (562)
T ss_dssp             TTT--SSCCCSEEECCSS-CCCCCCTTSTTTCTTCCCEECCSCCB
T ss_pred             hhc--CCCCCCEEECCCC-CCCCCCHHHHhcCCCCCEEEecCCCc
Confidence            776  5699999999997 57789988 78899999999998763

>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=99.88  E-value=1.7e-21  Score=231.25  Aligned_cols=254  Identities=20%  Similarity=0.231  Sum_probs=135.1

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++|++|++++|.+..+..  +  ..+++|+.|++.+  .+..+++   ++.+++|++|++++|. +..+.         
T Consensus       133 l~~L~~L~l~~n~l~~~~~--~--~~l~~L~~L~l~~--~~~~~~~---~~~l~~L~~L~l~~n~-l~~~~---------  193 (466)
T 1o6v_A          133 LTNLNRLELSSNTISDISA--L--SGLTSLQQLSFGN--QVTDLKP---LANLTTLERLDISSNK-VSDIS---------  193 (466)
T ss_dssp             CTTCSEEEEEEEEECCCGG--G--TTCTTCSEEEEEE--SCCCCGG---GTTCTTCCEEECCSSC-CCCCG---------
T ss_pred             CCCCCEEECCCCccCCChh--h--ccCCcccEeecCC--cccCchh---hccCCCCCEEECcCCc-CCCCh---------
Confidence            3555555555554333221  1  2456666666643  3333333   4566666666666665 33331         


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                      ....+++|++|++.++.- .....   ...+++|+.|++++|. +..++    .+                    ..+++
T Consensus       194 ~l~~l~~L~~L~l~~n~l-~~~~~---~~~l~~L~~L~l~~n~-l~~~~----~l--------------------~~l~~  244 (466)
T 1o6v_A          194 VLAKLTNLESLIATNNQI-SDITP---LGILTNLDELSLNGNQ-LKDIG----TL--------------------ASLTN  244 (466)
T ss_dssp             GGGGCTTCSEEECCSSCC-CCCGG---GGGCTTCCEEECCSSC-CCCCG----GG--------------------GGCTT
T ss_pred             hhccCCCCCEEEecCCcc-ccccc---ccccCCCCEEECCCCC-cccch----hh--------------------hcCCC
Confidence            123355566665555432 11111   1135666666666652 33321    11                    01566


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      |+.|++++|.+..+.+    ...+++|+.|++++|.+..++.  +..+++|+.|+++.|.++.+++       +..+++|
T Consensus       245 L~~L~l~~n~l~~~~~----~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~-------~~~l~~L  311 (466)
T 1o6v_A          245 LTDLDLANNQISNLAP----LSGLTKLTELKLGANQISNISP--LAGLTALTNLELNENQLEDISP-------ISNLKNL  311 (466)
T ss_dssp             CSEEECCSSCCCCCGG----GTTCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCSCCGG-------GGGCTTC
T ss_pred             CCEEECCCCccccchh----hhcCCCCCEEECCCCccCcccc--ccCCCccCeEEcCCCcccCchh-------hcCCCCC
Confidence            6777776666665542    3456667777777766666654  5666777777777555555433       2235666


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccE
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTK  936 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~  936 (1212)
                      +.|++++|. +..+     ..+..+++|+.|++++| .++.+ +.+..+++|+.|++++| .+..+++   +..+++|+.
T Consensus       312 ~~L~L~~n~-l~~~-----~~~~~l~~L~~L~l~~n-~l~~~-~~l~~l~~L~~L~l~~n-~l~~~~~---~~~l~~L~~  379 (466)
T 1o6v_A          312 TYLTLYFNN-ISDI-----SPVSSLTKLQRLFFYNN-KVSDV-SSLANLTNINWLSAGHN-QISDLTP---LANLTRITQ  379 (466)
T ss_dssp             SEEECCSSC-CSCC-----GGGGGCTTCCEEECCSS-CCCCC-GGGTTCTTCCEEECCSS-CCCBCGG---GTTCTTCCE
T ss_pred             CEEECcCCc-CCCc-----hhhccCccCCEeECCCC-ccCCc-hhhccCCCCCEEeCCCC-ccCccch---hhcCCCCCE
Confidence            666666653 2222     11456666777777665 33344 23456667777777665 3444432   456666666


Q ss_pred             EEecCcc
Q 000945          937 LRIDGCR  943 (1212)
Q Consensus       937 L~i~~c~  943 (1212)
                      |++++|+
T Consensus       380 L~l~~n~  386 (466)
T 1o6v_A          380 LGLNDQA  386 (466)
T ss_dssp             EECCCEE
T ss_pred             EeccCCc
Confidence            6666665

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.88  E-value=4.6e-22  Score=233.60  Aligned_cols=143  Identities=17%  Similarity=0.128  Sum_probs=87.4

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++|+.|++++|.+..+..     ..+++|+.|++++| .++.++    .+.+++|+.|+++++                
T Consensus       211 l~~L~~L~Ls~N~l~~ip~-----~~l~~L~~L~l~~N-~l~~~~----~~~l~~L~~L~l~~n----------------  264 (457)
T 3bz5_A          211 NIQLTFLDCSSNKLTEIDV-----TPLTQLTYFDCSVN-PLTELD----VSTLSKLTTLHCIQT----------------  264 (457)
T ss_dssp             CTTCSEEECCSSCCSCCCC-----TTCTTCSEEECCSS-CCSCCC----CTTCTTCCEEECTTC----------------
T ss_pred             CCCCCEEECcCCcccccCc-----cccCCCCEEEeeCC-cCCCcC----HHHCCCCCEEeccCC----------------
Confidence            4677777777776655431     24777888888775 555543    355777777776533                


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                            +|+.|++.+|+.+..++.+    .+++|+.|++++|+.+..+|..                          .++
T Consensus       265 ------~L~~L~l~~n~~~~~~~~~----~l~~L~~L~Ls~n~~l~~l~~~--------------------------~~~  308 (457)
T 3bz5_A          265 ------DLLEIDLTHNTQLIYFQAE----GCRKIKELDVTHNTQLYLLDCQ--------------------------AAG  308 (457)
T ss_dssp             ------CCSCCCCTTCTTCCEEECT----TCTTCCCCCCTTCTTCCEEECT--------------------------TCC
T ss_pred             ------CCCEEECCCCccCCccccc----ccccCCEEECCCCcccceeccC--------------------------CCc
Confidence                  4556666666666665532    4677888888888777666421                          234


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeE
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKE  839 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~  839 (1212)
                      |+.|++++               +++|++|++++|.+..++   +..+++|+.|+++.|.+++
T Consensus       309 L~~L~l~~---------------~~~L~~L~L~~N~l~~l~---l~~l~~L~~L~l~~N~l~~  353 (457)
T 3bz5_A          309 ITELDLSQ---------------NPKLVYLYLNNTELTELD---VSHNTKLKSLSCVNAHIQD  353 (457)
T ss_dssp             CSCCCCTT---------------CTTCCEEECTTCCCSCCC---CTTCTTCSEEECCSSCCCB
T ss_pred             ceEechhh---------------cccCCEEECCCCcccccc---cccCCcCcEEECCCCCCCC
Confidence            44444432               245666666666666654   5566677777776666554

>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=99.87  E-value=5.7e-21  Score=226.78  Aligned_cols=80  Identities=24%  Similarity=0.335  Sum_probs=65.8

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK  345 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~  345 (1212)
                      .++.|+++++.+..+|. +..+.+|++|++++| .+..+|.  +.++.+|++|++++|.+.             ....+.
T Consensus        47 ~l~~L~l~~~~i~~l~~-~~~l~~L~~L~Ls~n-~l~~~~~--~~~l~~L~~L~l~~n~l~-------------~~~~~~  109 (466)
T 1o6v_A           47 QVTTLQADRLGIKSIDG-VEYLNNLTQINFSNN-QLTDITP--LKNLTKLVDILMNNNQIA-------------DITPLA  109 (466)
T ss_dssp             TCCEEECCSSCCCCCTT-GGGCTTCCEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCC-------------CCGGGT
T ss_pred             cccEEecCCCCCccCcc-hhhhcCCCEEECCCC-ccCCchh--hhccccCCEEECCCCccc-------------cChhhc
Confidence            68999999999988884 888999999999999 7888887  899999999999998874             122277


Q ss_pred             cCCCCCcceeeeccccc
Q 000945          346 LLSHLTTLEIQICDAMI  362 (1212)
Q Consensus       346 ~l~~L~~L~l~~~~~~~  362 (1212)
                      .+.+|++|+++.|.+..
T Consensus       110 ~l~~L~~L~L~~n~l~~  126 (466)
T 1o6v_A          110 NLTNLTGLTLFNNQITD  126 (466)
T ss_dssp             TCTTCCEEECCSSCCCC
T ss_pred             CCCCCCEEECCCCCCCC
Confidence            88888888888776544

>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=99.86  E-value=7.2e-21  Score=226.08  Aligned_cols=133  Identities=20%  Similarity=0.144  Sum_probs=95.4

Q ss_pred             cccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCcc
Q 000945          800 FRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDS  879 (1212)
Q Consensus       800 ~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~  879 (1212)
                      .++|+.|++++|.+..+++..+..+++|+.|+++.|.++.+++     ..+..+++|+.|++++|. +..+   .+..+.
T Consensus       274 ~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-----~~~~~l~~L~~L~Ls~N~-l~~~---~~~~~~  344 (455)
T 3v47_A          274 ASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDD-----NAFWGLTHLLKLNLSQNF-LGSI---DSRMFE  344 (455)
T ss_dssp             TSCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECT-----TTTTTCTTCCEEECCSSC-CCEE---CGGGGT
T ss_pred             ccCceEEEecCccccccchhhcccCCCCCEEECCCCcccccCh-----hHhcCcccCCEEECCCCc-cCCc---ChhHhc
Confidence            3578888888877777766667788888888888767766643     223446788888888764 3332   245567


Q ss_pred             ccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcc
Q 000945          880 ITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       880 ~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      .+++|++|++++|......|..+..+++|++|++++| .++.+|. ..+..+++|+.|++++|+
T Consensus       345 ~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~L~~L~l~~N~  406 (455)
T 3v47_A          345 NLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTN-QLKSVPD-GIFDRLTSLQKIWLHTNP  406 (455)
T ss_dssp             TCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCSCCCT-TTTTTCTTCCEEECCSSC
T ss_pred             CcccCCEEECCCCcccccChhhccccccccEEECCCC-ccccCCH-hHhccCCcccEEEccCCC
Confidence            7888888888887654444666778888888888885 6777753 345778888888888876

>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=99.86  E-value=1.1e-20  Score=215.54  Aligned_cols=236  Identities=17%  Similarity=0.128  Sum_probs=131.6

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++|++|++++|.+..+..  +  ..+++|+.|++++|.....+++   +..+++|++|++++|. +..+.         
T Consensus       109 l~~L~~L~l~~n~i~~~~~--~--~~l~~L~~L~l~~n~~~~~~~~---~~~l~~L~~L~l~~~~-~~~~~---------  171 (347)
T 4fmz_A          109 LTNLRELYLNEDNISDISP--L--ANLTKMYSLNLGANHNLSDLSP---LSNMTGLNYLTVTESK-VKDVT---------  171 (347)
T ss_dssp             CTTCSEEECTTSCCCCCGG--G--TTCTTCCEEECTTCTTCCCCGG---GTTCTTCCEEECCSSC-CCCCG---------
T ss_pred             CCcCCEEECcCCcccCchh--h--ccCCceeEEECCCCCCcccccc---hhhCCCCcEEEecCCC-cCCch---------
Confidence            4666666666665444332  1  2467777777777766655433   5667777777777665 33321         


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                      ....+++|+.                          |++++| .+..++.    +                    ..+++
T Consensus       172 ~~~~l~~L~~--------------------------L~l~~n-~l~~~~~----~--------------------~~l~~  200 (347)
T 4fmz_A          172 PIANLTDLYS--------------------------LSLNYN-QIEDISP----L--------------------ASLTS  200 (347)
T ss_dssp             GGGGCTTCSE--------------------------EECTTS-CCCCCGG----G--------------------GGCTT
T ss_pred             hhccCCCCCE--------------------------EEccCC-ccccccc----c--------------------cCCCc
Confidence            1222344444                          444443 1222210    0                    01455


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      |+.|++++|.+..+.+    ...+++|++|++++|.+..++.  +..+++|+.|+++.|.++.+.       .+..+++|
T Consensus       201 L~~L~l~~n~l~~~~~----~~~~~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~-------~~~~l~~L  267 (347)
T 4fmz_A          201 LHYFTAYVNQITDITP----VANMTRLNSLKIGNNKITDLSP--LANLSQLTWLEIGTNQISDIN-------AVKDLTKL  267 (347)
T ss_dssp             CCEEECCSSCCCCCGG----GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCCG-------GGTTCTTC
T ss_pred             cceeecccCCCCCCch----hhcCCcCCEEEccCCccCCCcc--hhcCCCCCEEECCCCccCCCh-------hHhcCCCc
Confidence            5566665555554432    3445666666666666666654  566667777777655555432       12235667


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccE
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTK  936 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~  936 (1212)
                      +.|++++|. +..+     ..+..+++|+.|++++|......|..+..+++|+.|++++|+ ++.+++   +..+++|+.
T Consensus       268 ~~L~l~~n~-l~~~-----~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n~-l~~~~~---~~~l~~L~~  337 (347)
T 4fmz_A          268 KMLNVGSNQ-ISDI-----SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNH-ITDIRP---LASLSKMDS  337 (347)
T ss_dssp             CEEECCSSC-CCCC-----GGGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSSS-CCCCGG---GGGCTTCSE
T ss_pred             CEEEccCCc-cCCC-----hhhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCCc-cccccC---hhhhhccce
Confidence            777776652 3332     235566777777777765544444455667777777777763 555542   456677777


Q ss_pred             EEecCcc
Q 000945          937 LRIDGCR  943 (1212)
Q Consensus       937 L~i~~c~  943 (1212)
                      |++++|+
T Consensus       338 L~l~~N~  344 (347)
T 4fmz_A          338 ADFANQV  344 (347)
T ss_dssp             ESSSCC-
T ss_pred             eehhhhc
Confidence            7777765

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.85  E-value=2.4e-21  Score=227.45  Aligned_cols=166  Identities=15%  Similarity=0.110  Sum_probs=97.5

Q ss_pred             CCccccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCC
Q 000945          488 LRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLP  567 (1212)
Q Consensus       488 ~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  567 (1212)
                      .+++.+++|++|+++++ .++.+|   .+..+++|++|++++|. +..++              +..+++|++|+++++.
T Consensus        36 ~~~~~l~~L~~L~Ls~n-~l~~~~---~l~~l~~L~~L~Ls~n~-l~~~~--------------~~~l~~L~~L~Ls~N~   96 (457)
T 3bz5_A           36 ISEEQLATLTSLDCHNS-SITDMT---GIEKLTGLTKLICTSNN-ITTLD--------------LSQNTNLTYLACDSNK   96 (457)
T ss_dssp             EEHHHHTTCCEEECCSS-CCCCCT---TGGGCTTCSEEECCSSC-CSCCC--------------CTTCTTCSEEECCSSC
T ss_pred             cChhHcCCCCEEEccCC-CcccCh---hhcccCCCCEEEccCCc-CCeEc--------------cccCCCCCEEECcCCC
Confidence            45667888888888885 677764   36778888888888875 44432              3456677777766642


Q ss_pred             cccccccccccchhhHhhhcccccccCCcceecccccccccccccccccccccceeeccccccceecccCcccccCcCcc
Q 000945          568 QLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLT  647 (1212)
Q Consensus       568 ~l~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~  647 (1212)
                       +..+                                        .+..+++|++|++++|.+..++.     ..+++|+
T Consensus        97 -l~~~----------------------------------------~~~~l~~L~~L~L~~N~l~~l~~-----~~l~~L~  130 (457)
T 3bz5_A           97 -LTNL----------------------------------------DVTPLTKLTYLNCDTNKLTKLDV-----SQNPLLT  130 (457)
T ss_dssp             -CSCC----------------------------------------CCTTCTTCCEEECCSSCCSCCCC-----TTCTTCC
T ss_pred             -Ccee----------------------------------------ecCCCCcCCEEECCCCcCCeecC-----CCCCcCC
Confidence             2111                                        01334677777777776555432     2467777


Q ss_pred             EEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCC
Q 000945          648 RLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKW  727 (1212)
Q Consensus       648 ~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~  727 (1212)
                      +|++++| .++.+ +   ++.+++|++|++++|..+..+          ....+++|+.|+++++. +..++    ...+
T Consensus       131 ~L~l~~N-~l~~l-~---l~~l~~L~~L~l~~n~~~~~~----------~~~~l~~L~~L~ls~n~-l~~l~----l~~l  190 (457)
T 3bz5_A          131 YLNCARN-TLTEI-D---VSHNTQLTELDCHLNKKITKL----------DVTPQTQLTTLDCSFNK-ITELD----VSQN  190 (457)
T ss_dssp             EEECTTS-CCSCC-C---CTTCTTCCEEECTTCSCCCCC----------CCTTCTTCCEEECCSSC-CCCCC----CTTC
T ss_pred             EEECCCC-cccee-c---cccCCcCCEEECCCCCccccc----------ccccCCcCCEEECCCCc-cceec----cccC
Confidence            7777765 45544 2   466777777777777545444          12235566666665542 22222    1134


Q ss_pred             CCccEEEEecC
Q 000945          728 PMLKKLEVYGC  738 (1212)
Q Consensus       728 ~~L~~L~i~~C  738 (1212)
                      ++|+.|++++|
T Consensus       191 ~~L~~L~l~~N  201 (457)
T 3bz5_A          191 KLLNRLNCDTN  201 (457)
T ss_dssp             TTCCEEECCSS
T ss_pred             CCCCEEECcCC
Confidence            45555555544

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.85  E-value=2.6e-20  Score=215.87  Aligned_cols=308  Identities=15%  Similarity=0.201  Sum_probs=177.1

Q ss_pred             ccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccc
Q 000945          492 SFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTS  571 (1212)
Q Consensus       492 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~  571 (1212)
                      .+++|++|+++++ .++.+|. ..+..+++|++|+++++. +..++.           ..+..+++|++|+++++. +..
T Consensus        43 ~l~~l~~l~l~~~-~l~~l~~-~~~~~l~~L~~L~L~~n~-i~~~~~-----------~~~~~l~~L~~L~L~~n~-l~~  107 (390)
T 3o6n_A           43 TLNNQKIVTFKNS-TMRKLPA-ALLDSFRQVELLNLNDLQ-IEEIDT-----------YAFAYAHTIQKLYMGFNA-IRY  107 (390)
T ss_dssp             GGCCCSEEEEESC-EESEECT-HHHHHCCCCSEEECTTSC-CCEECT-----------TTTTTCTTCCEEECCSSC-CCC
T ss_pred             ccCCceEEEecCC-chhhCCh-hHhcccccCcEEECCCCc-ccccCh-----------hhccCCCCcCEEECCCCC-CCc
Confidence            4677888888774 5677764 345777888888887765 554443           134556666666666542 222


Q ss_pred             cccccccchhhHhhhcccccccCCcceecccccccccccccccccccccceeeccccccceecccCcccccCcCccEEEE
Q 000945          572 FYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIV  651 (1212)
Q Consensus       572 ~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L  651 (1212)
                      ++.                                     ..+..+++|++|++++|.+..+....+.  .+++|++|++
T Consensus       108 ~~~-------------------------------------~~~~~l~~L~~L~L~~n~l~~l~~~~~~--~l~~L~~L~L  148 (390)
T 3o6n_A          108 LPP-------------------------------------HVFQNVPLLTVLVLERNDLSSLPRGIFH--NTPKLTTLSM  148 (390)
T ss_dssp             CCT-------------------------------------TTTTTCTTCCEEECCSSCCCCCCTTTTT--TCTTCCEEEC
T ss_pred             CCH-------------------------------------HHhcCCCCCCEEECCCCccCcCCHHHhc--CCCCCcEEEC
Confidence            111                                     1123346666666666655544433222  3666667776


Q ss_pred             ecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCCCCcc
Q 000945          652 HGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLK  731 (1212)
Q Consensus       652 ~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~  731 (1212)
                      ++| .+..+++.. ++.+++|++|++++|. +..+          ....+++|+.|                        
T Consensus       149 ~~n-~l~~~~~~~-~~~l~~L~~L~l~~n~-l~~~----------~~~~l~~L~~L------------------------  191 (390)
T 3o6n_A          149 SNN-NLERIEDDT-FQATTSLQNLQLSSNR-LTHV----------DLSLIPSLFHA------------------------  191 (390)
T ss_dssp             CSS-CCCBCCTTT-TSSCTTCCEEECCSSC-CSBC----------CGGGCTTCSEE------------------------
T ss_pred             CCC-ccCccChhh-ccCCCCCCEEECCCCc-CCcc----------cccccccccee------------------------
Confidence            664 344444322 3566667777666664 3322          11224444444                        


Q ss_pred             EEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecC
Q 000945          732 KLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVND  811 (1212)
Q Consensus       732 ~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~  811 (1212)
                        +++++ .+..++                           .+++|+.|++++|.+..+..     ..+++|+.|++++|
T Consensus       192 --~l~~n-~l~~~~---------------------------~~~~L~~L~l~~n~l~~~~~-----~~~~~L~~L~l~~n  236 (390)
T 3o6n_A          192 --NVSYN-LLSTLA---------------------------IPIAVEELDASHNSINVVRG-----PVNVELTILKLQHN  236 (390)
T ss_dssp             --ECCSS-CCSEEE---------------------------CCSSCSEEECCSSCCCEEEC-----CCCSSCCEEECCSS
T ss_pred             --ecccc-cccccC---------------------------CCCcceEEECCCCeeeeccc-----cccccccEEECCCC
Confidence              44443 222221                           13455555565555555432     12356666666666


Q ss_pred             CccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEec
Q 000945          812 ESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWW  891 (1212)
Q Consensus       812 ~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~  891 (1212)
                      .+...+  .+..+++|+.|+++.|.++.+.+     ..+..+++|+.|+++++. +..+    +.....+++|++|++++
T Consensus       237 ~l~~~~--~l~~l~~L~~L~Ls~n~l~~~~~-----~~~~~l~~L~~L~L~~n~-l~~~----~~~~~~l~~L~~L~L~~  304 (390)
T 3o6n_A          237 NLTDTA--WLLNYPGLVEVDLSYNELEKIMY-----HPFVKMQRLERLYISNNR-LVAL----NLYGQPIPTLKVLDLSH  304 (390)
T ss_dssp             CCCCCG--GGGGCTTCSEEECCSSCCCEEES-----GGGTTCSSCCEEECCSSC-CCEE----ECSSSCCTTCCEEECCS
T ss_pred             CCcccH--HHcCCCCccEEECCCCcCCCcCh-----hHccccccCCEEECCCCc-Cccc----CcccCCCCCCCEEECCC
Confidence            655543  25666777777777555655433     223346677777777653 3444    23345677888888887


Q ss_pred             CCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcc
Q 000945          892 CENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       892 c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      | .++.+|+.+..+++|+.|++++| .++.++    +..+++|+.|++++|+
T Consensus       305 n-~l~~~~~~~~~l~~L~~L~L~~N-~i~~~~----~~~~~~L~~L~l~~N~  350 (390)
T 3o6n_A          305 N-HLLHVERNQPQFDRLENLYLDHN-SIVTLK----LSTHHTLKNLTLSHND  350 (390)
T ss_dssp             S-CCCCCGGGHHHHTTCSEEECCSS-CCCCCC----CCTTCCCSEEECCSSC
T ss_pred             C-cceecCccccccCcCCEEECCCC-ccceeC----chhhccCCEEEcCCCC
Confidence            6 45677777777888888888885 466664    3567788888888876

>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=99.84  E-value=3.2e-20  Score=211.60  Aligned_cols=304  Identities=14%  Similarity=0.141  Sum_probs=207.8

Q ss_pred             ccccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccc
Q 000945          615 VVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEE  694 (1212)
Q Consensus       615 ~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~  694 (1212)
                      ..+++|+.|+++++.+..+..  +  ..+++|++|++++| .++.+++   +..+++|++|++++|. +..++       
T Consensus        41 ~~l~~L~~L~l~~~~i~~~~~--~--~~~~~L~~L~l~~n-~i~~~~~---~~~l~~L~~L~L~~n~-i~~~~-------  104 (347)
T 4fmz_A           41 EELESITKLVVAGEKVASIQG--I--EYLTNLEYLNLNGN-QITDISP---LSNLVKLTNLYIGTNK-ITDIS-------  104 (347)
T ss_dssp             HHHTTCSEEECCSSCCCCCTT--G--GGCTTCCEEECCSS-CCCCCGG---GTTCTTCCEEECCSSC-CCCCG-------
T ss_pred             hhcccccEEEEeCCccccchh--h--hhcCCccEEEccCC-ccccchh---hhcCCcCCEEEccCCc-ccCch-------
Confidence            356889999999997665432  2  36899999999997 6777665   6889999999999985 65552       


Q ss_pred             ccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeec
Q 000945          695 ATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVT  774 (1212)
Q Consensus       695 ~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l  774 (1212)
                        ....+++|++|++.++. +..++.   ...+++|+.|++++|+.+..++.    +                    ..+
T Consensus       105 --~~~~l~~L~~L~l~~n~-i~~~~~---~~~l~~L~~L~l~~n~~~~~~~~----~--------------------~~l  154 (347)
T 4fmz_A          105 --ALQNLTNLRELYLNEDN-ISDISP---LANLTKMYSLNLGANHNLSDLSP----L--------------------SNM  154 (347)
T ss_dssp             --GGTTCTTCSEEECTTSC-CCCCGG---GTTCTTCCEEECTTCTTCCCCGG----G--------------------TTC
T ss_pred             --HHcCCCcCCEEECcCCc-ccCchh---hccCCceeEEECCCCCCcccccc----h--------------------hhC
Confidence              24468899999998874 333332   33688999999999977766531    1                    127


Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      ++|++|++++|.+..+.+    ...+++|+.|++++|.+..++.  +..+++|+.|+++.+.+..+.+       +..++
T Consensus       155 ~~L~~L~l~~~~~~~~~~----~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~~-------~~~~~  221 (347)
T 4fmz_A          155 TGLNYLTVTESKVKDVTP----IANLTDLYSLSLNYNQIEDISP--LASLTSLHYFTAYVNQITDITP-------VANMT  221 (347)
T ss_dssp             TTCCEEECCSSCCCCCGG----GGGCTTCSEEECTTSCCCCCGG--GGGCTTCCEEECCSSCCCCCGG-------GGGCT
T ss_pred             CCCcEEEecCCCcCCchh----hccCCCCCEEEccCCccccccc--ccCCCccceeecccCCCCCCch-------hhcCC
Confidence            889999998888777653    5578889999999888888776  7788889999888767765543       23478


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccc
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCL  934 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L  934 (1212)
                      +|++|++++|. +..++     .+..+++|++|++++| .++.++ .+..+++|+.|++++| .++.++   .+..+++|
T Consensus       222 ~L~~L~l~~n~-l~~~~-----~~~~l~~L~~L~l~~n-~l~~~~-~~~~l~~L~~L~l~~n-~l~~~~---~~~~l~~L  289 (347)
T 4fmz_A          222 RLNSLKIGNNK-ITDLS-----PLANLSQLTWLEIGTN-QISDIN-AVKDLTKLKMLNVGSN-QISDIS---VLNNLSQL  289 (347)
T ss_dssp             TCCEEECCSSC-CCCCG-----GGTTCTTCCEEECCSS-CCCCCG-GGTTCTTCCEEECCSS-CCCCCG---GGGGCTTC
T ss_pred             cCCEEEccCCc-cCCCc-----chhcCCCCCEEECCCC-ccCCCh-hHhcCCCcCEEEccCC-ccCCCh---hhcCCCCC
Confidence            88888888864 33331     2667888888888887 344453 4567888888888886 566663   45677888


Q ss_pred             cEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCC
Q 000945          935 TKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECP 1000 (1212)
Q Consensus       935 ~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~ 1000 (1212)
                      +.|++++|......+.       ....+++|+.|++++|+ ++.++. ..  .+++|++|++++|+
T Consensus       290 ~~L~L~~n~l~~~~~~-------~l~~l~~L~~L~L~~n~-l~~~~~-~~--~l~~L~~L~l~~N~  344 (347)
T 4fmz_A          290 NSLFLNNNQLGNEDME-------VIGGLTNLTTLFLSQNH-ITDIRP-LA--SLSKMDSADFANQV  344 (347)
T ss_dssp             SEEECCSSCCCGGGHH-------HHHTCTTCSEEECCSSS-CCCCGG-GG--GCTTCSEESSSCC-
T ss_pred             CEEECcCCcCCCcChh-------HhhccccCCEEEccCCc-cccccC-hh--hhhccceeehhhhc
Confidence            8888888863222221       12234555555555554 334333 11  23555555555543

>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=99.84  E-value=5.2e-20  Score=225.42  Aligned_cols=308  Identities=15%  Similarity=0.200  Sum_probs=178.1

Q ss_pred             ccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccCCcccc
Q 000945          492 SFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFLPQLTS  571 (1212)
Q Consensus       492 ~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~l~~  571 (1212)
                      .+.+++.|+++++ .+..+|+ ..+.++++|++|++++|. +..++.           ..+..+++|+.|+|+++. +..
T Consensus        49 ~l~~l~~l~l~~~-~l~~lp~-~~~~~l~~L~~L~L~~n~-l~~~~~-----------~~~~~l~~L~~L~L~~n~-l~~  113 (597)
T 3oja_B           49 TLNNQKIVTFKNS-TMRKLPA-ALLDSFRQVELLNLNDLQ-IEEIDT-----------YAFAYAHTIQKLYMGFNA-IRY  113 (597)
T ss_dssp             GGCCCSEEEESSC-EESEECT-HHHHHCCCCSEEECTTSC-CCEECT-----------TTTTTCTTCCEEECCSSC-CCC
T ss_pred             cCCCceEEEeeCC-CCCCcCH-HHHccCCCCcEEECCCCC-CCCCCh-----------HHhcCCCCCCEEECCCCc-CCC
Confidence            4567777877774 5666664 446777888888887765 544443           134556666666666543 222


Q ss_pred             cccccccchhhHhhhcccccccCCcceecccccccccccccccccccccceeeccccccceecccCcccccCcCccEEEE
Q 000945          572 FYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIV  651 (1212)
Q Consensus       572 ~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L  651 (1212)
                      ++.                                     ..+..+++|+.|+|++|.+..++...+.  .+++|++|+|
T Consensus       114 ~~~-------------------------------------~~~~~l~~L~~L~L~~n~l~~l~~~~~~--~l~~L~~L~L  154 (597)
T 3oja_B          114 LPP-------------------------------------HVFQNVPLLTVLVLERNDLSSLPRGIFH--NTPKLTTLSM  154 (597)
T ss_dssp             CCT-------------------------------------TTTTTCTTCCEEECCSSCCCCCCTTTTT--TCTTCCEEEC
T ss_pred             CCH-------------------------------------HHHcCCCCCCEEEeeCCCCCCCCHHHhc--cCCCCCEEEe
Confidence            111                                     1123346677777777655554443322  4667777777


Q ss_pred             ecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCCCcCCCCCcc
Q 000945          652 HGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLK  731 (1212)
Q Consensus       652 ~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~  731 (1212)
                      ++| .+..+++.. ++.+++|++|++++|. +..+          ....+++|+.|++.++                   
T Consensus       155 s~N-~l~~~~~~~-~~~l~~L~~L~L~~N~-l~~~----------~~~~l~~L~~L~l~~n-------------------  202 (597)
T 3oja_B          155 SNN-NLERIEDDT-FQATTSLQNLQLSSNR-LTHV----------DLSLIPSLFHANVSYN-------------------  202 (597)
T ss_dssp             CSS-CCCBCCTTT-TTTCTTCCEEECTTSC-CSBC----------CGGGCTTCSEEECCSS-------------------
T ss_pred             eCC-cCCCCChhh-hhcCCcCcEEECcCCC-CCCc----------ChhhhhhhhhhhcccC-------------------
Confidence            765 445544432 4667777777777665 3332          1223444554444433                   


Q ss_pred             EEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccccceEeEeecC
Q 000945          732 KLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVND  811 (1212)
Q Consensus       732 ~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~  811 (1212)
                              .+..++                           .+++|+.|++++|.+..+...     ..++|+.|++++|
T Consensus       203 --------~l~~l~---------------------------~~~~L~~L~ls~n~l~~~~~~-----~~~~L~~L~L~~n  242 (597)
T 3oja_B          203 --------LLSTLA---------------------------IPIAVEELDASHNSINVVRGP-----VNVELTILKLQHN  242 (597)
T ss_dssp             --------CCSEEE---------------------------CCTTCSEEECCSSCCCEEECS-----CCSCCCEEECCSS
T ss_pred             --------cccccc---------------------------CCchhheeeccCCcccccccc-----cCCCCCEEECCCC
Confidence                    222220                           134455555555555444321     1245666666665


Q ss_pred             CccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEec
Q 000945          812 ESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWW  891 (1212)
Q Consensus       812 ~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~  891 (1212)
                      .+...+  .+..+++|+.|+++.|.+..+++     ..+..+++|+.|++++|. +..+    +.....+++|+.|++++
T Consensus       243 ~l~~~~--~l~~l~~L~~L~Ls~N~l~~~~~-----~~~~~l~~L~~L~Ls~N~-l~~l----~~~~~~l~~L~~L~Ls~  310 (597)
T 3oja_B          243 NLTDTA--WLLNYPGLVEVDLSYNELEKIMY-----HPFVKMQRLERLYISNNR-LVAL----NLYGQPIPTLKVLDLSH  310 (597)
T ss_dssp             CCCCCG--GGGGCTTCSEEECCSSCCCEEES-----GGGTTCSSCCEEECTTSC-CCEE----ECSSSCCTTCCEEECCS
T ss_pred             CCCCCh--hhccCCCCCEEECCCCccCCCCH-----HHhcCccCCCEEECCCCC-CCCC----CcccccCCCCcEEECCC
Confidence            555532  25666667777766555655533     223346667777776653 3444    33445677888888887


Q ss_pred             CCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcc
Q 000945          892 CENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       892 c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      |. +..+|+.+..+++|+.|++++| .+..++    +..+++|+.|++++|+
T Consensus       311 N~-l~~i~~~~~~l~~L~~L~L~~N-~l~~~~----~~~~~~L~~L~l~~N~  356 (597)
T 3oja_B          311 NH-LLHVERNQPQFDRLENLYLDHN-SIVTLK----LSTHHTLKNLTLSHND  356 (597)
T ss_dssp             SC-CCCCGGGHHHHTTCSEEECCSS-CCCCCC----CCTTCCCSEEECCSSC
T ss_pred             CC-CCccCcccccCCCCCEEECCCC-CCCCcC----hhhcCCCCEEEeeCCC
Confidence            64 4577777778888888888886 466554    3566788888888877

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.82  E-value=2.8e-19  Score=207.13  Aligned_cols=59  Identities=22%  Similarity=0.232  Sum_probs=38.2

Q ss_pred             cccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEecccccccee
Q 000945          618 PNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESI  686 (1212)
Q Consensus       618 ~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i  686 (1212)
                      ++|+.|++++|.+..+...     .+++|+.|++++| .++..+   .++.+++|++|++++|. +..+
T Consensus       205 ~~L~~L~l~~n~l~~~~~~-----~~~~L~~L~l~~n-~l~~~~---~l~~l~~L~~L~Ls~n~-l~~~  263 (390)
T 3o6n_A          205 IAVEELDASHNSINVVRGP-----VNVELTILKLQHN-NLTDTA---WLLNYPGLVEVDLSYNE-LEKI  263 (390)
T ss_dssp             SSCSEEECCSSCCCEEECC-----CCSSCCEEECCSS-CCCCCG---GGGGCTTCSEEECCSSC-CCEE
T ss_pred             CcceEEECCCCeeeecccc-----ccccccEEECCCC-CCcccH---HHcCCCCccEEECCCCc-CCCc
Confidence            5677777777766554332     3577888888876 455432   26778888888888775 4443

>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=99.82  E-value=1.6e-19  Score=214.41  Aligned_cols=361  Identities=15%  Similarity=0.106  Sum_probs=250.5

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++|++|++++|.+..+....+.  .+++|++|++++|.....+++.. ++.+++|++|++++|. +..+...       
T Consensus        29 ~~~l~~L~Ls~n~i~~~~~~~~~--~l~~L~~L~L~~n~~~~~i~~~~-~~~l~~L~~L~Ls~n~-l~~~~~~-------   97 (455)
T 3v47_A           29 PAHVNYVDLSLNSIAELNETSFS--RLQDLQFLKVEQQTPGLVIRNNT-FRGLSSLIILKLDYNQ-FLQLETG-------   97 (455)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTS--SCTTCCEEECCCCSTTCEECTTT-TTTCTTCCEEECTTCT-TCEECTT-------
T ss_pred             CCccCEEEecCCccCcCChhHhc--cCccccEEECcCCcccceECccc-ccccccCCEEeCCCCc-cCccChh-------
Confidence            37899999999988776555443  68999999999986554655533 5889999999999987 5555322       


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                      ....+++|++|++.++.--...+.......+++|+.|++++|. +..+++.. .+                    ..+++
T Consensus        98 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~-~~--------------------~~l~~  155 (455)
T 3v47_A           98 AFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNN-IKKIQPAS-FF--------------------LNMRR  155 (455)
T ss_dssp             TTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSB-CCSCCCCG-GG--------------------GGCTT
T ss_pred             hccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCc-cCccCccc-cc--------------------CCCCc
Confidence            3345899999999998643333333223468999999999974 44331100 01                    12789


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHH--------hhcCccceeEEEccceeEeccccchhh
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFL--------ERFHNLEKLELRWSSYKEIFSNEEIVE  848 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l--------~~l~~L~~L~l~c~~l~~~~~~~~~~~  848 (1212)
                      |++|++++|.+.++.+.........+|+.|+++++.+..++...+        ..+++|+.|+++.|.+....+..-  .
T Consensus       156 L~~L~L~~n~l~~~~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~--~  233 (455)
T 3v47_A          156 FHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRF--F  233 (455)
T ss_dssp             CCEEECTTCCBSCCCTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHH--H
T ss_pred             ccEEeCCCCcccccChhhhhccccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhh--h
Confidence            999999999988876543332233689999999988877765432        246789999999666654332110  0


Q ss_pred             ccccccccceEeeCCCccchhh------hccCCCCcc--ccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcc
Q 000945          849 HAEMLTQVKSLKLWELSDLMYI------WKQDSKLDS--ITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLM  920 (1212)
Q Consensus       849 ~~~~l~~L~~L~l~~c~~l~~l------~~~~~~~~~--~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~  920 (1212)
                      .....++|+.|++++|......      .......+.  ..++|+.|++++|.....+|..+..+++|+.|++++| .++
T Consensus       234 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~  312 (455)
T 3v47_A          234 DAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQN-EIN  312 (455)
T ss_dssp             HHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTS-CCC
T ss_pred             ccccccceeeEeeccccccccccchhhhccCcccccccccccCceEEEecCccccccchhhcccCCCCCEEECCCC-ccc
Confidence            0111378999999887433211      000111122  2368999999998877777777889999999999996 566


Q ss_pred             cccchhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccC-CCceeecCCccEEEeccC
Q 000945          921 NLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCS-GNYTLKFPSLEDLFVIEC  999 (1212)
Q Consensus       921 ~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~-~~~~~~~~sL~~L~i~~C  999 (1212)
                      .+++ ..+..+++|+.|++++|. +..++.      .....+++|+.|+++++. +..++. ...  .+++|++|++++|
T Consensus       313 ~~~~-~~~~~l~~L~~L~Ls~N~-l~~~~~------~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~--~l~~L~~L~L~~N  381 (455)
T 3v47_A          313 KIDD-NAFWGLTHLLKLNLSQNF-LGSIDS------RMFENLDKLEVLDLSYNH-IRALGDQSFL--GLPNLKELALDTN  381 (455)
T ss_dssp             EECT-TTTTTCTTCCEEECCSSC-CCEECG------GGGTTCTTCCEEECCSSC-CCEECTTTTT--TCTTCCEEECCSS
T ss_pred             ccCh-hHhcCcccCCEEECCCCc-cCCcCh------hHhcCcccCCEEECCCCc-ccccChhhcc--ccccccEEECCCC
Confidence            6643 355788999999999986 444431      123457999999999984 666643 333  4699999999997


Q ss_pred             CCccccCcCC-cCCCccceEEeccCcc
Q 000945         1000 PKMKIFSHRV-LSTPRLREVRQNWGLY 1025 (1212)
Q Consensus      1000 ~~l~~lp~~~-~~~~~L~~l~~~~~~~ 1025 (1212)
                       .++.+|... ..+++|+.+++++|..
T Consensus       382 -~l~~~~~~~~~~l~~L~~L~l~~N~l  407 (455)
T 3v47_A          382 -QLKSVPDGIFDRLTSLQKIWLHTNPW  407 (455)
T ss_dssp             -CCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             -ccccCCHhHhccCCcccEEEccCCCc
Confidence             566777654 7889999999998764

>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=99.81  E-value=2.9e-19  Score=218.76  Aligned_cols=263  Identities=14%  Similarity=0.122  Sum_probs=114.4

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++++.|+++++.+..++...+.  .+++|+.|+|++| .+..+++.. ++.+++|++|+|++|. +..++..       
T Consensus        50 l~~l~~l~l~~~~l~~lp~~~~~--~l~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~L~~n~-l~~~~~~-------  117 (597)
T 3oja_B           50 LNNQKIVTFKNSTMRKLPAALLD--SFRQVELLNLNDL-QIEEIDTYA-FAYAHTIQKLYMGFNA-IRYLPPH-------  117 (597)
T ss_dssp             GCCCSEEEESSCEESEECTHHHH--HCCCCSEEECTTS-CCCEECTTT-TTTCTTCCEEECCSSC-CCCCCTT-------
T ss_pred             CCCceEEEeeCCCCCCcCHHHHc--cCCCCcEEECCCC-CCCCCChHH-hcCCCCCCEEECCCCc-CCCCCHH-------
Confidence            35566666666655444332221  3556666666654 344444422 3556666666666654 4443221       


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                      .+..+++|++|+++++ .+..++... ...+++|+.|++++| .+..+++.  .+                    ..+++
T Consensus       118 ~~~~l~~L~~L~L~~n-~l~~l~~~~-~~~l~~L~~L~Ls~N-~l~~~~~~--~~--------------------~~l~~  172 (597)
T 3oja_B          118 VFQNVPLLTVLVLERN-DLSSLPRGI-FHNTPKLTTLSMSNN-NLERIEDD--TF--------------------QATTS  172 (597)
T ss_dssp             TTTTCTTCCEEECCSS-CCCCCCTTT-TTTCTTCCEEECCSS-CCCBCCTT--TT--------------------TTCTT
T ss_pred             HHcCCCCCCEEEeeCC-CCCCCCHHH-hccCCCCCEEEeeCC-cCCCCChh--hh--------------------hcCCc
Confidence            1223455555555554 233333221 113455555555554 22222110  00                    01345


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      |+.|++++|.+..+.     ...+++|+.|++++|.+..++     ..++|+.|+++.|.+..+++..        +++|
T Consensus       173 L~~L~L~~N~l~~~~-----~~~l~~L~~L~l~~n~l~~l~-----~~~~L~~L~ls~n~l~~~~~~~--------~~~L  234 (597)
T 3oja_B          173 LQNLQLSSNRLTHVD-----LSLIPSLFHANVSYNLLSTLA-----IPIAVEELDASHNSINVVRGPV--------NVEL  234 (597)
T ss_dssp             CCEEECTTSCCSBCC-----GGGCTTCSEEECCSSCCSEEE-----CCTTCSEEECCSSCCCEEECSC--------CSCC
T ss_pred             CcEEECcCCCCCCcC-----hhhhhhhhhhhcccCcccccc-----CCchhheeeccCCccccccccc--------CCCC
Confidence            555555555444432     223444555555554444332     1234555555544444433211        3445


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccE
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTK  936 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~  936 (1212)
                      +.|++++|. +..     +..+..+++|+.|++++|...+..|..+..+++|+.|++++| .++.+|  .....+++|+.
T Consensus       235 ~~L~L~~n~-l~~-----~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~--~~~~~l~~L~~  305 (597)
T 3oja_B          235 TILKLQHNN-LTD-----TAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNN-RLVALN--LYGQPIPTLKV  305 (597)
T ss_dssp             CEEECCSSC-CCC-----CGGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTS-CCCEEE--CSSSCCTTCCE
T ss_pred             CEEECCCCC-CCC-----ChhhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCC-CCCCCC--cccccCCCCcE
Confidence            555554432 111     233444455555555544433333444444455555555443 344433  22233444444


Q ss_pred             EEecCcc
Q 000945          937 LRIDGCR  943 (1212)
Q Consensus       937 L~i~~c~  943 (1212)
                      |++++|.
T Consensus       306 L~Ls~N~  312 (597)
T 3oja_B          306 LDLSHNH  312 (597)
T ss_dssp             EECCSSC
T ss_pred             EECCCCC
Confidence            4444443

>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=99.80  E-value=1.5e-18  Score=207.18  Aligned_cols=301  Identities=15%  Similarity=0.091  Sum_probs=159.1

Q ss_pred             cccceeecccccccceeecccCCccccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCcc
Q 000945          467 LLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVD  546 (1212)
Q Consensus       467 ~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~  546 (1212)
                      ++++.|+|+++ .+..+  .+..+..+++|++|+|+++ .+..+++ ..+.++++|++|+++++. +..++.        
T Consensus        32 ~~l~~L~L~~n-~l~~~--~~~~~~~l~~L~~L~L~~n-~i~~~~~-~~~~~l~~L~~L~L~~n~-l~~~~~--------   97 (477)
T 2id5_A           32 TETRLLDLGKN-RIKTL--NQDEFASFPHLEELELNEN-IVSAVEP-GAFNNLFNLRTLGLRSNR-LKLIPL--------   97 (477)
T ss_dssp             TTCSEEECCSS-CCCEE--CTTTTTTCTTCCEEECTTS-CCCEECT-TTTTTCTTCCEEECCSSC-CCSCCT--------
T ss_pred             CCCcEEECCCC-ccceE--CHhHccCCCCCCEEECCCC-ccCEeCh-hhhhCCccCCEEECCCCc-CCccCc--------
Confidence            45555555554 22222  1334556666777777664 5555533 345666777777776654 555543        


Q ss_pred             CCccCceecccccEEecccCCcccccccccccchhhHhhhcccccccCCcceecccccccccccccccccccccceeecc
Q 000945          547 CHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLELC  626 (1212)
Q Consensus       547 ~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~l~  626 (1212)
                         ..+..+++|++|+++++.- ..+..                                     ..+..+++|+.|+++
T Consensus        98 ---~~~~~l~~L~~L~Ls~n~i-~~~~~-------------------------------------~~~~~l~~L~~L~l~  136 (477)
T 2id5_A           98 ---GVFTGLSNLTKLDISENKI-VILLD-------------------------------------YMFQDLYNLKSLEVG  136 (477)
T ss_dssp             ---TSSTTCTTCCEEECTTSCC-CEECT-------------------------------------TTTTTCTTCCEEEEC
T ss_pred             ---ccccCCCCCCEEECCCCcc-ccCCh-------------------------------------hHccccccCCEEECC
Confidence               1244566666666665421 11100                                     112345677777777


Q ss_pred             ccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccce
Q 000945          627 AISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTF  706 (1212)
Q Consensus       627 ~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~  706 (1212)
                      +|.+..+....+.  .+++|+.|++++| .++.+++. .+.++++|+.|+++++. +..+...       ....+++|+.
T Consensus       137 ~n~l~~~~~~~~~--~l~~L~~L~l~~n-~l~~~~~~-~l~~l~~L~~L~l~~n~-i~~~~~~-------~~~~l~~L~~  204 (477)
T 2id5_A          137 DNDLVYISHRAFS--GLNSLEQLTLEKC-NLTSIPTE-ALSHLHGLIVLRLRHLN-INAIRDY-------SFKRLYRLKV  204 (477)
T ss_dssp             CTTCCEECTTSST--TCTTCCEEEEESC-CCSSCCHH-HHTTCTTCCEEEEESCC-CCEECTT-------CSCSCTTCCE
T ss_pred             CCccceeChhhcc--CCCCCCEEECCCC-cCcccChh-HhcccCCCcEEeCCCCc-CcEeChh-------hcccCcccce
Confidence            7766555444433  4677788888775 55555443 34677778888877775 4444221       1222444555


Q ss_pred             eecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeecccc
Q 000945          707 LKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKD  786 (1212)
Q Consensus       707 L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~  786 (1212)
                      |++.+++.+..++....  ...                                               +|+.|++++|.
T Consensus       205 L~l~~~~~~~~~~~~~~--~~~-----------------------------------------------~L~~L~l~~n~  235 (477)
T 2id5_A          205 LEISHWPYLDTMTPNCL--YGL-----------------------------------------------NLTSLSITHCN  235 (477)
T ss_dssp             EEEECCTTCCEECTTTT--TTC-----------------------------------------------CCSEEEEESSC
T ss_pred             eeCCCCccccccCcccc--cCc-----------------------------------------------cccEEECcCCc
Confidence            55544444444332211  122                                               45555555554


Q ss_pred             ccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCcc
Q 000945          787 IAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSD  866 (1212)
Q Consensus       787 ~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~  866 (1212)
                      +..++.  .....+++|+.|++++|.+..++...+..+++|+.|+++.|.+..+.+     ..+..+++|+.|+++++. 
T Consensus       236 l~~~~~--~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-----~~~~~l~~L~~L~L~~N~-  307 (477)
T 2id5_A          236 LTAVPY--LAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEP-----YAFRGLNYLRVLNVSGNQ-  307 (477)
T ss_dssp             CCSCCH--HHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSCCSEECT-----TTBTTCTTCCEEECCSSC-
T ss_pred             ccccCH--HHhcCccccCeeECCCCcCCccChhhccccccCCEEECCCCccceECH-----HHhcCcccCCEEECCCCc-
Confidence            444331  112345556666666655555555555666666666666555555433     123335666666666652 


Q ss_pred             chhhhccCCCCccccCcccEEEEecCCC
Q 000945          867 LMYIWKQDSKLDSITENLESLEVWWCEN  894 (1212)
Q Consensus       867 l~~l~~~~~~~~~~l~~L~~L~l~~c~~  894 (1212)
                      +..++   +..+..+++|+.|++++|+.
T Consensus       308 l~~~~---~~~~~~l~~L~~L~l~~N~l  332 (477)
T 2id5_A          308 LTTLE---ESVFHSVGNLETLILDSNPL  332 (477)
T ss_dssp             CSCCC---GGGBSCGGGCCEEECCSSCE
T ss_pred             CceeC---HhHcCCCcccCEEEccCCCc
Confidence            33331   23345667777777776653

>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=99.79  E-value=2e-18  Score=206.02  Aligned_cols=204  Identities=18%  Similarity=0.155  Sum_probs=106.6

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+..+.+  ..+..+++|+.|++++|.+..+|...+..+++|+.|+++.|.+..+++     ..+..+
T Consensus       127 l~~L~~L~l~~n~l~~~~~--~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~~~~~-----~~~~~l  199 (477)
T 2id5_A          127 LYNLKSLEVGDNDLVYISH--RAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRD-----YSFKRL  199 (477)
T ss_dssp             CTTCCEEEECCTTCCEECT--TSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCCCCEECT-----TCSCSC
T ss_pred             cccCCEEECCCCccceeCh--hhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCcCcEeCh-----hhcccC
Confidence            5667777777766666543  233456777777777777777777667777777777777555554432     112234


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++++                            |..++.+|+......+|+.|++++| .++.+|. ..+..+++
T Consensus       200 ~~L~~L~l~~----------------------------~~~~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~-~~~~~l~~  249 (477)
T 2id5_A          200 YRLKVLEISH----------------------------WPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPY-LAVRHLVY  249 (477)
T ss_dssp             TTCCEEEEEC----------------------------CTTCCEECTTTTTTCCCSEEEEESS-CCCSCCH-HHHTTCTT
T ss_pred             cccceeeCCC----------------------------CccccccCcccccCccccEEECcCC-cccccCH-HHhcCccc
Confidence            4445555544                            4444444444333344444444443 3444331 12344444


Q ss_pred             ccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcC-CcCC
Q 000945          934 LTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHR-VLST 1012 (1212)
Q Consensus       934 L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~-~~~~ 1012 (1212)
                      |+.|++++|. +..++..      ....+++|+.|+++++. +..++..... .+++|++|++++| .+..+|.. +..+
T Consensus       250 L~~L~Ls~n~-l~~~~~~------~~~~l~~L~~L~L~~n~-l~~~~~~~~~-~l~~L~~L~L~~N-~l~~~~~~~~~~l  319 (477)
T 2id5_A          250 LRFLNLSYNP-ISTIEGS------MLHELLRLQEIQLVGGQ-LAVVEPYAFR-GLNYLRVLNVSGN-QLTTLEESVFHSV  319 (477)
T ss_dssp             CCEEECCSSC-CCEECTT------SCTTCTTCCEEECCSSC-CSEECTTTBT-TCTTCCEEECCSS-CCSCCCGGGBSCG
T ss_pred             cCeeECCCCc-CCccChh------hccccccCCEEECCCCc-cceECHHHhc-CcccCCEEECCCC-cCceeCHhHcCCC
Confidence            5555554443 2222210      11224445555555442 3333222211 3467777777776 45555543 3556


Q ss_pred             CccceEEeccCc
Q 000945         1013 PRLREVRQNWGL 1024 (1212)
Q Consensus      1013 ~~L~~l~~~~~~ 1024 (1212)
                      ++|+.+++++|.
T Consensus       320 ~~L~~L~l~~N~  331 (477)
T 2id5_A          320 GNLETLILDSNP  331 (477)
T ss_dssp             GGCCEEECCSSC
T ss_pred             cccCEEEccCCC
Confidence            777777777654

>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=99.78  E-value=4.7e-20  Score=227.45  Aligned_cols=140  Identities=11%  Similarity=0.047  Sum_probs=70.0

Q ss_pred             hcCccceeEEEccceeEeccccchhhccccccccceEeeC-----CCccchhhhc--cCCCCccccCcccEEEEecCCCc
Q 000945          823 RFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLW-----ELSDLMYIWK--QDSKLDSITENLESLEVWWCENL  895 (1212)
Q Consensus       823 ~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~-----~c~~l~~l~~--~~~~~~~~l~~L~~L~l~~c~~l  895 (1212)
                      .+++|+.|.++|+.++....    ......+++|+.|+++     +|..+...+.  ..+..+..+++|+.|++++  .+
T Consensus       370 ~~~~L~~L~~~~~~l~~~~~----~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~--~l  443 (594)
T 2p1m_B          370 GCPKLESVLYFCRQMTNAAL----ITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG--LL  443 (594)
T ss_dssp             HCTTCCEEEEEESCCCHHHH----HHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCS--SC
T ss_pred             hchhHHHHHHhcCCcCHHHH----HHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecC--cc
Confidence            46777777655666543211    0111235677777776     4444442210  0011134566777777755  22


Q ss_pred             cc-ccCCcc-ccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccC
Q 000945          896 IN-LVPSSA-SFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERL  973 (1212)
Q Consensus       896 ~~-lp~~~~-~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~  973 (1212)
                      +. .+..+. .+++|+.|++++|. ++......+...+++|+.|++++|+.-.....      .....+++|+.|++++|
T Consensus       444 ~~~~~~~l~~~~~~L~~L~L~~~~-i~~~~~~~l~~~~~~L~~L~L~~n~~~~~~~~------~~~~~l~~L~~L~l~~~  516 (594)
T 2p1m_B          444 TDKVFEYIGTYAKKMEMLSVAFAG-DSDLGMHHVLSGCDSLRKLEIRDCPFGDKALL------ANASKLETMRSLWMSSC  516 (594)
T ss_dssp             CHHHHHHHHHHCTTCCEEEEESCC-SSHHHHHHHHHHCTTCCEEEEESCSCCHHHHH------HTGGGGGGSSEEEEESS
T ss_pred             cHHHHHHHHHhchhccEeeccCCC-CcHHHHHHHHhcCCCcCEEECcCCCCcHHHHH------HHHHhCCCCCEEeeeCC
Confidence            22 111222 26677777777764 43332223335567777777777764211110      01123567777777777


Q ss_pred             CC
Q 000945          974 EN  975 (1212)
Q Consensus       974 ~~  975 (1212)
                      +.
T Consensus       517 ~~  518 (594)
T 2p1m_B          517 SV  518 (594)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.78  E-value=4.8e-20  Score=227.17  Aligned_cols=310  Identities=15%  Similarity=0.085  Sum_probs=165.6

Q ss_pred             ccccceeeccccccceecccCcc--cccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLA--AVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEE  694 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~--~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~  694 (1212)
                      +++|++|+++++.+..+....++  ...+++|+.|++++|. +..++  ..++.+++|++|+++++.......     ..
T Consensus       191 ~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-~~~l~--~~~~~~~~L~~L~l~~~~~~~~~~-----~~  262 (592)
T 3ogk_B          191 NTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFE-ILELV--GFFKAAANLEEFCGGSLNEDIGMP-----EK  262 (592)
T ss_dssp             CCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCB-GGGGH--HHHHHCTTCCEEEECBCCCCTTCT-----TS
T ss_pred             CCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCcc-HHHHH--HHHhhhhHHHhhcccccccccchH-----HH
Confidence            46677777776644311111000  0246777777777753 44443  236777788888777533221100     00


Q ss_pred             ccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeec
Q 000945          695 ATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVT  774 (1212)
Q Consensus       695 ~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l  774 (1212)
                      ......+++|+.|.+.++.. ..++.  ....+++|++|++++|. +....  ...  .+                 ..+
T Consensus       263 ~~~l~~~~~L~~L~l~~~~~-~~l~~--~~~~~~~L~~L~Ls~~~-l~~~~--~~~--~~-----------------~~~  317 (592)
T 3ogk_B          263 YMNLVFPRKLCRLGLSYMGP-NEMPI--LFPFAAQIRKLDLLYAL-LETED--HCT--LI-----------------QKC  317 (592)
T ss_dssp             SSCCCCCTTCCEEEETTCCT-TTGGG--GGGGGGGCCEEEETTCC-CCHHH--HHH--HH-----------------TTC
T ss_pred             HHHhhccccccccCccccch-hHHHH--HHhhcCCCcEEecCCCc-CCHHH--HHH--HH-----------------HhC
Confidence            11233466777777765421 11111  11246778888888876 43220  000  00                 126


Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeec-----------CCcccc-chHHHhhcCccceeEEEccceeEecc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVN-----------DESENF-RIGFLERFHNLEKLELRWSSYKEIFS  842 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~-----------~~~~~~-p~~~l~~l~~L~~L~l~c~~l~~~~~  842 (1212)
                      ++|+.|+++ +.+..... ......+++|++|++++           +.++.. .......+++|+.|+++|+.++....
T Consensus       318 ~~L~~L~L~-~~~~~~~l-~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~~~~  395 (592)
T 3ogk_B          318 PNLEVLETR-NVIGDRGL-EVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESL  395 (592)
T ss_dssp             TTCCEEEEE-GGGHHHHH-HHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCHHHH
T ss_pred             cCCCEEecc-CccCHHHH-HHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccHHHH
Confidence            778888876 33322111 01123467788888882           344322 12234567888888888777653211


Q ss_pred             ccchhhccccccccceEeeCC---Cccchhhhcc--CCCCccccCcccEEEEecCCC-ccc-ccCCc-cccCCccEEeec
Q 000945          843 NEEIVEHAEMLTQVKSLKLWE---LSDLMYIWKQ--DSKLDSITENLESLEVWWCEN-LIN-LVPSS-ASFKNLTTLELW  914 (1212)
Q Consensus       843 ~~~~~~~~~~l~~L~~L~l~~---c~~l~~l~~~--~~~~~~~l~~L~~L~l~~c~~-l~~-lp~~~-~~l~~L~~L~l~  914 (1212)
                          ......+++|+.|++++   |..+...+..  .+..+..+++|++|++++|.. ++. .+..+ ..+++|+.|+++
T Consensus       396 ----~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~  471 (592)
T 3ogk_B          396 ----ESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLG  471 (592)
T ss_dssp             ----HHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEEC
T ss_pred             ----HHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeecc
Confidence                11112367788888874   3444432100  011245678888888887663 221 11112 337788888888


Q ss_pred             cccCcccccchhhhcccccccEEEecCcchhhH--hhccCccccccceeccchhhhhhccCC
Q 000945          915 YCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTE--IISKEEDVAEDEIVFSKLKWVSLERLE  974 (1212)
Q Consensus       915 ~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~--~~~~~~~~~~~~~~l~~L~~L~l~~~~  974 (1212)
                      +|+ ++.......+..+++|+.|++++|+ +..  ++       .....+++|+.|++++|.
T Consensus       472 ~n~-l~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~-------~~~~~l~~L~~L~ls~n~  524 (592)
T 3ogk_B          472 YVG-ESDEGLMEFSRGCPNLQKLEMRGCC-FSERAIA-------AAVTKLPSLRYLWVQGYR  524 (592)
T ss_dssp             SCC-SSHHHHHHHHTCCTTCCEEEEESCC-CBHHHHH-------HHHHHCSSCCEEEEESCB
T ss_pred             CCC-CCHHHHHHHHhcCcccCeeeccCCC-CcHHHHH-------HHHHhcCccCeeECcCCc
Confidence            764 5443223456778888888888887 322  22       112246888888888886

>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=99.77  E-value=2e-19  Score=221.61  Aligned_cols=352  Identities=14%  Similarity=0.041  Sum_probs=217.0

Q ss_pred             cccccceeecccccccee---cccCcccccCcCccEEEEecCCCccccCc---hhhhhccCCCcEEEeccccccceeecc
Q 000945          616 VFPNLETLELCAISTEKI---WCNQLAAVYSQNLTRLIVHGCEKLKYLFP---SSMIRNFVQLEHLEICYCSSLESIVGK  689 (1212)
Q Consensus       616 ~~~~L~~L~l~~~~l~~~---~~~~~~~~~l~~L~~L~L~~c~~l~~l~~---~~~l~~l~~L~~L~l~~~~~l~~i~~~  689 (1212)
                      .+++|++|+|++|.+...   |...+. ..+++|++|+++++. +..+..   ..++.++++|++|++++|. +..++  
T Consensus       162 ~~~~L~~L~L~~~~~~~~~~~~l~~~~-~~~~~L~~L~L~~n~-~~~~~~~~l~~~~~~~~~L~~L~L~~~~-~~~l~--  236 (592)
T 3ogk_B          162 HCRKIKTLLMEESSFSEKDGKWLHELA-QHNTSLEVLNFYMTE-FAKISPKDLETIARNCRSLVSVKVGDFE-ILELV--  236 (592)
T ss_dssp             HCTTCSEEECTTCEEECCCSHHHHHHH-HHCCCCCEEECTTCC-CSSCCHHHHHHHHHHCTTCCEEECSSCB-GGGGH--
T ss_pred             hCCCCCEEECccccccCcchhHHHHHH-hcCCCccEEEeeccC-CCccCHHHHHHHHhhCCCCcEEeccCcc-HHHHH--
Confidence            358899999998854322   222211 358999999998764 431111   1235789999999999986 43332  


Q ss_pred             cccccccccccCCccceeecccCCcccee-ccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCcccccee
Q 000945          690 ESGEEATTTFVFPKVTFLKLWNLSELKTF-YPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALF  768 (1212)
Q Consensus       690 ~~~~~~~~~~~~~~L~~L~l~~~~~L~~~-~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~  768 (1212)
                            .....+++|++|.+..+...... ........+++|+.|.+.++. ...+|..                     
T Consensus       237 ------~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~-~~~l~~~---------------------  288 (592)
T 3ogk_B          237 ------GFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMG-PNEMPIL---------------------  288 (592)
T ss_dssp             ------HHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCC-TTTGGGG---------------------
T ss_pred             ------HHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccc-hhHHHHH---------------------
Confidence                  13445799999999864322111 011112356788888887752 2222110                     


Q ss_pred             eeeeecccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEE-----------ccce
Q 000945          769 LVEKVTSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELR-----------WSSY  837 (1212)
Q Consensus       769 ~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~-----------c~~l  837 (1212)
                        ...+++|++|++++|.+...... .....+++|++|+++++.........+..+++|+.|+++           |+.+
T Consensus       289 --~~~~~~L~~L~Ls~~~l~~~~~~-~~~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~  365 (592)
T 3ogk_B          289 --FPFAAQIRKLDLLYALLETEDHC-TLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLV  365 (592)
T ss_dssp             --GGGGGGCCEEEETTCCCCHHHHH-HHHTTCTTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCC
T ss_pred             --HhhcCCCcEEecCCCcCCHHHHH-HHHHhCcCCCEEeccCccCHHHHHHHHHhCCCCCEEEeecCccccccccccCcc
Confidence              01278999999998875443211 113568899999999643333334456778999999999           6666


Q ss_pred             eEeccccchhhccccccccceEeeCCCccchhhhccCCCCcc-ccCcccEEEEec---CCCcccccC------CccccCC
Q 000945          838 KEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDS-ITENLESLEVWW---CENLINLVP------SSASFKN  907 (1212)
Q Consensus       838 ~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~-~l~~L~~L~l~~---c~~l~~lp~------~~~~l~~  907 (1212)
                      +..    +.......+++|++|++ .|..+..-   .+..+. .+++|+.|++++   |+.++..|.      .+..+++
T Consensus       366 ~~~----~~~~l~~~~~~L~~L~l-~~~~l~~~---~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~  437 (592)
T 3ogk_B          366 SQR----GLIALAQGCQELEYMAV-YVSDITNE---SLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKK  437 (592)
T ss_dssp             CHH----HHHHHHHHCTTCSEEEE-EESCCCHH---HHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTT
T ss_pred             CHH----HHHHHHhhCccCeEEEe-ecCCccHH---HHHHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCC
Confidence            532    11122234789999999 44444432   122333 378999999984   667776432      2456899


Q ss_pred             ccEEeeccccC-cccccchhhhcccccccEEEecCcchhh-HhhccCccccccceeccchhhhhhccCCCccc--ccCCC
Q 000945          908 LTTLELWYCQR-LMNLVTSSTAKSLVCLTKLRIDGCRMLT-EIISKEEDVAEDEIVFSKLKWVSLERLENLTS--FCSGN  983 (1212)
Q Consensus       908 L~~L~l~~c~~-l~~l~~~~~~~~l~~L~~L~i~~c~~l~-~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~--l~~~~  983 (1212)
                      |+.|++++|.+ ++......+...+++|+.|++++|..-. .++.       ....+++|+.|++++|+ +..  ++...
T Consensus       438 L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~-------~~~~~~~L~~L~l~~n~-l~~~~~~~~~  509 (592)
T 3ogk_B          438 LRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESDEGLME-------FSRGCPNLQKLEMRGCC-FSERAIAAAV  509 (592)
T ss_dssp             CCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCCSSHHHHHH-------HHTCCTTCCEEEEESCC-CBHHHHHHHH
T ss_pred             CCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCCCCHHHHHH-------HHhcCcccCeeeccCCC-CcHHHHHHHH
Confidence            99999988764 4443333445668889999999887221 1221       11346889999999997 433  22211


Q ss_pred             ceeecCCccEEEeccCCCccccC--cCCcCCCccceEEecc
Q 000945          984 YTLKFPSLEDLFVIECPKMKIFS--HRVLSTPRLREVRQNW 1022 (1212)
Q Consensus       984 ~~~~~~sL~~L~i~~C~~l~~lp--~~~~~~~~L~~l~~~~ 1022 (1212)
                        ..+++|++|++++|+ +..-.  .-...+|.+....+..
T Consensus       510 --~~l~~L~~L~ls~n~-it~~~~~~l~~~~p~l~~~~~~~  547 (592)
T 3ogk_B          510 --TKLPSLRYLWVQGYR-ASMTGQDLMQMARPYWNIELIPS  547 (592)
T ss_dssp             --HHCSSCCEEEEESCB-CCTTCTTGGGGCCTTEEEEEECC
T ss_pred             --HhcCccCeeECcCCc-CCHHHHHHHHHhCCCcEEEEecC
Confidence              146899999999998 43221  1123466666655543

>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=99.77  E-value=2.2e-18  Score=193.40  Aligned_cols=227  Identities=18%  Similarity=0.188  Sum_probs=189.5

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      .++++.|+++++.+..++.   ....+++|++|++++|.+..+|.. +..+++|+.|+++.|.++.++.      .+..+
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  149 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQFPD---QAFRLSHLQHMTIDAAGLMELPDT-MQQFAGLETLTLARNPLRALPA------SIASL  149 (328)
T ss_dssp             STTCCEEEEESSCCSSCCS---CGGGGTTCSEEEEESSCCCCCCSC-GGGGTTCSEEEEESCCCCCCCG------GGGGC
T ss_pred             ccceeEEEccCCCchhcCh---hhhhCCCCCEEECCCCCccchhHH-HhccCCCCEEECCCCccccCcH------HHhcC
Confidence            4789999999999997763   355689999999999999999876 7899999999999888876542      34568


Q ss_pred             cccceEeeCCCccchhhhccC-----CCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhh
Q 000945          854 TQVKSLKLWELSDLMYIWKQD-----SKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTA  928 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~-----~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~  928 (1212)
                      ++|+.|++++|..+..++...     ...+..+++|++|++++| .++.+|..+..+++|+.|++++| .++.+|.  .+
T Consensus       150 ~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n-~l~~lp~~l~~l~~L~~L~L~~N-~l~~l~~--~l  225 (328)
T 4fcg_A          150 NRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKIRNS-PLSALGP--AI  225 (328)
T ss_dssp             TTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEE-CCCCCCGGGGGCTTCCEEEEESS-CCCCCCG--GG
T ss_pred             cCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCC-CcCcchHhhcCCCCCCEEEccCC-CCCcCch--hh
Confidence            999999999988777663211     112345999999999997 45689988999999999999996 6777773  46


Q ss_pred             cccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcC
Q 000945          929 KSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHR 1008 (1212)
Q Consensus       929 ~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~ 1008 (1212)
                      ..+++|+.|++++|.....+|.       ....+++|+.|++++|..+..+|....  .+++|++|++++|+.+..+|.+
T Consensus       226 ~~l~~L~~L~Ls~n~~~~~~p~-------~~~~l~~L~~L~L~~n~~~~~~p~~~~--~l~~L~~L~L~~n~~~~~iP~~  296 (328)
T 4fcg_A          226 HHLPKLEELDLRGCTALRNYPP-------IFGGRAPLKRLILKDCSNLLTLPLDIH--RLTQLEKLDLRGCVNLSRLPSL  296 (328)
T ss_dssp             GGCTTCCEEECTTCTTCCBCCC-------CTTCCCCCCEEECTTCTTCCBCCTTGG--GCTTCCEEECTTCTTCCCCCGG
T ss_pred             ccCCCCCEEECcCCcchhhhHH-------HhcCCCCCCEEECCCCCchhhcchhhh--cCCCCCEEeCCCCCchhhccHH
Confidence            8899999999999997777663       345589999999999999999998765  4699999999999999999999


Q ss_pred             CcCCCccceEEeccC
Q 000945         1009 VLSTPRLREVRQNWG 1023 (1212)
Q Consensus      1009 ~~~~~~L~~l~~~~~ 1023 (1212)
                      +..+++|+.+.+..+
T Consensus       297 l~~L~~L~~l~l~~~  311 (328)
T 4fcg_A          297 IAQLPANCIILVPPH  311 (328)
T ss_dssp             GGGSCTTCEEECCGG
T ss_pred             HhhccCceEEeCCHH
Confidence            999999999998743

>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=99.75  E-value=2.3e-19  Score=221.26  Aligned_cols=231  Identities=12%  Similarity=-0.034  Sum_probs=131.0

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEE---------ccceeEecccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELR---------WSSYKEIFSNE  844 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~---------c~~l~~~~~~~  844 (1212)
                      +++|++|++++|.+...... .....+++|++|+++++............+++|+.|+++         |+.++..    
T Consensus       288 ~~~L~~L~L~~~~l~~~~l~-~~~~~~~~L~~L~l~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~----  362 (594)
T 2p1m_B          288 CSRLTTLNLSYATVQSYDLV-KLLCQCPKLQRLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQ----  362 (594)
T ss_dssp             HTTCCEEECTTCCCCHHHHH-HHHTTCTTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHH----
T ss_pred             hCCCCEEEccCCCCCHHHHH-HHHhcCCCcCEEeCcCccCHHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHH----
Confidence            56777777776664432110 112356778888888762212222334568899999994         3444321    


Q ss_pred             chhhccccccccceEeeCCCccchhhhccCCCCc-cccCcccEEEEe-----cCCCcccccC------CccccCCccEEe
Q 000945          845 EIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLD-SITENLESLEVW-----WCENLINLVP------SSASFKNLTTLE  912 (1212)
Q Consensus       845 ~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~-~~l~~L~~L~l~-----~c~~l~~lp~------~~~~l~~L~~L~  912 (1212)
                      +.......+++|+.|.+ +|..+....   +..+ ..+++|+.|+++     +|..++..|.      .+..+++|+.|+
T Consensus       363 ~l~~l~~~~~~L~~L~~-~~~~l~~~~---~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~  438 (594)
T 2p1m_B          363 GLVSVSMGCPKLESVLY-FCRQMTNAA---LITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLS  438 (594)
T ss_dssp             HHHHHHHHCTTCCEEEE-EESCCCHHH---HHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEE
T ss_pred             HHHHHHHhchhHHHHHH-hcCCcCHHH---HHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEe
Confidence            11111223688888855 454444321   1222 257889999999     6777775443      245678999999


Q ss_pred             eccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCcc
Q 000945          913 LWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLE  992 (1212)
Q Consensus       913 l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~  992 (1212)
                      +++  .++......+...+++|+.|++++|..-...+.      .....+++|+.|++++|+. ...........+++|+
T Consensus       439 L~~--~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~------~l~~~~~~L~~L~L~~n~~-~~~~~~~~~~~l~~L~  509 (594)
T 2p1m_B          439 LSG--LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMH------HVLSGCDSLRKLEIRDCPF-GDKALLANASKLETMR  509 (594)
T ss_dssp             CCS--SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHH------HHHHHCTTCCEEEEESCSC-CHHHHHHTGGGGGGSS
T ss_pred             ecC--cccHHHHHHHHHhchhccEeeccCCCCcHHHHH------HHHhcCCCcCEEECcCCCC-cHHHHHHHHHhCCCCC
Confidence            966  555443334444578899999998873222110      0112368888888888874 3221110111357888


Q ss_pred             EEEeccCCCccccCcCC-cCCCccceEEecc
Q 000945          993 DLFVIECPKMKIFSHRV-LSTPRLREVRQNW 1022 (1212)
Q Consensus       993 ~L~i~~C~~l~~lp~~~-~~~~~L~~l~~~~ 1022 (1212)
                      +|++++|+....-...+ ..+|.|+...+..
T Consensus       510 ~L~l~~~~~~~~~~~~l~~~lp~l~i~~~~~  540 (594)
T 2p1m_B          510 SLWMSSCSVSFGACKLLGQKMPKLNVEVIDE  540 (594)
T ss_dssp             EEEEESSCCBHHHHHHHHHHCTTEEEEEECS
T ss_pred             EEeeeCCCCCHHHHHHHHHhCCCCEEEEecC
Confidence            89998887632211112 3456666555543

>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=99.74  E-value=6.5e-17  Score=182.48  Aligned_cols=222  Identities=16%  Similarity=0.155  Sum_probs=110.3

Q ss_pred             cccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccc
Q 000945          618 PNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATT  697 (1212)
Q Consensus       618 ~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  697 (1212)
                      ++|+.|++++|.+..+....+.  .+++|++|+|++| .++.+.|.. ++.+++|++|+++++. +..++.         
T Consensus        52 ~~l~~L~L~~n~i~~~~~~~~~--~l~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~Ls~n~-l~~l~~---------  117 (330)
T 1xku_A           52 PDTALLDLQNNKITEIKDGDFK--NLKNLHTLILINN-KISKISPGA-FAPLVKLERLYLSKNQ-LKELPE---------  117 (330)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTT--TCTTCCEEECCSS-CCCCBCTTT-TTTCTTCCEEECCSSC-CSBCCS---------
T ss_pred             CCCeEEECCCCcCCEeChhhhc--cCCCCCEEECCCC-cCCeeCHHH-hcCCCCCCEEECCCCc-CCccCh---------
Confidence            4566666666655544433332  4666667776664 444443322 4566777777776665 444421         


Q ss_pred             cccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccc
Q 000945          698 TFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKL  777 (1212)
Q Consensus       698 ~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L  777 (1212)
                       ..+++|++|++.++. +..+.... ...+++|+.|++++|. +.........+                    ..+++|
T Consensus       118 -~~~~~L~~L~l~~n~-l~~~~~~~-~~~l~~L~~L~l~~n~-l~~~~~~~~~~--------------------~~l~~L  173 (330)
T 1xku_A          118 -KMPKTLQELRVHENE-ITKVRKSV-FNGLNQMIVVELGTNP-LKSSGIENGAF--------------------QGMKKL  173 (330)
T ss_dssp             -SCCTTCCEEECCSSC-CCBBCHHH-HTTCTTCCEEECCSSC-CCGGGBCTTGG--------------------GGCTTC
T ss_pred             -hhcccccEEECCCCc-ccccCHhH-hcCCccccEEECCCCc-CCccCcChhhc--------------------cCCCCc
Confidence             123556666665542 22221100 1135566666666552 22110000000                    114566


Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVK  857 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~  857 (1212)
                      ++|++++|.+..++.     ..+++|++|++++|.+..+++..+..+++|+.|+++.|.++.+++     ..+..+++|+
T Consensus       174 ~~L~l~~n~l~~l~~-----~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-----~~~~~l~~L~  243 (330)
T 1xku_A          174 SYIRIADTNITTIPQ-----GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDN-----GSLANTPHLR  243 (330)
T ss_dssp             CEEECCSSCCCSCCS-----SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECT-----TTGGGSTTCC
T ss_pred             CEEECCCCccccCCc-----cccccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeCh-----hhccCCCCCC
Confidence            666666666655432     112566666666666666655556666666666666555555432     1122345555


Q ss_pred             eEeeCCCccchhhhccCCCCccccCcccEEEEecC
Q 000945          858 SLKLWELSDLMYIWKQDSKLDSITENLESLEVWWC  892 (1212)
Q Consensus       858 ~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c  892 (1212)
                      .|++++|. +..+    |..+..+++|++|++++|
T Consensus       244 ~L~L~~N~-l~~l----p~~l~~l~~L~~L~l~~N  273 (330)
T 1xku_A          244 ELHLNNNK-LVKV----PGGLADHKYIQVVYLHNN  273 (330)
T ss_dssp             EEECCSSC-CSSC----CTTTTTCSSCCEEECCSS
T ss_pred             EEECCCCc-CccC----ChhhccCCCcCEEECCCC
Confidence            55555542 3332    334445555555555554

>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=99.74  E-value=4.7e-17  Score=182.45  Aligned_cols=130  Identities=20%  Similarity=0.211  Sum_probs=99.2

Q ss_pred             ccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCc
Q 000945          799 IFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLD  878 (1212)
Q Consensus       799 ~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~  878 (1212)
                      .+++|++|++++|.+..+|.. +..+++|+.|+++.|.++.+++      .+..+++|+.|++++|.....+    |..+
T Consensus       181 ~l~~L~~L~L~~n~l~~lp~~-l~~l~~L~~L~L~~N~l~~l~~------~l~~l~~L~~L~Ls~n~~~~~~----p~~~  249 (328)
T 4fcg_A          181 GLVNLQSLRLEWTGIRSLPAS-IANLQNLKSLKIRNSPLSALGP------AIHHLPKLEELDLRGCTALRNY----PPIF  249 (328)
T ss_dssp             ESTTCCEEEEEEECCCCCCGG-GGGCTTCCEEEEESSCCCCCCG------GGGGCTTCCEEECTTCTTCCBC----CCCT
T ss_pred             cCCCCCEEECcCCCcCcchHh-hcCCCCCCEEEccCCCCCcCch------hhccCCCCCEEECcCCcchhhh----HHHh
Confidence            466777777777777777765 7778888888888667766543      2345778888888887765554    5667


Q ss_pred             cccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecC
Q 000945          879 SITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDG  941 (1212)
Q Consensus       879 ~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~  941 (1212)
                      ..+++|++|++++|..++.+|..+..+++|+.|+|++|+.+..+|  ..+..+++|+.+.+..
T Consensus       250 ~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP--~~l~~L~~L~~l~l~~  310 (328)
T 4fcg_A          250 GGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP--SLIAQLPANCIILVPP  310 (328)
T ss_dssp             TCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCC--GGGGGSCTTCEEECCG
T ss_pred             cCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhcc--HHHhhccCceEEeCCH
Confidence            788888888888888888888888888888888888888888887  5667888888887764

>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=99.73  E-value=5.8e-17  Score=182.88  Aligned_cols=86  Identities=22%  Similarity=0.333  Sum_probs=68.3

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK  345 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~  345 (1212)
                      .+++++++++.+..+|..+.  .++++|++++| .+..+|...+.++.+|++|++++|.+.           ...+..+.
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            68888999988888887664  57889999999 788888866889999999999998875           33356677


Q ss_pred             cCCCCCcceeeecccccCCC
Q 000945          346 LLSHLTTLEIQICDAMILPK  365 (1212)
Q Consensus       346 ~l~~L~~L~l~~~~~~~~p~  365 (1212)
                      .+.+|++|+++.|.+..+|.
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            88888888888777665544

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.73  E-value=6.9e-17  Score=182.34  Aligned_cols=150  Identities=13%  Similarity=0.134  Sum_probs=73.9

Q ss_pred             cceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccc
Q 000945          776 KLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQ  855 (1212)
Q Consensus       776 ~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~  855 (1212)
                      +|+.|++++|.+..++.     ..+++|++|++++|.+..++...+..+++|+.|+++.|.++.+++     ..+..+++
T Consensus       173 ~L~~L~l~~n~l~~l~~-----~~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~-----~~~~~l~~  242 (332)
T 2ft3_A          173 KLNYLRISEAKLTGIPK-----DLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIEN-----GSLSFLPT  242 (332)
T ss_dssp             CCSCCBCCSSBCSSCCS-----SSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCT-----TGGGGCTT
T ss_pred             ccCEEECcCCCCCccCc-----cccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCCh-----hHhhCCCC
Confidence            56666666666555432     112466666666666666655555666666666666555554432     11233555


Q ss_pred             cceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCc-c------ccCCccEEeeccccCcc-cccchhh
Q 000945          856 VKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSS-A------SFKNLTTLELWYCQRLM-NLVTSST  927 (1212)
Q Consensus       856 L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~-~------~l~~L~~L~l~~c~~l~-~l~~~~~  927 (1212)
                      |+.|++++|. +..+    |..+..+++|+.|++++|. ++.++... .      .+++|+.|++++++-.. .+ ....
T Consensus       243 L~~L~L~~N~-l~~l----p~~l~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~-~~~~  315 (332)
T 2ft3_A          243 LRELHLDNNK-LSRV----PAGLPDLKLLQVVYLHTNN-ITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEV-QPAT  315 (332)
T ss_dssp             CCEEECCSSC-CCBC----CTTGGGCTTCCEEECCSSC-CCBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGS-CGGG
T ss_pred             CCEEECCCCc-Ceec----ChhhhcCccCCEEECCCCC-CCccChhHccccccccccccccceEeecCccccccc-Cccc
Confidence            6666665542 3333    3445555666666666542 33443221 1      13455666666654221 11 1233


Q ss_pred             hcccccccEEEecCc
Q 000945          928 AKSLVCLTKLRIDGC  942 (1212)
Q Consensus       928 ~~~l~~L~~L~i~~c  942 (1212)
                      +..+++|+.|++++|
T Consensus       316 ~~~l~~L~~l~l~~n  330 (332)
T 2ft3_A          316 FRCVTDRLAIQFGNY  330 (332)
T ss_dssp             GTTBCCSTTEEC---
T ss_pred             ccccchhhhhhcccc
Confidence            445555666655554

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.72  E-value=5e-17  Score=183.50  Aligned_cols=268  Identities=13%  Similarity=0.079  Sum_probs=169.2

Q ss_pred             cccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccc
Q 000945          618 PNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATT  697 (1212)
Q Consensus       618 ~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  697 (1212)
                      .+|+.++++++.+..++..     ..++|+.|++++| .++.+++.. ++++++|++|++++|. +..+...       .
T Consensus        33 c~l~~l~~~~~~l~~ip~~-----~~~~l~~L~l~~n-~i~~~~~~~-~~~l~~L~~L~L~~n~-l~~~~~~-------~   97 (332)
T 2ft3_A           33 CHLRVVQCSDLGLKAVPKE-----ISPDTTLLDLQNN-DISELRKDD-FKGLQHLYALVLVNNK-ISKIHEK-------A   97 (332)
T ss_dssp             EETTEEECCSSCCSSCCSC-----CCTTCCEEECCSS-CCCEECTTT-TTTCTTCCEEECCSSC-CCEECGG-------G
T ss_pred             ccCCEEECCCCCccccCCC-----CCCCCeEEECCCC-cCCccCHhH-hhCCCCCcEEECCCCc-cCccCHh-------H
Confidence            3688888888877665543     2578999999886 566766543 5788999999999886 6665332       2


Q ss_pred             cccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccc
Q 000945          698 TFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKL  777 (1212)
Q Consensus       698 ~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L  777 (1212)
                      ...+++|++|+++++. +..++..    .+++|++|++++| .+..+++.  .+                    ..+++|
T Consensus        98 ~~~l~~L~~L~L~~n~-l~~l~~~----~~~~L~~L~l~~n-~i~~~~~~--~~--------------------~~l~~L  149 (332)
T 2ft3_A           98 FSPLRKLQKLYISKNH-LVEIPPN----LPSSLVELRIHDN-RIRKVPKG--VF--------------------SGLRNM  149 (332)
T ss_dssp             STTCTTCCEEECCSSC-CCSCCSS----CCTTCCEEECCSS-CCCCCCSG--GG--------------------SSCSSC
T ss_pred             hhCcCCCCEEECCCCc-CCccCcc----ccccCCEEECCCC-ccCccCHh--Hh--------------------CCCccC
Confidence            3457888888888763 4444432    2377888888876 34444311  01                    126788


Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVK  857 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~  857 (1212)
                      +.|++++|.+............+ +|++|++++|.+..+|...   .++|+.|+++.|.++.+++     ..+..+++|+
T Consensus       150 ~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~~~~---~~~L~~L~l~~n~i~~~~~-----~~l~~l~~L~  220 (332)
T 2ft3_A          150 NCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTGIPKDL---PETLNELHLDHNKIQAIEL-----EDLLRYSKLY  220 (332)
T ss_dssp             CEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCCSSS---CSSCSCCBCCSSCCCCCCT-----TSSTTCTTCS
T ss_pred             CEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCccCccc---cCCCCEEECCCCcCCccCH-----HHhcCCCCCC
Confidence            88888888776432212223334 7888888887777777653   2677788887666665543     2233467777


Q ss_pred             eEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcc-----cc
Q 000945          858 SLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKS-----LV  932 (1212)
Q Consensus       858 ~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~-----l~  932 (1212)
                      .|+++++. +..+   .+..+..+++|++|++++| .++.+|..+..+++|+.|++++| .++.++...+...     ..
T Consensus       221 ~L~L~~N~-l~~~---~~~~~~~l~~L~~L~L~~N-~l~~lp~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~~~~~~  294 (332)
T 2ft3_A          221 RLGLGHNQ-IRMI---ENGSLSFLPTLRELHLDNN-KLSRVPAGLPDLKLLQVVYLHTN-NITKVGVNDFCPVGFGVKRA  294 (332)
T ss_dssp             CCBCCSSC-CCCC---CTTGGGGCTTCCEEECCSS-CCCBCCTTGGGCTTCCEEECCSS-CCCBCCTTSSSCSSCCSSSC
T ss_pred             EEECCCCc-CCcC---ChhHhhCCCCCCEEECCCC-cCeecChhhhcCccCCEEECCCC-CCCccChhHccccccccccc
Confidence            77777753 3322   2345667777777777775 45577777777777777777774 5666654322211     34


Q ss_pred             cccEEEecCcc
Q 000945          933 CLTKLRIDGCR  943 (1212)
Q Consensus       933 ~L~~L~i~~c~  943 (1212)
                      +|+.|++++++
T Consensus       295 ~l~~L~l~~N~  305 (332)
T 2ft3_A          295 YYNGISLFNNP  305 (332)
T ss_dssp             CBSEEECCSSS
T ss_pred             cccceEeecCc
Confidence            56666666665

>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=99.70  E-value=3.6e-16  Score=188.65  Aligned_cols=140  Identities=17%  Similarity=0.124  Sum_probs=94.4

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.++.++      ..+++|+.|++++|.+..+|..    +++|+.|+++.|.++.++..         +
T Consensus       160 ~~~L~~L~L~~N~l~~l~------~~~~~L~~L~Ls~N~l~~l~~~----~~~L~~L~L~~N~l~~l~~~---------~  220 (622)
T 3g06_A          160 PSELCKLWAYNNQLTSLP------MLPSGLQELSVSDNQLASLPTL----PSELYKLWAYNNRLTSLPAL---------P  220 (622)
T ss_dssp             CTTCCEEECCSSCCSCCC------CCCTTCCEEECCSSCCSCCCCC----CTTCCEEECCSSCCSSCCCC---------C
T ss_pred             cCCCCEEECCCCCCCCCc------ccCCCCcEEECCCCCCCCCCCc----cchhhEEECcCCcccccCCC---------C
Confidence            456677777777666653      2356777777777777766643    46777777776666654421         4


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++++| .+..+    |   ..+++|+.|++++| .++.+|.   .+++|+.|++++| .++.+|  ..+..+++
T Consensus       221 ~~L~~L~Ls~N-~L~~l----p---~~l~~L~~L~Ls~N-~L~~lp~---~~~~L~~L~Ls~N-~L~~lp--~~l~~l~~  285 (622)
T 3g06_A          221 SGLKELIVSGN-RLTSL----P---VLPSELKELMVSGN-RLTSLPM---LPSGLLSLSVYRN-QLTRLP--ESLIHLSS  285 (622)
T ss_dssp             TTCCEEECCSS-CCSCC----C---CCCTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSS-CCCSCC--GGGGGSCT
T ss_pred             CCCCEEEccCC-ccCcC----C---CCCCcCcEEECCCC-CCCcCCc---ccccCcEEeCCCC-CCCcCC--HHHhhccc
Confidence            67788887775 34444    2   34577888888876 5667775   5678888888885 677776  44677888


Q ss_pred             ccEEEecCcchhhH
Q 000945          934 LTKLRIDGCRMLTE  947 (1212)
Q Consensus       934 L~~L~i~~c~~l~~  947 (1212)
                      |+.|++++|+.-..
T Consensus       286 L~~L~L~~N~l~~~  299 (622)
T 3g06_A          286 ETTVNLEGNPLSER  299 (622)
T ss_dssp             TCEEECCSCCCCHH
T ss_pred             cCEEEecCCCCCCc
Confidence            88888888874333

>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=99.69  E-value=3.3e-17  Score=196.87  Aligned_cols=111  Identities=18%  Similarity=0.144  Sum_probs=95.4

Q ss_pred             cchHHHHHHHHHHhCC---CCceEEEEEecCCCchhHHHHHHHH--HhhhcCCCCEEEEEEecCCC--CHHHHHHHHHHH
Q 000945          152 ESRKSILNDALDALSN---PNVNVIGLCGLGGIGKTTLAKIVFY--QAKKLKLCDEVVFVEVSQTP--DVKRIQGDIADQ  224 (1212)
Q Consensus       152 ~gr~~~~~~l~~~L~~---~~~~vi~I~GmgGiGKTTLA~~vyn--~~~v~~~F~~~~wv~vs~~~--~~~~l~~~il~~  224 (1212)
                      +||+.++++|.++|.+   .+++||+|||||||||||||+++|+  +.+++.+|+.++||+|++.+  ++..+++.|+.+
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   3689999999999999999999999  67888999999999999985  899999999999


Q ss_pred             hcCccc--------CCChhHHHHHHHHHHHcCCcEE-EecCcccccc
Q 000945          225 LGLYIC--------EGSESERAMVLCGLLKKGKKIL-VLDNIWTSLD  262 (1212)
Q Consensus       225 l~~~~~--------~~~~~~~~~~l~~~L~~~kr~L-VLDDVw~~~~  262 (1212)
                      ++....        ..+....+..+++.|..+|||| ||||||+..+
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~  257 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEET  257 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHH
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchh
Confidence            976521        1233456889999998624999 9999999875

>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=99.68  E-value=4.4e-16  Score=187.80  Aligned_cols=256  Identities=19%  Similarity=0.123  Sum_probs=189.2

Q ss_pred             cccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccc
Q 000945          618 PNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATT  697 (1212)
Q Consensus       618 ~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  697 (1212)
                      .+++.|++++++++.++...     .++|+.|+|++| .++.+|+     .+++|++|++++|. +..++.         
T Consensus        40 ~~l~~L~ls~n~L~~lp~~l-----~~~L~~L~L~~N-~l~~lp~-----~l~~L~~L~Ls~N~-l~~lp~---------   98 (622)
T 3g06_A           40 NGNAVLNVGESGLTTLPDCL-----PAHITTLVIPDN-NLTSLPA-----LPPELRTLEVSGNQ-LTSLPV---------   98 (622)
T ss_dssp             HCCCEEECCSSCCSCCCSCC-----CTTCSEEEECSC-CCSCCCC-----CCTTCCEEEECSCC-CSCCCC---------
T ss_pred             CCCcEEEecCCCcCccChhh-----CCCCcEEEecCC-CCCCCCC-----cCCCCCEEEcCCCc-CCcCCC---------
Confidence            46899999999887665432     478999999997 5777655     47899999999987 666632         


Q ss_pred             cccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccc
Q 000945          698 TFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKL  777 (1212)
Q Consensus       698 ~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L  777 (1212)
                        .+++|++|+++++. +..++.     .+++|+.|++++| ++..+|.                          .+++|
T Consensus        99 --~l~~L~~L~Ls~N~-l~~l~~-----~l~~L~~L~L~~N-~l~~lp~--------------------------~l~~L  143 (622)
T 3g06_A           99 --LPPGLLELSIFSNP-LTHLPA-----LPSGLCKLWIFGN-QLTSLPV--------------------------LPPGL  143 (622)
T ss_dssp             --CCTTCCEEEECSCC-CCCCCC-----CCTTCCEEECCSS-CCSCCCC--------------------------CCTTC
T ss_pred             --CCCCCCEEECcCCc-CCCCCC-----CCCCcCEEECCCC-CCCcCCC--------------------------CCCCC
Confidence              47899999998763 444433     4688999999886 4666631                          15789


Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVK  857 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~  857 (1212)
                      ++|++++|.+.+++.      .+++|+.|++++|.+..+|    ..+++|+.|+++.|.++.++..         +++|+
T Consensus       144 ~~L~Ls~N~l~~l~~------~~~~L~~L~L~~N~l~~l~----~~~~~L~~L~Ls~N~l~~l~~~---------~~~L~  204 (622)
T 3g06_A          144 QELSVSDNQLASLPA------LPSELCKLWAYNNQLTSLP----MLPSGLQELSVSDNQLASLPTL---------PSELY  204 (622)
T ss_dssp             CEEECCSSCCSCCCC------CCTTCCEEECCSSCCSCCC----CCCTTCCEEECCSSCCSCCCCC---------CTTCC
T ss_pred             CEEECcCCcCCCcCC------ccCCCCEEECCCCCCCCCc----ccCCCCcEEECCCCCCCCCCCc---------cchhh
Confidence            999999988887642      3578999999998888888    3478899999997778765531         57889


Q ss_pred             eEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEE
Q 000945          858 SLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKL  937 (1212)
Q Consensus       858 ~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L  937 (1212)
                      .|++++|. +..++    .   .+++|+.|++++| .++.+|   ..+++|+.|++++| .++.+|.     .+++|+.|
T Consensus       205 ~L~L~~N~-l~~l~----~---~~~~L~~L~Ls~N-~L~~lp---~~l~~L~~L~Ls~N-~L~~lp~-----~~~~L~~L  266 (622)
T 3g06_A          205 KLWAYNNR-LTSLP----A---LPSGLKELIVSGN-RLTSLP---VLPSELKELMVSGN-RLTSLPM-----LPSGLLSL  266 (622)
T ss_dssp             EEECCSSC-CSSCC----C---CCTTCCEEECCSS-CCSCCC---CCCTTCCEEECCSS-CCSCCCC-----CCTTCCEE
T ss_pred             EEECcCCc-ccccC----C---CCCCCCEEEccCC-ccCcCC---CCCCcCcEEECCCC-CCCcCCc-----ccccCcEE
Confidence            99888864 44442    2   2478889999886 566676   45688899999885 6777763     56778888


Q ss_pred             EecCcchhhHhhccCccccccceeccchhhhhhccCC
Q 000945          938 RIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLE  974 (1212)
Q Consensus       938 ~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  974 (1212)
                      ++++|. +..+|.       ....+++|+.|++++++
T Consensus       267 ~Ls~N~-L~~lp~-------~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          267 SVYRNQ-LTRLPE-------SLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             ECCSSC-CCSCCG-------GGGGSCTTCEEECCSCC
T ss_pred             eCCCCC-CCcCCH-------HHhhccccCEEEecCCC
Confidence            888885 556652       23456778888888775

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.68  E-value=5.5e-17  Score=181.49  Aligned_cols=289  Identities=15%  Similarity=0.112  Sum_probs=151.3

Q ss_pred             ccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccccc
Q 000945          619 NLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTT  698 (1212)
Q Consensus       619 ~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~  698 (1212)
                      .++.++++++.+.......+  ..+++|++|++++| .++.+++.. ++.+++|++|++++|. +..+.         ..
T Consensus        11 ~l~i~~ls~~~l~~~~~~~~--~~~~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~Ls~n~-l~~~~---------~~   76 (317)
T 3o53_A           11 RYKIEKVTDSSLKQALASLR--QSAWNVKELDLSGN-PLSQISAAD-LAPFTKLELLNLSSNV-LYETL---------DL   76 (317)
T ss_dssp             EEEEESCCTTTHHHHHHHHH--TTGGGCSEEECTTS-CCCCCCHHH-HTTCTTCCEEECTTSC-CEEEE---------EE
T ss_pred             ceeEeeccccchhhhHHHHh--ccCCCCCEEECcCC-ccCcCCHHH-hhCCCcCCEEECCCCc-CCcch---------hh
Confidence            34455555554433222211  14678888888886 566665533 4788888888888876 44332         12


Q ss_pred             ccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccce
Q 000945          699 FVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLE  778 (1212)
Q Consensus       699 ~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~  778 (1212)
                      ..+++|++|+++++. +..++      .                                               .++|+
T Consensus        77 ~~l~~L~~L~Ls~n~-l~~l~------~-----------------------------------------------~~~L~  102 (317)
T 3o53_A           77 ESLSTLRTLDLNNNY-VQELL------V-----------------------------------------------GPSIE  102 (317)
T ss_dssp             TTCTTCCEEECCSSE-EEEEE------E-----------------------------------------------CTTCC
T ss_pred             hhcCCCCEEECcCCc-ccccc------C-----------------------------------------------CCCcC
Confidence            234555555555442 22221      1                                               23444


Q ss_pred             eeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccce
Q 000945          779 ELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKS  858 (1212)
Q Consensus       779 ~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~  858 (1212)
                      .|++++|.+..+.+     ..+++|++|++++|.+..+++..+..+++|+.|+++.|.++.+.+..    ....+++|+.
T Consensus       103 ~L~l~~n~l~~~~~-----~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~----~~~~l~~L~~  173 (317)
T 3o53_A          103 TLHAANNNISRVSC-----SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAE----LAASSDTLEH  173 (317)
T ss_dssp             EEECCSSCCSEEEE-----CCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGG----GGGGTTTCCE
T ss_pred             EEECCCCccCCcCc-----cccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHH----HhhccCcCCE
Confidence            44444444444332     12344555555555555554444555555555555544554443211    0112455666


Q ss_pred             EeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEE
Q 000945          859 LKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLR  938 (1212)
Q Consensus       859 L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~  938 (1212)
                      |++++|. +..++     ....+++|++|++++| .++.+|+.+..+++|+.|++++| .++.+|  ..+..+++|+.|+
T Consensus       174 L~L~~N~-l~~~~-----~~~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~L~~L~L~~N-~l~~l~--~~~~~l~~L~~L~  243 (317)
T 3o53_A          174 LNLQYNF-IYDVK-----GQVVFAKLKTLDLSSN-KLAFMGPEFQSAAGVTWISLRNN-KLVLIE--KALRFSQNLEHFD  243 (317)
T ss_dssp             EECTTSC-CCEEE-----CCCCCTTCCEEECCSS-CCCEECGGGGGGTTCSEEECTTS-CCCEEC--TTCCCCTTCCEEE
T ss_pred             EECCCCc-Ccccc-----cccccccCCEEECCCC-cCCcchhhhcccCcccEEECcCC-cccchh--hHhhcCCCCCEEE
Confidence            6666543 33321     1123566677777665 34456655666777777777774 566665  3346667777777


Q ss_pred             ecCcchh-hHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCcc
Q 000945          939 IDGCRML-TEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMK 1003 (1212)
Q Consensus       939 i~~c~~l-~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~ 1003 (1212)
                      +++|+-. ..++.       ....+++|+.|++.+++.++......+.  .+.+....-..|..+.
T Consensus       244 l~~N~~~~~~~~~-------~~~~~~~L~~l~l~~~~~l~~~~~~~~~--~~~~~~~~~~cc~~l~  300 (317)
T 3o53_A          244 LRGNGFHCGTLRD-------FFSKNQRVQTVAKQTVKKLTGQNEEECT--VPTLGHYGAYCCEDLP  300 (317)
T ss_dssp             CTTCCCBHHHHHH-------HHHTCHHHHHHHHHHHHHHHSSSSCCCS--STTCEEETTEEEBCCT
T ss_pred             ccCCCccCcCHHH-------HHhccccceEEECCCchhccCCchhccC--CCceecccceeeccCC
Confidence            7776633 22221       1234677778887777666665544332  1333333333455543

>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=99.66  E-value=5.7e-16  Score=176.51  Aligned_cols=187  Identities=21%  Similarity=0.215  Sum_probs=141.0

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++|++|++++|.+..+....+.  .+++|++|++++| .++.+++.. ++++++|++|++++|. +..++..       
T Consensus        51 ~~~L~~L~l~~n~i~~~~~~~~~--~l~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~Ls~n~-l~~~~~~-------  118 (353)
T 2z80_A           51 TEAVKSLDLSNNRITYISNSDLQ--RCVNLQALVLTSN-GINTIEEDS-FSSLGSLEHLDLSYNY-LSNLSSS-------  118 (353)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTT--TCTTCCEEECTTS-CCCEECTTT-TTTCTTCCEEECCSSC-CSSCCHH-------
T ss_pred             cccCcEEECCCCcCcccCHHHhc--cCCCCCEEECCCC-ccCccCHhh-cCCCCCCCEEECCCCc-CCcCCHh-------
Confidence            36899999999988877664443  6899999999986 677766543 5889999999999986 6655321       


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                      ....+++|++|++.++. +..++.......+++|+.|++++|..+..+++.  .+                    ..+++
T Consensus       119 ~~~~l~~L~~L~L~~n~-l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~--~~--------------------~~l~~  175 (353)
T 2z80_A          119 WFKPLSSLTFLNLLGNP-YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRK--DF--------------------AGLTF  175 (353)
T ss_dssp             HHTTCTTCSEEECTTCC-CSSSCSSCSCTTCTTCCEEEEEESSSCCEECTT--TT--------------------TTCCE
T ss_pred             HhCCCccCCEEECCCCC-CcccCchhhhccCCCCcEEECCCCccccccCHH--Hc--------------------cCCCC
Confidence            23458999999999873 444444122346899999999998767666311  11                    11688


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEe
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEI  840 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~  840 (1212)
                      |++|++++|.+..+.+  .....+++|++|++++|.+..+|...+..+++|+.|+++.|.++..
T Consensus       176 L~~L~l~~n~l~~~~~--~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~  237 (353)
T 2z80_A          176 LEELEIDASDLQSYEP--KSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTF  237 (353)
T ss_dssp             EEEEEEEETTCCEECT--TTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTC
T ss_pred             CCEEECCCCCcCccCH--HHHhccccCCeecCCCCccccchhhhhhhcccccEEECCCCccccc
Confidence            9999999998888754  3445688999999999999999988888899999999997777654

>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=99.66  E-value=3.6e-18  Score=203.19  Aligned_cols=163  Identities=18%  Similarity=0.076  Sum_probs=74.6

Q ss_pred             cccceeeeecccccccccccc---CcccccccceEeEeecCCccc-----cchHHHhhcCccceeEEEccceeEeccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQ---FPKHIFRNLKNLEVVNDESEN-----FRIGFLERFHNLEKLELRWSSYKEIFSNEE  845 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~---~~~~~~~~L~~L~l~~~~~~~-----~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~  845 (1212)
                      +++|++|++++|.+.......   .....+++|++|++++|.+..     ++.. +..+++|+.|+++.|.+...... .
T Consensus       226 ~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~-l~~~~~L~~L~Ls~n~i~~~~~~-~  303 (461)
T 1z7x_W          226 KASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRV-LRAKESLKELSLAGNELGDEGAR-L  303 (461)
T ss_dssp             CTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHH-HHHCTTCCEEECTTCCCHHHHHH-H
T ss_pred             CCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHH-HhhCCCcceEECCCCCCchHHHH-H
Confidence            455566666555544321100   011124566666666665555     3332 55566677777764444321110 0


Q ss_pred             hhhcc-ccccccceEeeCCCccchhhh-ccCCCCccccCcccEEEEecCCCcccc-cCCcc-----ccCCccEEeecccc
Q 000945          846 IVEHA-EMLTQVKSLKLWELSDLMYIW-KQDSKLDSITENLESLEVWWCENLINL-VPSSA-----SFKNLTTLELWYCQ  917 (1212)
Q Consensus       846 ~~~~~-~~l~~L~~L~l~~c~~l~~l~-~~~~~~~~~l~~L~~L~l~~c~~l~~l-p~~~~-----~l~~L~~L~l~~c~  917 (1212)
                      +...+ ...++|++|++++|. +.... ...+..+..+++|++|++++|. ++.. +..+.     ..++|+.|++++| 
T Consensus       304 l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n-  380 (461)
T 1z7x_W          304 LCETLLEPGCQLESLWVKSCS-FTAACCSHFSSVLAQNRFLLELQISNNR-LEDAGVRELCQGLGQPGSVLRVLWLADC-  380 (461)
T ss_dssp             HHHHHTSTTCCCCEEECTTSC-CBGGGHHHHHHHHHHCSSCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTS-
T ss_pred             HHHHhccCCccceeeEcCCCC-CchHHHHHHHHHHhhCCCccEEEccCCc-cccccHHHHHHHHcCCCCceEEEECCCC-
Confidence            00110 112466666666654 21110 0012234455666666666653 2221 11111     1456666666665 


Q ss_pred             Ccc-----cccchhhhcccccccEEEecCcc
Q 000945          918 RLM-----NLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       918 ~l~-----~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      .++     .++  ..+..+++|++|++++|+
T Consensus       381 ~i~~~~~~~l~--~~l~~~~~L~~L~l~~N~  409 (461)
T 1z7x_W          381 DVSDSSCSSLA--ATLLANHSLRELDLSNNC  409 (461)
T ss_dssp             CCCHHHHHHHH--HHHHHCCCCCEEECCSSS
T ss_pred             CCChhhHHHHH--HHHHhCCCccEEECCCCC
Confidence            344     222  333445666666666664

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.66  E-value=2.6e-16  Score=175.34  Aligned_cols=253  Identities=15%  Similarity=0.088  Sum_probs=132.2

Q ss_pred             cccceeeccccccce--ecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccc-eeeccccccc
Q 000945          618 PNLETLELCAISTEK--IWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLE-SIVGKESGEE  694 (1212)
Q Consensus       618 ~~L~~L~l~~~~l~~--~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~-~i~~~~~~~~  694 (1212)
                      .+++.|+++++.+..  .....+  ..+++|++|++++++.+....|.. ++++++|++|++++|. +. .++.      
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l--~~l~~L~~L~L~~~n~l~~~~p~~-l~~l~~L~~L~Ls~n~-l~~~~p~------  119 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSL--ANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTN-VSGAIPD------  119 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGG--GGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEEC-CEEECCG------
T ss_pred             ceEEEEECCCCCccCCcccChhH--hCCCCCCeeeCCCCCcccccCChh-HhcCCCCCEEECcCCe-eCCcCCH------
Confidence            567888888886653  222222  257888888888655555433333 5778888888888776 33 3221      


Q ss_pred             ccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeec
Q 000945          695 ATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVT  774 (1212)
Q Consensus       695 ~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l  774 (1212)
                        ....+++|++|+++++.--..++..  ...+                                               
T Consensus       120 --~~~~l~~L~~L~Ls~N~l~~~~p~~--~~~l-----------------------------------------------  148 (313)
T 1ogq_A          120 --FLSQIKTLVTLDFSYNALSGTLPPS--ISSL-----------------------------------------------  148 (313)
T ss_dssp             --GGGGCTTCCEEECCSSEEESCCCGG--GGGC-----------------------------------------------
T ss_pred             --HHhCCCCCCEEeCCCCccCCcCChH--HhcC-----------------------------------------------
Confidence              2233556666665554321111111  1124                                               


Q ss_pred             ccceeeeeccccccccccccCcccccc-cceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFR-NLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~-~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      ++|++|++++|.+.+..+  .....++ +|+.|++++|.+....+..+..++ |+.|+++.|.++..++     ..+..+
T Consensus       149 ~~L~~L~L~~N~l~~~~p--~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~-----~~~~~l  220 (313)
T 1ogq_A          149 PNLVGITFDGNRISGAIP--DSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDAS-----VLFGSD  220 (313)
T ss_dssp             TTCCEEECCSSCCEEECC--GGGGCCCTTCCEEECCSSEEEEECCGGGGGCC-CSEEECCSSEEEECCG-----GGCCTT
T ss_pred             CCCCeEECcCCcccCcCC--HHHhhhhhcCcEEECcCCeeeccCChHHhCCc-ccEEECcCCcccCcCC-----HHHhcC
Confidence            445555555554442221  1122333 555555555544422222244454 6666666555554332     223335


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|+++++.--..+     ..+..+++|++|++++|...+.+|..+..+++|+.|++++|+--..+|..   ..+++
T Consensus       221 ~~L~~L~L~~N~l~~~~-----~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~---~~l~~  292 (313)
T 1ogq_A          221 KNTQKIHLAKNSLAFDL-----GKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG---GNLQR  292 (313)
T ss_dssp             SCCSEEECCSSEECCBG-----GGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCS---TTGGG
T ss_pred             CCCCEEECCCCceeeec-----CcccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcCCcccccCCCC---ccccc
Confidence            66666666654321111     12445666777777766655566666666777777777765322244421   55666


Q ss_pred             ccEEEecCcchhhH
Q 000945          934 LTKLRIDGCRMLTE  947 (1212)
Q Consensus       934 L~~L~i~~c~~l~~  947 (1212)
                      |+.|++++++.+..
T Consensus       293 L~~l~l~~N~~lc~  306 (313)
T 1ogq_A          293 FDVSAYANNKCLCG  306 (313)
T ss_dssp             SCGGGTCSSSEEES
T ss_pred             cChHHhcCCCCccC
Confidence            77777776665443

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.65  E-value=1.2e-15  Score=170.10  Aligned_cols=254  Identities=15%  Similarity=0.063  Sum_probs=177.2

Q ss_pred             cCccEEEEecCCCcc--ccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccC
Q 000945          644 QNLTRLIVHGCEKLK--YLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPG  721 (1212)
Q Consensus       644 ~~L~~L~L~~c~~l~--~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~  721 (1212)
                      .+++.|+++++.--.  .+|+.  ++++++|++|+++++..+......       ...                      
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~--l~~l~~L~~L~L~~~n~l~~~~p~-------~l~----------------------   98 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSS--LANLPYLNFLYIGGINNLVGPIPP-------AIA----------------------   98 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGG--GGGCTTCSEEEEEEETTEESCCCG-------GGG----------------------
T ss_pred             ceEEEEECCCCCccCCcccChh--HhCCCCCCeeeCCCCCcccccCCh-------hHh----------------------
Confidence            579999999874433  45553  688999999999864434322110       111                      


Q ss_pred             CCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeeeeccccccccccccCcccccc
Q 000945          722 THTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELKLSGKDIAMICQSQFPKHIFR  801 (1212)
Q Consensus       722 ~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~l~~~~~~~~~~~  801 (1212)
                          .+++|++|++++|.--..+|..   +                    ..+++|++|++++|.+.+..+  .....++
T Consensus        99 ----~l~~L~~L~Ls~n~l~~~~p~~---~--------------------~~l~~L~~L~Ls~N~l~~~~p--~~~~~l~  149 (313)
T 1ogq_A           99 ----KLTQLHYLYITHTNVSGAIPDF---L--------------------SQIKTLVTLDFSYNALSGTLP--PSISSLP  149 (313)
T ss_dssp             ----GCTTCSEEEEEEECCEEECCGG---G--------------------GGCTTCCEEECCSSEEESCCC--GGGGGCT
T ss_pred             ----cCCCCCEEECcCCeeCCcCCHH---H--------------------hCCCCCCEEeCCCCccCCcCC--hHHhcCC
Confidence                3556666666665322233211   1                    116789999999988886543  3346789


Q ss_pred             cceEeEeecCCcc-ccchHHHhhcC-ccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCcc
Q 000945          802 NLKNLEVVNDESE-NFRIGFLERFH-NLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDS  879 (1212)
Q Consensus       802 ~L~~L~l~~~~~~-~~p~~~l~~l~-~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~  879 (1212)
                      +|++|++++|.+. .+|.. +..++ +|+.|+++.|.++...+.     .+..++ |+.|+++++. +.   ...+..+.
T Consensus       150 ~L~~L~L~~N~l~~~~p~~-l~~l~~~L~~L~L~~N~l~~~~~~-----~~~~l~-L~~L~Ls~N~-l~---~~~~~~~~  218 (313)
T 1ogq_A          150 NLVGITFDGNRISGAIPDS-YGSFSKLFTSMTISRNRLTGKIPP-----TFANLN-LAFVDLSRNM-LE---GDASVLFG  218 (313)
T ss_dssp             TCCEEECCSSCCEEECCGG-GGCCCTTCCEEECCSSEEEEECCG-----GGGGCC-CSEEECCSSE-EE---ECCGGGCC
T ss_pred             CCCeEECcCCcccCcCCHH-HhhhhhcCcEEECcCCeeeccCCh-----HHhCCc-ccEEECcCCc-cc---CcCCHHHh
Confidence            9999999998887 66665 77777 999999998888755442     233355 9999999975 22   22356678


Q ss_pred             ccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcc-cccchhhhcccccccEEEecCcchhhHhhccCcccccc
Q 000945          880 ITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLM-NLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAED  958 (1212)
Q Consensus       880 ~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~-~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~  958 (1212)
                      .+++|+.|++++|.....+|. +..+++|++|++++| .++ .+|  ..+..+++|+.|++++|..-..+|.        
T Consensus       219 ~l~~L~~L~L~~N~l~~~~~~-~~~l~~L~~L~Ls~N-~l~~~~p--~~l~~l~~L~~L~Ls~N~l~~~ip~--------  286 (313)
T 1ogq_A          219 SDKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNN-RIYGTLP--QGLTQLKFLHSLNVSFNNLCGEIPQ--------  286 (313)
T ss_dssp             TTSCCSEEECCSSEECCBGGG-CCCCTTCCEEECCSS-CCEECCC--GGGGGCTTCCEEECCSSEEEEECCC--------
T ss_pred             cCCCCCEEECCCCceeeecCc-ccccCCCCEEECcCC-cccCcCC--hHHhcCcCCCEEECcCCcccccCCC--------
Confidence            899999999999865544444 678899999999997 455 555  5568889999999999985445552        


Q ss_pred             ceeccchhhhhhccCCCccccc
Q 000945          959 EIVFSKLKWVSLERLENLTSFC  980 (1212)
Q Consensus       959 ~~~l~~L~~L~l~~~~~L~~l~  980 (1212)
                      ...+++|+.|++.+++.+-..|
T Consensus       287 ~~~l~~L~~l~l~~N~~lc~~p  308 (313)
T 1ogq_A          287 GGNLQRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             STTGGGSCGGGTCSSSEEESTT
T ss_pred             CccccccChHHhcCCCCccCCC
Confidence            2457889999999888665544

>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=99.63  E-value=8.3e-18  Score=200.08  Aligned_cols=167  Identities=15%  Similarity=-0.011  Sum_probs=90.1

Q ss_pred             cccceeeeeccccccccccc--cCcccccccceEeEeecCCccccchHHHhh-----cCccceeEEEccceeEeccccch
Q 000945          774 TSKLEELKLSGKDIAMICQS--QFPKHIFRNLKNLEVVNDESENFRIGFLER-----FHNLEKLELRWSSYKEIFSNEEI  846 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~--~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~-----l~~L~~L~l~c~~l~~~~~~~~~  846 (1212)
                      +++|++|++++|.+......  ......+++|++|++++|.+.......+..     .++|+.|+++.+.++... ...+
T Consensus       255 ~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~-~~~l  333 (461)
T 1z7x_W          255 SSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAAC-CSHF  333 (461)
T ss_dssp             TCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGG-HHHH
T ss_pred             CCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCchHH-HHHH
Confidence            45666666666655542100  011223566777777776655433332322     257777777744444321 0011


Q ss_pred             hhccccccccceEeeCCCccchhhhcc-CCCCcc-ccCcccEEEEecCCCcc----cccCCccccCCccEEeeccccCcc
Q 000945          847 VEHAEMLTQVKSLKLWELSDLMYIWKQ-DSKLDS-ITENLESLEVWWCENLI----NLVPSSASFKNLTTLELWYCQRLM  920 (1212)
Q Consensus       847 ~~~~~~l~~L~~L~l~~c~~l~~l~~~-~~~~~~-~l~~L~~L~l~~c~~l~----~lp~~~~~l~~L~~L~l~~c~~l~  920 (1212)
                      ...+..+++|++|++++|. +...... ....+. ..++|++|++++|..-.    .+|..+..+++|++|++++| .++
T Consensus       334 ~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~N-~i~  411 (461)
T 1z7x_W          334 SSVLAQNRFLLELQISNNR-LEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNN-CLG  411 (461)
T ss_dssp             HHHHHHCSSCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSS-SCC
T ss_pred             HHHHhhCCCccEEEccCCc-cccccHHHHHHHHcCCCCceEEEECCCCCCChhhHHHHHHHHHhCCCccEEECCCC-CCC
Confidence            1233345777888877763 3322100 001111 25688889998885443    67776777899999999986 455


Q ss_pred             cccchhh----hcccccccEEEecCcc
Q 000945          921 NLVTSST----AKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       921 ~l~~~~~----~~~l~~L~~L~i~~c~  943 (1212)
                      ......+    ......|+.|.+.++.
T Consensus       412 ~~~~~~l~~~l~~~~~~L~~L~~~~~~  438 (461)
T 1z7x_W          412 DAGILQLVESVRQPGCLLEQLVLYDIY  438 (461)
T ss_dssp             HHHHHHHHHHHTSTTCCCCEEECTTCC
T ss_pred             HHHHHHHHHHhccCCcchhheeecccc
Confidence            4322222    2333468888877765

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.62  E-value=7.7e-16  Score=172.16  Aligned_cols=203  Identities=14%  Similarity=0.053  Sum_probs=153.2

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|++|++++|.+.++..       .++|++|++++|.+..++..   .+++|+.|+++.|.++.+++.     .+..+
T Consensus        79 l~~L~~L~Ls~n~l~~l~~-------~~~L~~L~l~~n~l~~~~~~---~~~~L~~L~l~~N~l~~~~~~-----~~~~l  143 (317)
T 3o53_A           79 LSTLRTLDLNNNYVQELLV-------GPSIETLHAANNNISRVSCS---RGQGKKNIYLANNKITMLRDL-----DEGCR  143 (317)
T ss_dssp             CTTCCEEECCSSEEEEEEE-------CTTCCEEECCSSCCSEEEEC---CCSSCEEEECCSSCCCSGGGB-----CTGGG
T ss_pred             cCCCCEEECcCCccccccC-------CCCcCEEECCCCccCCcCcc---ccCCCCEEECCCCCCCCccch-----hhhcc
Confidence            6789999999998887752       47999999999999988854   478999999998888776542     23457


Q ss_pred             cccceEeeCCCccchhhhccCCCCc-cccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLD-SITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~-~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      ++|+.|+++++. +..+.   +..+ ..+++|++|++++|. ++.+|.. ..+++|+.|++++| .++.+|.  .+..++
T Consensus       144 ~~L~~L~Ls~N~-l~~~~---~~~~~~~l~~L~~L~L~~N~-l~~~~~~-~~l~~L~~L~Ls~N-~l~~l~~--~~~~l~  214 (317)
T 3o53_A          144 SRVQYLDLKLNE-IDTVN---FAELAASSDTLEHLNLQYNF-IYDVKGQ-VVFAKLKTLDLSSN-KLAFMGP--EFQSAA  214 (317)
T ss_dssp             SSEEEEECTTSC-CCEEE---GGGGGGGTTTCCEEECTTSC-CCEEECC-CCCTTCCEEECCSS-CCCEECG--GGGGGT
T ss_pred             CCCCEEECCCCC-CCccc---HHHHhhccCcCCEEECCCCc-Ccccccc-cccccCCEEECCCC-cCCcchh--hhcccC
Confidence            999999999974 33331   2333 468999999999975 5666543 45899999999996 7888874  367889


Q ss_pred             cccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCc-ccccCCCceeecCCccEEEeccCCCccccCcCCc
Q 000945          933 CLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENL-TSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVL 1010 (1212)
Q Consensus       933 ~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L-~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~~ 1010 (1212)
                      +|+.|++++|. +..+|.       ....+++|+.|++++++-. ..++....  .++.|+.|++.+|+.++..+....
T Consensus       215 ~L~~L~L~~N~-l~~l~~-------~~~~l~~L~~L~l~~N~~~~~~~~~~~~--~~~~L~~l~l~~~~~l~~~~~~~~  283 (317)
T 3o53_A          215 GVTWISLRNNK-LVLIEK-------ALRFSQNLEHFDLRGNGFHCGTLRDFFS--KNQRVQTVAKQTVKKLTGQNEEEC  283 (317)
T ss_dssp             TCSEEECTTSC-CCEECT-------TCCCCTTCCEEECTTCCCBHHHHHHHHH--TCHHHHHHHHHHHHHHHSSSSCCC
T ss_pred             cccEEECcCCc-ccchhh-------HhhcCCCCCEEEccCCCccCcCHHHHHh--ccccceEEECCCchhccCCchhcc
Confidence            99999999996 666663       2345789999999998744 24443333  357899999998877766544433

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.62  E-value=6.9e-16  Score=182.83  Aligned_cols=59  Identities=17%  Similarity=0.150  Sum_probs=29.7

Q ss_pred             cCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcc
Q 000945          881 TENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       881 l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      +++|+.|++++| .++.+|+.+..+++|+.|++++| .++.+|  ..+..+++|+.|++++|+
T Consensus       190 l~~L~~L~Ls~N-~l~~~~~~~~~l~~L~~L~Ls~N-~l~~lp--~~l~~l~~L~~L~l~~N~  248 (487)
T 3oja_A          190 FAKLKTLDLSSN-KLAFMGPEFQSAAGVTWISLRNN-KLVLIE--KALRFSQNLEHFDLRGNG  248 (487)
T ss_dssp             CTTCCEEECCSS-CCCEECGGGGGGTTCSEEECTTS-CCCEEC--TTCCCCTTCCEEECTTCC
T ss_pred             CCCCCEEECCCC-CCCCCCHhHcCCCCccEEEecCC-cCcccc--hhhccCCCCCEEEcCCCC
Confidence            445555555543 23344444555555555555553 444444  223445555555555554

>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=99.60  E-value=3.8e-15  Score=169.68  Aligned_cols=277  Identities=14%  Similarity=0.133  Sum_probs=182.1

Q ss_pred             cccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccc
Q 000945          618 PNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATT  697 (1212)
Q Consensus       618 ~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~  697 (1212)
                      +.....+.+++.++.++..     ..++|++|+++++ .++.+++.. ++++++|++|++++|. +..+...       .
T Consensus        31 ~~~~~c~~~~~~l~~iP~~-----~~~~L~~L~l~~n-~i~~~~~~~-~~~l~~L~~L~L~~n~-l~~~~~~-------~   95 (353)
T 2z80_A           31 DRNGICKGSSGSLNSIPSG-----LTEAVKSLDLSNN-RITYISNSD-LQRCVNLQALVLTSNG-INTIEED-------S   95 (353)
T ss_dssp             CTTSEEECCSTTCSSCCTT-----CCTTCCEEECTTS-CCCEECTTT-TTTCTTCCEEECTTSC-CCEECTT-------T
T ss_pred             CCCeEeeCCCCCccccccc-----ccccCcEEECCCC-cCcccCHHH-hccCCCCCEEECCCCc-cCccCHh-------h
Confidence            4444567777777666543     3578999999986 577776633 5889999999999986 6666432       2


Q ss_pred             cccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccc
Q 000945          698 TFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKL  777 (1212)
Q Consensus       698 ~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L  777 (1212)
                      ...+++|++|+++++. +..++... ...+++|++|++++| .+..+|.. ..+                    ..+++|
T Consensus        96 ~~~l~~L~~L~Ls~n~-l~~~~~~~-~~~l~~L~~L~L~~n-~l~~l~~~-~~~--------------------~~l~~L  151 (353)
T 2z80_A           96 FSSLGSLEHLDLSYNY-LSNLSSSW-FKPLSSLTFLNLLGN-PYKTLGET-SLF--------------------SHLTKL  151 (353)
T ss_dssp             TTTCTTCCEEECCSSC-CSSCCHHH-HTTCTTCSEEECTTC-CCSSSCSS-CSC--------------------TTCTTC
T ss_pred             cCCCCCCCEEECCCCc-CCcCCHhH-hCCCccCCEEECCCC-CCcccCch-hhh--------------------ccCCCC
Confidence            3457889999998763 33333211 125788889988886 45555310 001                    126788


Q ss_pred             eeeeecccc-ccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          778 EELKLSGKD-IAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       778 ~~L~l~~~~-~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      +.|++++|+ +..+.+  .....+++|++|++++|.+..+++..+..+++|+.|+++.|.++.++.     ..+..+++|
T Consensus       152 ~~L~l~~n~~~~~~~~--~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l~~~~~-----~~~~~~~~L  224 (353)
T 2z80_A          152 QILRVGNMDTFTKIQR--KDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLE-----IFVDVTSSV  224 (353)
T ss_dssp             CEEEEEESSSCCEECT--TTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCSTTHHH-----HHHHHTTTE
T ss_pred             cEEECCCCccccccCH--HHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCccccchh-----hhhhhcccc
Confidence            888888873 555543  234567888888888888887766668888888888888666654432     112346888


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCc----ccccCCccccCCccEEeeccccCcccccchhhhcccc
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENL----INLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l----~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      +.|+++++. +..++..........+.++.++++++..-    ..+|..+..+++|+.|++++| .++.+|. ..+..++
T Consensus       225 ~~L~L~~n~-l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N-~l~~i~~-~~~~~l~  301 (353)
T 2z80_A          225 ECLELRDTD-LDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRN-QLKSVPD-GIFDRLT  301 (353)
T ss_dssp             EEEEEESCB-CTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCSS-CCCCCCT-TTTTTCT
T ss_pred             cEEECCCCc-cccccccccccccccchhhccccccccccCcchhhhHHHHhcccCCCEEECCCC-CCCccCH-HHHhcCC
Confidence            888888864 33332222222334566777888776432    246666677888888888885 6777763 3346778


Q ss_pred             cccEEEecCcc
Q 000945          933 CLTKLRIDGCR  943 (1212)
Q Consensus       933 ~L~~L~i~~c~  943 (1212)
                      +|+.|++++|+
T Consensus       302 ~L~~L~L~~N~  312 (353)
T 2z80_A          302 SLQKIWLHTNP  312 (353)
T ss_dssp             TCCEEECCSSC
T ss_pred             CCCEEEeeCCC
Confidence            88888888886

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.59  E-value=7.1e-15  Score=172.81  Aligned_cols=227  Identities=18%  Similarity=0.213  Sum_probs=176.3

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      .++++.|+|++|.+..+.+  ..+..+++|++|+|++|.+..++...|.++++|+.|+|+.|.++.+++     ..+..+
T Consensus        63 ~~~l~~L~L~~n~i~~~~~--~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-----~~~~~l  135 (440)
T 3zyj_A           63 STNTRLLNLHENQIQIIKV--NSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPN-----GAFVYL  135 (440)
T ss_dssp             CTTCSEEECCSCCCCEECT--TTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCT-----TTSCSC
T ss_pred             CCCCcEEEccCCcCCeeCH--HHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeCH-----hHhhcc
Confidence            4688999999999888865  344578899999999999999988889999999999999778877654     234457


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccC-CccccCCccEEeeccccCcccccchhhhcccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVP-SSASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~-~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      ++|++|+++++. +..++   +..+..+++|++|++++|+.++.+++ .+..+++|+.|++++| .++.+|   .+..++
T Consensus       136 ~~L~~L~L~~N~-i~~~~---~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n-~l~~~~---~~~~l~  207 (440)
T 3zyj_A          136 SKLKELWLRNNP-IESIP---SYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMC-NLREIP---NLTPLI  207 (440)
T ss_dssp             SSCCEEECCSCC-CCEEC---TTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTS-CCSSCC---CCTTCS
T ss_pred             ccCceeeCCCCc-ccccC---HHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCC-cCcccc---ccCCCc
Confidence            899999998865 44442   44677889999999999999988876 3677899999999996 788776   357788


Q ss_pred             cccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCC-cC
Q 000945          933 CLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRV-LS 1011 (1212)
Q Consensus       933 ~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~-~~ 1011 (1212)
                      +|+.|++++|. +..++.      .....+++|+.|++.++ .++.++..... .+++|++|+++++ .+..+|... ..
T Consensus       208 ~L~~L~Ls~N~-l~~~~~------~~~~~l~~L~~L~L~~n-~l~~~~~~~~~-~l~~L~~L~L~~N-~l~~~~~~~~~~  277 (440)
T 3zyj_A          208 KLDELDLSGNH-LSAIRP------GSFQGLMHLQKLWMIQS-QIQVIERNAFD-NLQSLVEINLAHN-NLTLLPHDLFTP  277 (440)
T ss_dssp             SCCEEECTTSC-CCEECT------TTTTTCTTCCEEECTTC-CCCEECTTSST-TCTTCCEEECTTS-CCCCCCTTTTSS
T ss_pred             ccCEEECCCCc-cCccCh------hhhccCccCCEEECCCC-ceeEEChhhhc-CCCCCCEEECCCC-CCCccChhHhcc
Confidence            89999999986 554432      12345788999999988 46777654432 4689999999997 566777554 67


Q ss_pred             CCccceEEeccCcc
Q 000945         1012 TPRLREVRQNWGLY 1025 (1212)
Q Consensus      1012 ~~~L~~l~~~~~~~ 1025 (1212)
                      +++|+.+++++|..
T Consensus       278 l~~L~~L~L~~Np~  291 (440)
T 3zyj_A          278 LHHLERIHLHHNPW  291 (440)
T ss_dssp             CTTCCEEECCSSCE
T ss_pred             ccCCCEEEcCCCCc
Confidence            89999999998764

>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=99.58  E-value=1.8e-14  Score=170.07  Aligned_cols=226  Identities=19%  Similarity=0.133  Sum_probs=149.3

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++|+.|+|++|.+..+....+.  .+++|+.|+|++| .+..+++.. +..+++|++|+|++|. +..++..       
T Consensus        74 ~~~l~~L~L~~n~i~~~~~~~~~--~l~~L~~L~Ls~n-~i~~~~~~~-~~~l~~L~~L~L~~n~-l~~~~~~-------  141 (452)
T 3zyi_A           74 PSNTRYLNLMENNIQMIQADTFR--HLHHLEVLQLGRN-SIRQIEVGA-FNGLASLNTLELFDNW-LTVIPSG-------  141 (452)
T ss_dssp             CTTCSEEECCSSCCCEECTTTTT--TCTTCCEEECCSS-CCCEECTTT-TTTCTTCCEEECCSSC-CSBCCTT-------
T ss_pred             CCCccEEECcCCcCceECHHHcC--CCCCCCEEECCCC-ccCCcChhh-ccCcccCCEEECCCCc-CCccChh-------
Confidence            37899999999988777655554  6899999999986 677766543 5789999999999986 6666432       


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                      ....+++|++|+++++. +..++... ...+++|+.|++++|..+..++...  +                    ..+++
T Consensus       142 ~~~~l~~L~~L~L~~N~-l~~~~~~~-~~~l~~L~~L~l~~~~~l~~i~~~~--~--------------------~~l~~  197 (452)
T 3zyi_A          142 AFEYLSKLRELWLRNNP-IESIPSYA-FNRVPSLMRLDLGELKKLEYISEGA--F--------------------EGLFN  197 (452)
T ss_dssp             TSSSCTTCCEEECCSCC-CCEECTTT-TTTCTTCCEEECCCCTTCCEECTTT--T--------------------TTCTT
T ss_pred             hhcccCCCCEEECCCCC-cceeCHhH-HhcCCcccEEeCCCCCCccccChhh--c--------------------cCCCC
Confidence            23347889999998875 45554332 2367889999999888887774210  1                    11677


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      |++|++++|.+..++    ....+++|+.|++++|.+..+++..+.++++|+.|+++.|.++.+.+              
T Consensus       198 L~~L~L~~n~l~~~~----~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~--------------  259 (452)
T 3zyi_A          198 LKYLNLGMCNIKDMP----NLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIER--------------  259 (452)
T ss_dssp             CCEEECTTSCCSSCC----CCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECT--------------
T ss_pred             CCEEECCCCcccccc----cccccccccEEECcCCcCcccCcccccCccCCCEEEeCCCcCceECH--------------
Confidence            888888887777663    23456677777777777776666666666666666666555544332              


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccc
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYC  916 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c  916 (1212)
                                         ..+..+++|+.|++++| .++.+|+. +..+++|+.|+++++
T Consensus       260 -------------------~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N  300 (452)
T 3zyi_A          260 -------------------NAFDGLASLVELNLAHN-NLSSLPHDLFTPLRYLVELHLHHN  300 (452)
T ss_dssp             -------------------TTTTTCTTCCEEECCSS-CCSCCCTTSSTTCTTCCEEECCSS
T ss_pred             -------------------HHhcCCCCCCEEECCCC-cCCccChHHhccccCCCEEEccCC
Confidence                               23344555555555554 33344432 345566666666664

>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=99.58  E-value=7.5e-15  Score=161.64  Aligned_cols=131  Identities=15%  Similarity=0.077  Sum_probs=67.7

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|++|++++|.+..+.+  .....+++|++|++++|.+..++...+..+++|+.|+++.|.++.+++.     .+..+
T Consensus       104 l~~L~~L~l~~n~l~~~~~--~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-----~~~~l  176 (285)
T 1ozn_A          104 LGRLHTLHLDRCGLQELGP--GLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPER-----AFRGL  176 (285)
T ss_dssp             CTTCCEEECTTSCCCCCCT--TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTT-----TTTTC
T ss_pred             CcCCCEEECCCCcCCEECH--hHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHH-----HhcCc
Confidence            4556666666655555432  2233456666666666666666665566666677777665555554421     12234


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccC-CccccCCccEEeeccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVP-SSASFKNLTTLELWYC  916 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~-~~~~l~~L~~L~l~~c  916 (1212)
                      ++|+.|+++++. +..+   .+..+..+++|+.|++++|. ++.+|+ .+..+++|+.|+++++
T Consensus       177 ~~L~~L~l~~n~-l~~~---~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~N  235 (285)
T 1ozn_A          177 HSLDRLLLHQNR-VAHV---HPHAFRDLGRLMTLYLFANN-LSALPTEALAPLRALQYLRLNDN  235 (285)
T ss_dssp             TTCCEEECCSSC-CCEE---CTTTTTTCTTCCEEECCSSC-CSCCCHHHHTTCTTCCEEECCSS
T ss_pred             cccCEEECCCCc-cccc---CHhHccCcccccEeeCCCCc-CCcCCHHHcccCcccCEEeccCC
Confidence            555555555543 1111   23344455555555555542 223332 2344555555555554

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.57  E-value=2.2e-14  Score=168.68  Aligned_cols=226  Identities=18%  Similarity=0.169  Sum_probs=142.1

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++++.|+|++|.+..+....+.  .+++|+.|+|++| .+..+++.. +..+++|++|+|++|. +..++..       
T Consensus        63 ~~~l~~L~L~~n~i~~~~~~~~~--~l~~L~~L~Ls~n-~i~~i~~~~-~~~l~~L~~L~L~~n~-l~~~~~~-------  130 (440)
T 3zyj_A           63 STNTRLLNLHENQIQIIKVNSFK--HLRHLEILQLSRN-HIRTIEIGA-FNGLANLNTLELFDNR-LTTIPNG-------  130 (440)
T ss_dssp             CTTCSEEECCSCCCCEECTTTTS--SCSSCCEEECCSS-CCCEECGGG-GTTCSSCCEEECCSSC-CSSCCTT-------
T ss_pred             CCCCcEEEccCCcCCeeCHHHhh--CCCCCCEEECCCC-cCCccChhh-ccCCccCCEEECCCCc-CCeeCHh-------
Confidence            37889999999988777655554  6889999999986 577766543 5789999999999885 6666432       


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                      .+..+++|++|++.++. +..++... ...+++|+.|++++|..+..++..  .+                    ..+++
T Consensus       131 ~~~~l~~L~~L~L~~N~-i~~~~~~~-~~~l~~L~~L~l~~~~~l~~i~~~--~~--------------------~~l~~  186 (440)
T 3zyj_A          131 AFVYLSKLKELWLRNNP-IESIPSYA-FNRIPSLRRLDLGELKRLSYISEG--AF--------------------EGLSN  186 (440)
T ss_dssp             TSCSCSSCCEEECCSCC-CCEECTTT-TTTCTTCCEEECCCCTTCCEECTT--TT--------------------TTCSS
T ss_pred             HhhccccCceeeCCCCc-ccccCHHH-hhhCcccCEeCCCCCCCcceeCcc--hh--------------------hcccc
Confidence            23447888888888764 44444322 235788888888888777666311  01                    11567


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      |++|++++|.+..++    ....+++|+.|++++|.+..+++..+..+++|+.|+++.|.++.+.               
T Consensus       187 L~~L~L~~n~l~~~~----~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~---------------  247 (440)
T 3zyj_A          187 LRYLNLAMCNLREIP----NLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIE---------------  247 (440)
T ss_dssp             CCEEECTTSCCSSCC----CCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEEC---------------
T ss_pred             cCeecCCCCcCcccc----ccCCCcccCEEECCCCccCccChhhhccCccCCEEECCCCceeEEC---------------
Confidence            777777777666553    2344566666666666666665555566666666666544444433               


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccc
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYC  916 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c  916 (1212)
                                        +..+..+++|+.|++++| .++.+|+. +..+++|+.|+++++
T Consensus       248 ------------------~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N  289 (440)
T 3zyj_A          248 ------------------RNAFDNLQSLVEINLAHN-NLTLLPHDLFTPLHHLERIHLHHN  289 (440)
T ss_dssp             ------------------TTSSTTCTTCCEEECTTS-CCCCCCTTTTSSCTTCCEEECCSS
T ss_pred             ------------------hhhhcCCCCCCEEECCCC-CCCccChhHhccccCCCEEEcCCC
Confidence                              233444555555555554 33344332 345566666666664

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.57  E-value=5.4e-15  Score=175.15  Aligned_cols=218  Identities=14%  Similarity=0.099  Sum_probs=178.3

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+..+.+  ..+..+++|++|+|++|.+...++  +..+++|+.|+++.|.++.+++          .
T Consensus        33 ~~~L~~L~Ls~n~l~~~~~--~~~~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~l~~l~~----------~   98 (487)
T 3oja_A           33 AWNVKELDLSGNPLSQISA--ADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNYVQELLV----------G   98 (487)
T ss_dssp             GGGCCEEECCSSCCCCCCG--GGGTTCTTCCEEECTTSCCEEEEE--CTTCTTCCEEECCSSEEEEEEE----------C
T ss_pred             CCCccEEEeeCCcCCCCCH--HHHhCCCCCCEEEeeCCCCCCCcc--cccCCCCCEEEecCCcCCCCCC----------C
Confidence            6799999999999998765  345678999999999999887765  8899999999999888988764          5


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++++|. +..++.      ..+++|+.|++++|......|..++.+++|+.|++++| .++.+++..+...+++
T Consensus        99 ~~L~~L~L~~N~-l~~~~~------~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~l~~~l~~  170 (487)
T 3oja_A           99 PSIETLHAANNN-ISRVSC------SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELAASSDT  170 (487)
T ss_dssp             TTCCEEECCSSC-CCCEEE------CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTS-CCCEEEGGGGGGGTTT
T ss_pred             CCcCEEECcCCc-CCCCCc------cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCC-CCCCcChHHHhhhCCc
Confidence            899999999975 444321      24689999999998766656767888999999999996 6777665566668899


Q ss_pred             ccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCCcCCC
Q 000945          934 LTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTP 1013 (1212)
Q Consensus       934 L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~~~~~ 1013 (1212)
                      |+.|++++|. +..++.        ...+++|+.|+++++ .+..+|....  .+++|+.|++++|. +..+|.++..++
T Consensus       171 L~~L~Ls~N~-l~~~~~--------~~~l~~L~~L~Ls~N-~l~~~~~~~~--~l~~L~~L~Ls~N~-l~~lp~~l~~l~  237 (487)
T 3oja_A          171 LEHLNLQYNF-IYDVKG--------QVVFAKLKTLDLSSN-KLAFMGPEFQ--SAAGVTWISLRNNK-LVLIEKALRFSQ  237 (487)
T ss_dssp             CCEEECTTSC-CCEEEC--------CCCCTTCCEEECCSS-CCCEECGGGG--GGTTCSEEECTTSC-CCEECTTCCCCT
T ss_pred             ccEEecCCCc-cccccc--------cccCCCCCEEECCCC-CCCCCCHhHc--CCCCccEEEecCCc-CcccchhhccCC
Confidence            9999999998 555542        235899999999998 4788877644  46999999999975 678999999999


Q ss_pred             ccceEEeccCccc
Q 000945         1014 RLREVRQNWGLYK 1026 (1212)
Q Consensus      1014 ~L~~l~~~~~~~~ 1026 (1212)
                      +|+.+++++|...
T Consensus       238 ~L~~L~l~~N~l~  250 (487)
T 3oja_A          238 NLEHFDLRGNGFH  250 (487)
T ss_dssp             TCCEEECTTCCBC
T ss_pred             CCCEEEcCCCCCc
Confidence            9999999987643

>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=99.56  E-value=8.4e-15  Score=156.42  Aligned_cols=201  Identities=15%  Similarity=0.110  Sum_probs=141.6

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCC-ccccchHHHhhcCccceeEEE-ccceeEeccccchhhccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDE-SENFRIGFLERFHNLEKLELR-WSSYKEIFSNEEIVEHAE  851 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~-~~~~p~~~l~~l~~L~~L~l~-c~~l~~~~~~~~~~~~~~  851 (1212)
                      .++|+.|++++|.++.+.+  .....+++|++|++++|. +..++...+..+++|+.|+++ ||.++.+++     ..+.
T Consensus        30 ~~~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           30 PPSTQTLKLIETHLRTIPS--HAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDP-----DALK  102 (239)
T ss_dssp             CTTCCEEEEESCCCSEECT--TTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECT-----TSEE
T ss_pred             CCcccEEEEeCCcceEECH--HHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCH-----HHhC
Confidence            4688999999999988864  234568899999999986 888888778889999999999 699888764     2344


Q ss_pred             cccccceEeeCCCccchhhhccCCCCccccCccc---EEEEecCCCcccccCC-ccccCCcc-EEeeccccCcccccchh
Q 000945          852 MLTQVKSLKLWELSDLMYIWKQDSKLDSITENLE---SLEVWWCENLINLVPS-SASFKNLT-TLELWYCQRLMNLVTSS  926 (1212)
Q Consensus       852 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~---~L~l~~c~~l~~lp~~-~~~l~~L~-~L~l~~c~~l~~l~~~~  926 (1212)
                      .+++|+.|+++++. +..+    |. +..+++|+   +|++++|+.++.+|+. +..+++|+ .|+++++ .++.+|...
T Consensus       103 ~l~~L~~L~l~~n~-l~~l----p~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n-~l~~i~~~~  175 (239)
T 2xwt_C          103 ELPLLKFLGIFNTG-LKMF----PD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNN-GFTSVQGYA  175 (239)
T ss_dssp             CCTTCCEEEEEEEC-CCSC----CC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSC-CCCEECTTT
T ss_pred             CCCCCCEEeCCCCC-Cccc----cc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCC-CCcccCHhh
Confidence            57888999888764 4444    22 55666666   8888888777777764 56788888 8888875 677776432


Q ss_pred             hhcccccccEEEecCcchhhHhhccCccccccceec-cchhhhhhccCCCcccccCCCceeecCCccEEEeccCCC
Q 000945          927 TAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVF-SKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPK 1001 (1212)
Q Consensus       927 ~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l-~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~ 1001 (1212)
                      + .. ++|+.|++++|..+..++..      ....+ ++|+.|+++++ .++.+|..    .+++|+.|++.+++.
T Consensus       176 ~-~~-~~L~~L~L~~n~~l~~i~~~------~~~~l~~~L~~L~l~~N-~l~~l~~~----~~~~L~~L~l~~~~~  238 (239)
T 2xwt_C          176 F-NG-TKLDAVYLNKNKYLTVIDKD------AFGGVYSGPSLLDVSQT-SVTALPSK----GLEHLKELIARNTWT  238 (239)
T ss_dssp             T-TT-CEEEEEECTTCTTCCEECTT------TTTTCSBCCSEEECTTC-CCCCCCCT----TCTTCSEEECTTC--
T ss_pred             c-CC-CCCCEEEcCCCCCcccCCHH------HhhccccCCcEEECCCC-ccccCChh----HhccCceeeccCccC
Confidence            2 22 67888888888656655421      12234 67777777765 46666654    246777777776654

>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=99.56  E-value=1.1e-14  Score=171.75  Aligned_cols=227  Identities=20%  Similarity=0.191  Sum_probs=182.4

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      .++|+.|++++|.+..+.+  ..+..+++|+.|++++|.+..+++..+.++++|+.|+|+.|.++.+++     ..+..+
T Consensus        74 ~~~l~~L~L~~n~i~~~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-----~~~~~l  146 (452)
T 3zyi_A           74 PSNTRYLNLMENNIQMIQA--DTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPS-----GAFEYL  146 (452)
T ss_dssp             CTTCSEEECCSSCCCEECT--TTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCT-----TTSSSC
T ss_pred             CCCccEEECcCCcCceECH--HHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccCh-----hhhccc
Confidence            4689999999999998865  345678999999999999999998889999999999999888887664     234558


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhcccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      ++|++|+++++. +..++   +..+..+++|+.|++++|+.++.++.. +..+++|+.|++++| +++.+|   .+..++
T Consensus       147 ~~L~~L~L~~N~-l~~~~---~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n-~l~~~~---~~~~l~  218 (452)
T 3zyi_A          147 SKLRELWLRNNP-IESIP---SYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMC-NIKDMP---NLTPLV  218 (452)
T ss_dssp             TTCCEEECCSCC-CCEEC---TTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTS-CCSSCC---CCTTCT
T ss_pred             CCCCEEECCCCC-cceeC---HhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCC-cccccc---cccccc
Confidence            999999999875 45442   456788999999999999999999874 678999999999996 788875   357789


Q ss_pred             cccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCC-cC
Q 000945          933 CLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRV-LS 1011 (1212)
Q Consensus       933 ~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~-~~ 1011 (1212)
                      +|+.|++++|. +..++.      .....+++|+.|+++++. +..++..... .+++|+.|+++++ .+..+|... ..
T Consensus       219 ~L~~L~Ls~N~-l~~~~~------~~~~~l~~L~~L~L~~n~-l~~~~~~~~~-~l~~L~~L~L~~N-~l~~~~~~~~~~  288 (452)
T 3zyi_A          219 GLEELEMSGNH-FPEIRP------GSFHGLSSLKKLWVMNSQ-VSLIERNAFD-GLASLVELNLAHN-NLSSLPHDLFTP  288 (452)
T ss_dssp             TCCEEECTTSC-CSEECG------GGGTTCTTCCEEECTTSC-CCEECTTTTT-TCTTCCEEECCSS-CCSCCCTTSSTT
T ss_pred             cccEEECcCCc-CcccCc------ccccCccCCCEEEeCCCc-CceECHHHhc-CCCCCCEEECCCC-cCCccChHHhcc
Confidence            99999999987 444431      124457899999999984 6666544332 4689999999998 567777654 67


Q ss_pred             CCccceEEeccCcc
Q 000945         1012 TPRLREVRQNWGLY 1025 (1212)
Q Consensus      1012 ~~~L~~l~~~~~~~ 1025 (1212)
                      +++|+.+++++|..
T Consensus       289 l~~L~~L~L~~Np~  302 (452)
T 3zyi_A          289 LRYLVELHLHHNPW  302 (452)
T ss_dssp             CTTCCEEECCSSCE
T ss_pred             ccCCCEEEccCCCc
Confidence            89999999998753

>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=99.54  E-value=1.9e-14  Score=160.35  Aligned_cols=82  Identities=13%  Similarity=0.235  Sum_probs=62.0

Q ss_pred             eeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhcC
Q 000945          268 EILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLL  347 (1212)
Q Consensus       268 r~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~l  347 (1212)
                      +.++.+++.+..+|..+.  .+|++|++++| .+..+|.+++.++.+|++|++++|.+.....         .+..+..+
T Consensus        10 ~~l~c~~~~l~~ip~~~~--~~l~~L~L~~n-~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~---------~~~~~~~~   77 (306)
T 2z66_A           10 TEIRCNSKGLTSVPTGIP--SSATRLELESN-KLQSLPHGVFDKLTQLTKLSLSSNGLSFKGC---------CSQSDFGT   77 (306)
T ss_dssp             TEEECCSSCCSSCCSCCC--TTCCEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCCEEEE---------EEHHHHSC
T ss_pred             CEEEcCCCCcccCCCCCC--CCCCEEECCCC-ccCccCHhHhhccccCCEEECCCCccCcccC---------cccccccc
Confidence            357788888988987654  58999999999 7999998878999999999999998752211         23455567


Q ss_pred             CCCCcceeeecccc
Q 000945          348 SHLTTLEIQICDAM  361 (1212)
Q Consensus       348 ~~L~~L~l~~~~~~  361 (1212)
                      .+|++|++++|.+.
T Consensus        78 ~~L~~L~Ls~n~i~   91 (306)
T 2z66_A           78 TSLKYLDLSFNGVI   91 (306)
T ss_dssp             SCCCEEECCSCSEE
T ss_pred             cccCEEECCCCccc
Confidence            77777777766543

>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=99.53  E-value=4.7e-14  Score=157.14  Aligned_cols=228  Identities=15%  Similarity=0.083  Sum_probs=174.6

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCcccc---chHHHhhcCccceeEEEccceeEeccccchhhcc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENF---RIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHA  850 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~---p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~  850 (1212)
                      +++|+.|++++|.+..++.  .....+++|++|++++|.+..+   +.. +..+++|+.|+++.|.+..++.      .+
T Consensus        27 ~~~l~~L~L~~n~l~~i~~--~~~~~l~~L~~L~L~~n~l~~~~~~~~~-~~~~~~L~~L~Ls~n~i~~l~~------~~   97 (306)
T 2z66_A           27 PSSATRLELESNKLQSLPH--GVFDKLTQLTKLSLSSNGLSFKGCCSQS-DFGTTSLKYLDLSFNGVITMSS------NF   97 (306)
T ss_dssp             CTTCCEEECCSSCCCCCCT--TTTTTCTTCSEEECCSSCCCEEEEEEHH-HHSCSCCCEEECCSCSEEEEEE------EE
T ss_pred             CCCCCEEECCCCccCccCH--hHhhccccCCEEECCCCccCcccCcccc-cccccccCEEECCCCccccChh------hc
Confidence            5689999999999987764  2345789999999999888766   444 6679999999999878877653      23


Q ss_pred             ccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCccc--ccchhhh
Q 000945          851 EMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMN--LVTSSTA  928 (1212)
Q Consensus       851 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~--l~~~~~~  928 (1212)
                      ..+++|++|+++++. +..++.  ...+..+++|++|++++|......|..+..+++|++|++++| .++.  +|  ..+
T Consensus        98 ~~l~~L~~L~l~~n~-l~~~~~--~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~--~~~  171 (306)
T 2z66_A           98 LGLEQLEHLDFQHSN-LKQMSE--FSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGN-SFQENFLP--DIF  171 (306)
T ss_dssp             ETCTTCCEEECTTSE-EESSTT--TTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTC-EEGGGEEC--SCC
T ss_pred             CCCCCCCEEECCCCc-cccccc--chhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCC-ccccccch--hHH
Confidence            458999999999864 443321  246778999999999998766666666788999999999997 4543  33  556


Q ss_pred             cccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcC
Q 000945          929 KSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHR 1008 (1212)
Q Consensus       929 ~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~ 1008 (1212)
                      ..+++|+.|++++|. +..++.      .....+++|+.|+++++. +..++..... .+++|++|++++|+-....|..
T Consensus       172 ~~l~~L~~L~Ls~n~-l~~~~~------~~~~~l~~L~~L~L~~N~-l~~~~~~~~~-~l~~L~~L~L~~N~l~~~~~~~  242 (306)
T 2z66_A          172 TELRNLTFLDLSQCQ-LEQLSP------TAFNSLSSLQVLNMSHNN-FFSLDTFPYK-CLNSLQVLDYSLNHIMTSKKQE  242 (306)
T ss_dssp             TTCTTCCEEECTTSC-CCEECT------TTTTTCTTCCEEECTTSC-CSBCCSGGGT-TCTTCCEEECTTSCCCBCSSSS
T ss_pred             hhCcCCCEEECCCCC-cCCcCH------HHhcCCCCCCEEECCCCc-cCccChhhcc-CcccCCEeECCCCCCcccCHHH
Confidence            788999999999997 444431      123457899999999984 6666543222 3689999999999776667777


Q ss_pred             CcCCC-ccceEEeccCcc
Q 000945         1009 VLSTP-RLREVRQNWGLY 1025 (1212)
Q Consensus      1009 ~~~~~-~L~~l~~~~~~~ 1025 (1212)
                      +..++ +|+.+++++|..
T Consensus       243 ~~~~~~~L~~L~L~~N~~  260 (306)
T 2z66_A          243 LQHFPSSLAFLNLTQNDF  260 (306)
T ss_dssp             CCCCCTTCCEEECTTCCE
T ss_pred             HHhhhccCCEEEccCCCe
Confidence            77775 999999998764

>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=99.52  E-value=8.3e-14  Score=148.67  Aligned_cols=186  Identities=19%  Similarity=0.168  Sum_probs=108.4

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      .++|+.|++++|.+..+....+.  .+++|++|++++|..++.+++.. ++.+++|++|++++|..++.++..       
T Consensus        30 ~~~l~~L~l~~n~l~~i~~~~~~--~l~~L~~L~l~~n~~l~~i~~~~-f~~l~~L~~L~l~~~n~l~~i~~~-------   99 (239)
T 2xwt_C           30 PPSTQTLKLIETHLRTIPSHAFS--NLPNISRIYVSIDVTLQQLESHS-FYNLSKVTHIEIRNTRNLTYIDPD-------   99 (239)
T ss_dssp             CTTCCEEEEESCCCSEECTTTTT--TCTTCCEEEEECCSSCCEECTTT-EESCTTCCEEEEEEETTCCEECTT-------
T ss_pred             CCcccEEEEeCCcceEECHHHcc--CCCCCcEEeCCCCCCcceeCHhH-cCCCcCCcEEECCCCCCeeEcCHH-------
Confidence            35788888888877777665543  57888888888876577776543 477888888888886667777432       


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCcc---EEEEecCCCcccccccccchhhccCCCCCCccccceeeeeee
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLK---KLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKV  773 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~---~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~  773 (1212)
                      ....+++|++|++.++. +..++.   ...+++|+   .|++++++.+..+|+..  +.                    .
T Consensus       100 ~f~~l~~L~~L~l~~n~-l~~lp~---~~~l~~L~~L~~L~l~~N~~l~~i~~~~--~~--------------------~  153 (239)
T 2xwt_C          100 ALKELPLLKFLGIFNTG-LKMFPD---LTKVYSTDIFFILEITDNPYMTSIPVNA--FQ--------------------G  153 (239)
T ss_dssp             SEECCTTCCEEEEEEEC-CCSCCC---CTTCCBCCSEEEEEEESCTTCCEECTTT--TT--------------------T
T ss_pred             HhCCCCCCCEEeCCCCC-Cccccc---cccccccccccEEECCCCcchhhcCccc--cc--------------------c
Confidence            22346677777776653 333332   12344454   66666665555553110  10                    1


Q ss_pred             cccce-eeeeccccccccccccCcccccccceEeEeecC-CccccchHHHhhc-CccceeEEEccceeEec
Q 000945          774 TSKLE-ELKLSGKDIAMICQSQFPKHIFRNLKNLEVVND-ESENFRIGFLERF-HNLEKLELRWSSYKEIF  841 (1212)
Q Consensus       774 l~~L~-~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~-~~~~~p~~~l~~l-~~L~~L~l~c~~l~~~~  841 (1212)
                      +++|+ .|++++|.+..++...+  . .++|+.|++++| .+..+|...+..+ ++|+.|+++.|.++.++
T Consensus       154 l~~L~~~L~l~~n~l~~i~~~~~--~-~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~~l~  221 (239)
T 2xwt_C          154 LCNETLTLKLYNNGFTSVQGYAF--N-GTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALP  221 (239)
T ss_dssp             TBSSEEEEECCSCCCCEECTTTT--T-TCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCCCCCCC
T ss_pred             hhcceeEEEcCCCCCcccCHhhc--C-CCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCccccCC
Confidence            45566 66666665554432111  1 145556666555 3555555555555 55555555555554443

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.51  E-value=7.2e-15  Score=177.41  Aligned_cols=115  Identities=19%  Similarity=0.065  Sum_probs=91.8

Q ss_pred             ccchHHHHHHHHHHhCC-CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCE-EEEEEecCCCCHHHHHHHHHHHhcCc
Q 000945          151 FESRKSILNDALDALSN-PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDE-VVFVEVSQTPDVKRIQGDIADQLGLY  228 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~~-~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~-~~wv~vs~~~~~~~l~~~il~~l~~~  228 (1212)
                      .+||+.++++|.++|.+ ++++||+||||||+||||||+.+|++.+++.+|+. ++|++|++.++...++..|++.++..
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            38999999999999874 56899999999999999999999999888899997 99999999999989888888754321


Q ss_pred             ---ccC--C-------ChhHHHHHHHHHHH--cCCcEE-EecCccccccccc
Q 000945          229 ---ICE--G-------SESERAMVLCGLLK--KGKKIL-VLDNIWTSLDLDK  265 (1212)
Q Consensus       229 ---~~~--~-------~~~~~~~~l~~~L~--~~kr~L-VLDDVw~~~~~~~  265 (1212)
                         ...  .       +.......+++.|+  .+||+| ||||||+.++|+.
T Consensus       210 ~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~  261 (1221)
T 1vt4_I          210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA  261 (1221)
T ss_dssp             CSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHH
T ss_pred             CcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHh
Confidence               111  0       12234566676662  259999 9999999887754

>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=99.48  E-value=6.4e-13  Score=150.61  Aligned_cols=243  Identities=18%  Similarity=0.128  Sum_probs=154.6

Q ss_pred             eeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccC
Q 000945          622 TLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVF  701 (1212)
Q Consensus       622 ~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~  701 (1212)
                      +++-++++++.++..     -.+++++|+|+++ +++.+++.. +.++++|++|+|++|..++.++.             
T Consensus        13 ~v~C~~~~Lt~iP~~-----l~~~l~~L~Ls~N-~i~~i~~~~-f~~l~~L~~L~Ls~N~i~~~i~~-------------   72 (350)
T 4ay9_X           13 VFLCQESKVTEIPSD-----LPRNAIELRFVLT-KLRVIQKGA-FSGFGDLEKIEISQNDVLEVIEA-------------   72 (350)
T ss_dssp             EEEEESTTCCSCCTT-----CCTTCSEEEEESC-CCSEECTTS-STTCTTCCEEEEECCTTCCEECT-------------
T ss_pred             EEEecCCCCCccCcC-----cCCCCCEEEccCC-cCCCcCHHH-HcCCCCCCEEECcCCCCCCccCh-------------
Confidence            344444455554432     1356777777763 566665532 36677777777777764444422             


Q ss_pred             CccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccceeee
Q 000945          702 PKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKLEELK  781 (1212)
Q Consensus       702 ~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L~~L~  781 (1212)
                                         +. ...+++|.++.+.++.++..+++..  |                    ..+++|++|+
T Consensus        73 -------------------~~-f~~L~~l~~~l~~~~N~l~~l~~~~--f--------------------~~l~~L~~L~  110 (350)
T 4ay9_X           73 -------------------DV-FSNLPKLHEIRIEKANNLLYINPEA--F--------------------QNLPNLQYLL  110 (350)
T ss_dssp             -------------------TS-BCSCTTCCEEEEEEETTCCEECTTS--B--------------------CCCTTCCEEE
T ss_pred             -------------------hH-hhcchhhhhhhcccCCcccccCchh--h--------------------hhcccccccc
Confidence                               11 1134445555555555555553110  0                    1156677777


Q ss_pred             eccccccccccccCcccccccceEeEeec-CCccccchHHHhhcC-ccceeEEEccceeEeccccchhhccccccccceE
Q 000945          782 LSGKDIAMICQSQFPKHIFRNLKNLEVVN-DESENFRIGFLERFH-NLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSL  859 (1212)
Q Consensus       782 l~~~~~~~l~~~~~~~~~~~~L~~L~l~~-~~~~~~p~~~l~~l~-~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L  859 (1212)
                      +++|.+..+.+  .......++..|++.+ +.+..+|...+..+. .|+.|+++.|.++.+++..      ...++|+.|
T Consensus       111 l~~n~l~~~~~--~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~~------f~~~~L~~l  182 (350)
T 4ay9_X          111 ISNTGIKHLPD--VHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSA------FNGTQLDEL  182 (350)
T ss_dssp             EEEECCSSCCC--CTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTS------STTEEEEEE
T ss_pred             ccccccccCCc--hhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCCChhh------ccccchhHH
Confidence            77666666543  2222345566777766 677777766666654 5788888888888776432      125678889


Q ss_pred             eeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEe
Q 000945          860 KLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRI  939 (1212)
Q Consensus       860 ~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i  939 (1212)
                      .+.++..+..++.   ..+..+++|+.|++++| .++++|+  ..+.+|+.|.+.+|++++.+|.   +..+++|+.+++
T Consensus       183 ~l~~~n~l~~i~~---~~f~~l~~L~~LdLs~N-~l~~lp~--~~~~~L~~L~~l~~~~l~~lP~---l~~l~~L~~l~l  253 (350)
T 4ay9_X          183 NLSDNNNLEELPN---DVFHGASGPVILDISRT-RIHSLPS--YGLENLKKLRARSTYNLKKLPT---LEKLVALMEASL  253 (350)
T ss_dssp             ECTTCTTCCCCCT---TTTTTEECCSEEECTTS-CCCCCCS--SSCTTCCEEECTTCTTCCCCCC---TTTCCSCCEEEC
T ss_pred             hhccCCcccCCCH---HHhccCcccchhhcCCC-CcCccCh--hhhccchHhhhccCCCcCcCCC---chhCcChhhCcC
Confidence            8888887887742   34678889999999986 6888887  4488899999999999999873   467888999988


Q ss_pred             cCcc
Q 000945          940 DGCR  943 (1212)
Q Consensus       940 ~~c~  943 (1212)
                      .+..
T Consensus       254 ~~~~  257 (350)
T 4ay9_X          254 TYPS  257 (350)
T ss_dssp             SCHH
T ss_pred             CCCc
Confidence            7643

>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=99.45  E-value=3.9e-13  Score=152.43  Aligned_cols=226  Identities=14%  Similarity=0.086  Sum_probs=154.7

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      ++++++|+|++|.++.++...|.  .+++|++|+|++|..++.+++. .+.++++|.++.+.++..+..++..       
T Consensus        29 ~~~l~~L~Ls~N~i~~i~~~~f~--~l~~L~~L~Ls~N~i~~~i~~~-~f~~L~~l~~~l~~~~N~l~~l~~~-------   98 (350)
T 4ay9_X           29 PRNAIELRFVLTKLRVIQKGAFS--GFGDLEKIEISQNDVLEVIEAD-VFSNLPKLHEIRIEKANNLLYINPE-------   98 (350)
T ss_dssp             CTTCSEEEEESCCCSEECTTSST--TCTTCCEEEEECCTTCCEECTT-SBCSCTTCCEEEEEEETTCCEECTT-------
T ss_pred             CCCCCEEEccCCcCCCcCHHHHc--CCCCCCEEECcCCCCCCccChh-HhhcchhhhhhhcccCCcccccCch-------
Confidence            47899999999999988877665  6999999999998766666553 3578999998877777778888543       


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                      ....+++|++|++.++. +..++.... .....+..+++.++.++..++...  +.                   .....
T Consensus        99 ~f~~l~~L~~L~l~~n~-l~~~~~~~~-~~~~~l~~l~l~~~~~i~~l~~~~--f~-------------------~~~~~  155 (350)
T 4ay9_X           99 AFQNLPNLQYLLISNTG-IKHLPDVHK-IHSLQKVLLDIQDNINIHTIERNS--FV-------------------GLSFE  155 (350)
T ss_dssp             SBCCCTTCCEEEEEEEC-CSSCCCCTT-CCBSSCEEEEEESCTTCCEECTTS--ST-------------------TSBSS
T ss_pred             hhhhccccccccccccc-cccCCchhh-cccchhhhhhhccccccccccccc--hh-------------------hcchh
Confidence            23457899999998763 344333221 234567788888888887774211  10                   01346


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeec-CCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVN-DESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQ  855 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~-~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~  855 (1212)
                      ++.|++++|.++.+.+..   ....+|+.|++++ |.++.+|...|..+++|+.|+++.|.++.+++..        +.+
T Consensus       156 l~~L~L~~N~i~~i~~~~---f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~~--------~~~  224 (350)
T 4ay9_X          156 SVILWLNKNGIQEIHNSA---FNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYG--------LEN  224 (350)
T ss_dssp             CEEEECCSSCCCEECTTS---STTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSSS--------CTT
T ss_pred             hhhhccccccccCCChhh---ccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChhh--------hcc
Confidence            788888888888776422   2345778888875 7788888777788888888888877777665422        556


Q ss_pred             cceEeeCCCccchhhhccCCCCccccCcccEEEEec
Q 000945          856 VKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWW  891 (1212)
Q Consensus       856 L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~  891 (1212)
                      |+.|.+.++.+++.++     .+..+++|+.+++.+
T Consensus       225 L~~L~~l~~~~l~~lP-----~l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          225 LKKLRARSTYNLKKLP-----TLEKLVALMEASLTY  255 (350)
T ss_dssp             CCEEECTTCTTCCCCC-----CTTTCCSCCEEECSC
T ss_pred             chHhhhccCCCcCcCC-----CchhCcChhhCcCCC
Confidence            6666666666665552     244555666666543

>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=99.45  E-value=2.7e-13  Score=149.19  Aligned_cols=222  Identities=15%  Similarity=0.073  Sum_probs=144.8

Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVK  857 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~  857 (1212)
                      ..++.+++.+..++.     ...++|++|+++++.+..++...+..+++|+.|+++.|.++.+.+     ..+..+++|+
T Consensus        14 ~~~~c~~~~l~~ip~-----~~~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~-----~~~~~l~~L~   83 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPV-----GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDA-----AAFTGLALLE   83 (285)
T ss_dssp             CEEECCSSCCSSCCT-----TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECT-----TTTTTCTTCC
T ss_pred             eEEEcCcCCcccCCc-----CCCCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCH-----hhcCCccCCC
Confidence            345555555555432     234577777777777777776667777788888887666666543     2234467788


Q ss_pred             eEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEE
Q 000945          858 SLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKL  937 (1212)
Q Consensus       858 ~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L  937 (1212)
                      +|+++++..+..+   .+..+..+++|++|++++|......|..+..+++|++|++++| .++.++. ..+..+++|+.|
T Consensus        84 ~L~l~~n~~l~~~---~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~-~~~~~l~~L~~L  158 (285)
T 1ozn_A           84 QLDLSDNAQLRSV---DPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN-ALQALPD-DTFRDLGNLTHL  158 (285)
T ss_dssp             EEECCSCTTCCCC---CTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT-TTTTTCTTCCEE
T ss_pred             EEeCCCCCCcccc---CHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCC-cccccCH-hHhccCCCccEE
Confidence            8888776545544   2445667778888888876544433455667788888888775 5666543 334667778888


Q ss_pred             EecCcchhhHhhccCccccccceeccchhhhhhccCCCcccc-cCCCceeecCCccEEEeccCCCccccCc-CCcCCCcc
Q 000945          938 RIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSF-CSGNYTLKFPSLEDLFVIECPKMKIFSH-RVLSTPRL 1015 (1212)
Q Consensus       938 ~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l-~~~~~~~~~~sL~~L~i~~C~~l~~lp~-~~~~~~~L 1015 (1212)
                      ++++|. +..++..      ....+++|+.|+++++. +..+ |....  .+++|+.|++++|. +..+|. .+..+++|
T Consensus       159 ~l~~n~-l~~~~~~------~~~~l~~L~~L~l~~n~-l~~~~~~~~~--~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L  227 (285)
T 1ozn_A          159 FLHGNR-ISSVPER------AFRGLHSLDRLLLHQNR-VAHVHPHAFR--DLGRLMTLYLFANN-LSALPTEALAPLRAL  227 (285)
T ss_dssp             ECCSSC-CCEECTT------TTTTCTTCCEEECCSSC-CCEECTTTTT--TCTTCCEEECCSSC-CSCCCHHHHTTCTTC
T ss_pred             ECCCCc-ccccCHH------HhcCccccCEEECCCCc-ccccCHhHcc--CcccccEeeCCCCc-CCcCCHHHcccCccc
Confidence            888775 4444421      12346778888888774 5555 33333  35899999999884 555654 46778999


Q ss_pred             ceEEeccCcc
Q 000945         1016 REVRQNWGLY 1025 (1212)
Q Consensus      1016 ~~l~~~~~~~ 1025 (1212)
                      +.+++++|..
T Consensus       228 ~~L~l~~N~~  237 (285)
T 1ozn_A          228 QYLRLNDNPW  237 (285)
T ss_dssp             CEEECCSSCE
T ss_pred             CEEeccCCCc
Confidence            9999988754

>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=99.44  E-value=1.8e-13  Score=149.67  Aligned_cols=157  Identities=16%  Similarity=0.131  Sum_probs=105.1

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      .++|+.|++++|.+..+.+  .....+++|++|++++|.+..++...+..+++|+.|+++.|.++.+++     ..+..+
T Consensus        27 ~~~l~~L~ls~n~l~~~~~--~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-----~~~~~l   99 (276)
T 2z62_A           27 PFSTKNLDLSFNPLRHLGS--YSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLAL-----GAFSGL   99 (276)
T ss_dssp             CTTCCEEECTTCCCCEECT--TTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECT-----TTTTTC
T ss_pred             CCCccEEECCCCcccccCH--hHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccCh-----hhhcCC
Confidence            4578889998888887764  234567888888888888888887778888888888888777776653     223446


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcc-cccCCccccCCccEEeeccccCcccccchhhhcccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLI-NLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~-~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      ++|++|+++++. +..+   .+..+..+++|++|++++|.... .+|..+..+++|+.|++++| .++.++.. .+..++
T Consensus       100 ~~L~~L~l~~n~-l~~~---~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N-~l~~~~~~-~~~~l~  173 (276)
T 2z62_A          100 SSLQKLVAVETN-LASL---ENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSIYCT-DLRVLH  173 (276)
T ss_dssp             TTCCEEECTTSC-CCCS---TTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSS-CCCEECGG-GGHHHH
T ss_pred             ccccEEECCCCC-cccc---CchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCC-CCCcCCHH-Hhhhhh
Confidence            788888887754 3333   12346677788888888765433 35666677777888887775 45555432 223344


Q ss_pred             ccc----EEEecCcc
Q 000945          933 CLT----KLRIDGCR  943 (1212)
Q Consensus       933 ~L~----~L~i~~c~  943 (1212)
                      +|+    .|+++++.
T Consensus       174 ~L~~l~l~L~ls~n~  188 (276)
T 2z62_A          174 QMPLLNLSLDLSLNP  188 (276)
T ss_dssp             TCTTCCEEEECCSSC
T ss_pred             hccccceeeecCCCc
Confidence            444    55555554

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.42  E-value=2e-13  Score=148.75  Aligned_cols=125  Identities=18%  Similarity=0.254  Sum_probs=59.5

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      ++|++|++++|.+..+.+  .....+++|++|++++|.+..+|...+..+++|+.|+++.|.++.+++     ..+..++
T Consensus       109 ~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-----~~~~~l~  181 (272)
T 3rfs_A          109 TNLKELVLVENQLQSLPD--GVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPE-----GVFDKLT  181 (272)
T ss_dssp             TTCCEEECTTSCCCCCCT--TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT-----TTTTTCT
T ss_pred             cCCCEEECCCCcCCccCH--HHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCccCH-----HHhcCCc
Confidence            444444444444443332  112334555555555555555555445555555555555444544332     1122345


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeecccc
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQ  917 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~  917 (1212)
                      +|+.|++++|. +..+   .+..+..+++|+.|++++|+..       +.+++|+.|+++.+.
T Consensus       182 ~L~~L~L~~N~-l~~~---~~~~~~~l~~L~~L~l~~N~~~-------~~~~~l~~l~~~~n~  233 (272)
T 3rfs_A          182 QLKDLRLYQNQ-LKSV---PDGVFDRLTSLQYIWLHDNPWD-------CTCPGIRYLSEWINK  233 (272)
T ss_dssp             TCCEEECCSSC-CSCC---CTTTTTTCTTCCEEECCSSCBC-------CCTTTTHHHHHHHHH
T ss_pred             cCCEEECCCCc-CCcc---CHHHHhCCcCCCEEEccCCCcc-------ccCcHHHHHHHHHHh
Confidence            55555555543 2222   1233455666666666665433       234455666655543

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.42  E-value=1.3e-13  Score=153.61  Aligned_cols=157  Identities=17%  Similarity=0.054  Sum_probs=83.5

Q ss_pred             cccceeecccccccceeecccCCccccCCccEEEEecCCCCCcc--CchhhhccCCCccEEEEccCcCcchhhcccccCC
Q 000945          467 LLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNI--FSFSFVRGLPQLQTLNVINCKNMKEIFTVGREND  544 (1212)
Q Consensus       467 ~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l--~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~  544 (1212)
                      ++|++|+++++. +..  ..+..++.+++|++|+++++.-...+  +....+..+++|++|++++|. +..++.+.    
T Consensus       149 ~~L~~L~L~~N~-l~~--~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~----  220 (312)
T 1wwl_A          149 PGLKVLSIAQAH-SLN--FSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAG-METPSGVC----  220 (312)
T ss_dssp             TTCCEEEEESCS-CCC--CCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSC-CCCHHHHH----
T ss_pred             CCCcEEEeeCCC-Ccc--chHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCc-CcchHHHH----
Confidence            555555555542 221  12244566777777777775322221  111112667777888777765 44332200    


Q ss_pred             ccCCccCceecccccEEecccCCcccccccccccchhhHhhhcccccccCCcceecccccccccccccccccccccceee
Q 000945          545 VDCHEVDKIEFSQLHSLTLKFLPQLTSFYSQVKTSAASQTRLKELSTHTLPREVILEDECDTLMPFFNEKVVFPNLETLE  624 (1212)
Q Consensus       545 ~~~~~~~l~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~L~~L~  624 (1212)
                          ...+..+++|+.|+++++. +.....                                    ......+++|+.|+
T Consensus       221 ----~~~~~~l~~L~~L~Ls~N~-l~~~~~------------------------------------~~~~~~l~~L~~L~  259 (312)
T 1wwl_A          221 ----SALAAARVQLQGLDLSHNS-LRDAAG------------------------------------APSCDWPSQLNSLN  259 (312)
T ss_dssp             ----HHHHHTTCCCSEEECTTSC-CCSSCC------------------------------------CSCCCCCTTCCEEE
T ss_pred             ----HHHHhcCCCCCEEECCCCc-CCcccc------------------------------------hhhhhhcCCCCEEE
Confidence                0012245666666666542 111100                                    00112246777777


Q ss_pred             ccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEecccc
Q 000945          625 LCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCS  681 (1212)
Q Consensus       625 l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~  681 (1212)
                      +++|.++.++...     +++|+.|+++++ .++.+|.   +..+++|++|++++++
T Consensus       260 Ls~N~l~~ip~~~-----~~~L~~L~Ls~N-~l~~~p~---~~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          260 LSFTGLKQVPKGL-----PAKLSVLDLSYN-RLDRNPS---PDELPQVGNLSLKGNP  307 (312)
T ss_dssp             CTTSCCSSCCSSC-----CSEEEEEECCSS-CCCSCCC---TTTSCEEEEEECTTCT
T ss_pred             CCCCccChhhhhc-----cCCceEEECCCC-CCCCChh---HhhCCCCCEEeccCCC
Confidence            7777666443322     267788888775 5666544   5677778888877765

>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=99.41  E-value=2e-12  Score=141.79  Aligned_cols=197  Identities=16%  Similarity=0.164  Sum_probs=135.9

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++++.++++++.++.++.     ...++++.|++++|.+..+++..+..+++|+.|+++.|.++.+++..       .+
T Consensus         9 l~~l~~l~~~~~~l~~ip~-----~~~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-------~l   76 (290)
T 1p9a_G            9 VASHLEVNCDKRNLTALPP-----DLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDG-------TL   76 (290)
T ss_dssp             STTCCEEECTTSCCSSCCS-----CCCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECCS-------CC
T ss_pred             cCCccEEECCCCCCCcCCC-----CCCCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcccCCC-------CC
Confidence            6788999999888887753     22468999999999999988888899999999999977887765432       36


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCccccc-CCccccCCccEEeeccccCcccccchhhhcccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLV-PSSASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp-~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      ++|+.|+++++. +..+    |..+..+++|++|++++|. ++.+| ..+..+++|+.|++++| .++.+|. ..+..++
T Consensus        77 ~~L~~L~Ls~N~-l~~l----~~~~~~l~~L~~L~l~~N~-l~~l~~~~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~  148 (290)
T 1p9a_G           77 PVLGTLDLSHNQ-LQSL----PLLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKGN-ELKTLPP-GLLTPTP  148 (290)
T ss_dssp             TTCCEEECCSSC-CSSC----CCCTTTCTTCCEEECCSSC-CCCCCSSTTTTCTTCCEEECTTS-CCCCCCT-TTTTTCT
T ss_pred             CcCCEEECCCCc-CCcC----chhhccCCCCCEEECCCCc-CcccCHHHHcCCCCCCEEECCCC-CCCccCh-hhccccc
Confidence            788888888753 4444    4456677778888887753 44554 34566777777777774 5666643 3345566


Q ss_pred             cccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCCcCC
Q 000945          933 CLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLST 1012 (1212)
Q Consensus       933 ~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~~~~ 1012 (1212)
                      +|+.|++++|.                                ++++|.+... .+++|++|+++++ .++.+|.+....
T Consensus       149 ~L~~L~L~~N~--------------------------------l~~l~~~~~~-~l~~L~~L~L~~N-~l~~ip~~~~~~  194 (290)
T 1p9a_G          149 KLEKLSLANNN--------------------------------LTELPAGLLN-GLENLDTLLLQEN-SLYTIPKGFFGS  194 (290)
T ss_dssp             TCCEEECTTSC--------------------------------CSCCCTTTTT-TCTTCCEEECCSS-CCCCCCTTTTTT
T ss_pred             CCCEEECCCCc--------------------------------CCccCHHHhc-CcCCCCEEECCCC-cCCccChhhccc
Confidence            66666666654                                3333333221 2467777777765 456777777777


Q ss_pred             CccceEEeccCc
Q 000945         1013 PRLREVRQNWGL 1024 (1212)
Q Consensus      1013 ~~L~~l~~~~~~ 1024 (1212)
                      ++|+.+++.+|.
T Consensus       195 ~~L~~l~L~~Np  206 (290)
T 1p9a_G          195 HLLPFAFLHGNP  206 (290)
T ss_dssp             CCCSEEECCSCC
T ss_pred             ccCCeEEeCCCC
Confidence            777777777665

>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=99.38  E-value=1.4e-12  Score=142.54  Aligned_cols=206  Identities=14%  Similarity=0.079  Sum_probs=157.0

Q ss_pred             cccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCcc
Q 000945          800 FRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDS  879 (1212)
Q Consensus       800 ~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~  879 (1212)
                      .++|++|++++|.+..++...+.++++|+.|+++.|.++.+++     ..+..+++|++|+++++. +..+   .+..+.
T Consensus        27 ~~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-----~~~~~l~~L~~L~L~~n~-l~~~---~~~~~~   97 (276)
T 2z62_A           27 PFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIED-----GAYQSLSHLSTLILTGNP-IQSL---ALGAFS   97 (276)
T ss_dssp             CTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECT-----TTTTTCTTCCEEECTTCC-CCEE---CTTTTT
T ss_pred             CCCccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCH-----HHccCCcCCCEEECCCCc-cCcc---Chhhhc
Confidence            3579999999999999998779999999999999778887764     234558999999999875 3333   245678


Q ss_pred             ccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccccc
Q 000945          880 ITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDE  959 (1212)
Q Consensus       880 ~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~  959 (1212)
                      .+++|++|++++|......+..+..+++|++|++++| .++.+.....+..+++|+.|++++|. +..++..      ..
T Consensus        98 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~l~~~~~~l~~L~~L~Ls~N~-l~~~~~~------~~  169 (276)
T 2z62_A           98 GLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHN-LIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCT------DL  169 (276)
T ss_dssp             TCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSS-CCCCCCCCGGGGGCTTCCEEECCSSC-CCEECGG------GG
T ss_pred             CCccccEEECCCCCccccCchhcccCCCCCEEECcCC-ccceecCchhhccCCCCCEEECCCCC-CCcCCHH------Hh
Confidence            8999999999997544433335788999999999996 67664323567889999999999987 4444321      12


Q ss_pred             eeccchh----hhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCC-cCCCccceEEeccCccc
Q 000945          960 IVFSKLK----WVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRV-LSTPRLREVRQNWGLYK 1026 (1212)
Q Consensus       960 ~~l~~L~----~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~-~~~~~L~~l~~~~~~~~ 1026 (1212)
                      ..+++|+    .|+++++ .+..++.....  ..+|++|++++|. +..+|... ..+++|+.+++++|...
T Consensus       170 ~~l~~L~~l~l~L~ls~n-~l~~~~~~~~~--~~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~N~~~  237 (276)
T 2z62_A          170 RVLHQMPLLNLSLDLSLN-PMNFIQPGAFK--EIRLKELALDTNQ-LKSVPDGIFDRLTSLQKIWLHTNPWD  237 (276)
T ss_dssp             HHHHTCTTCCEEEECCSS-CCCEECTTSSC--SCCEEEEECCSSC-CSCCCTTTTTTCCSCCEEECCSSCBC
T ss_pred             hhhhhccccceeeecCCC-cccccCccccC--CCcccEEECCCCc-eeecCHhHhcccccccEEEccCCccc
Confidence            2345555    6778777 47778766553  3689999999986 77888764 67999999999987653

>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=99.37  E-value=1e-12  Score=145.77  Aligned_cols=189  Identities=19%  Similarity=0.225  Sum_probs=121.7

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|+++++.+..+.    ....+++|++|++++|.+..++.  +..+++|+.|+++.|.++.++.       +..+
T Consensus        40 l~~L~~L~l~~~~i~~l~----~~~~l~~L~~L~L~~n~i~~~~~--~~~l~~L~~L~L~~n~l~~~~~-------~~~l  106 (308)
T 1h6u_A           40 LDGITTLSAFGTGVTTIE----GVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGNPLKNVSA-------IAGL  106 (308)
T ss_dssp             HHTCCEEECTTSCCCCCT----TGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSCCCSCCGG-------GTTC
T ss_pred             cCCcCEEEeeCCCccCch----hhhccCCCCEEEccCCcCCCChh--HccCCCCCEEEccCCcCCCchh-------hcCC
Confidence            677888888888777653    24567888888888888887776  7778888888888666765432       3346


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++++|. +..+     ..+..+++|++|++++|. ++.+++ +..+++|+.|++++| .++.++.   +..+++
T Consensus       107 ~~L~~L~l~~n~-l~~~-----~~l~~l~~L~~L~l~~n~-l~~~~~-l~~l~~L~~L~l~~n-~l~~~~~---l~~l~~  174 (308)
T 1h6u_A          107 QSIKTLDLTSTQ-ITDV-----TPLAGLSNLQVLYLDLNQ-ITNISP-LAGLTNLQYLSIGNA-QVSDLTP---LANLSK  174 (308)
T ss_dssp             TTCCEEECTTSC-CCCC-----GGGTTCTTCCEEECCSSC-CCCCGG-GGGCTTCCEEECCSS-CCCCCGG---GTTCTT
T ss_pred             CCCCEEECCCCC-CCCc-----hhhcCCCCCCEEECCCCc-cCcCcc-ccCCCCccEEEccCC-cCCCChh---hcCCCC
Confidence            788888888764 3333     236677788888888763 445544 567778888888875 5666642   567777


Q ss_pred             ccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCC
Q 000945          934 LTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECP 1000 (1212)
Q Consensus       934 L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~ 1000 (1212)
                      |+.|++++|. +..++.        ...+++|+.|++++|. +..++. ..  .+++|+.|++++|+
T Consensus       175 L~~L~l~~n~-l~~~~~--------l~~l~~L~~L~L~~N~-l~~~~~-l~--~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          175 LTTLKADDNK-ISDISP--------LASLPNLIEVHLKNNQ-ISDVSP-LA--NTSNLFIVTLTNQT  228 (308)
T ss_dssp             CCEEECCSSC-CCCCGG--------GGGCTTCCEEECTTSC-CCBCGG-GT--TCTTCCEEEEEEEE
T ss_pred             CCEEECCCCc-cCcChh--------hcCCCCCCEEEccCCc-cCcccc-cc--CCCCCCEEEccCCe
Confidence            8888887775 333331        2234555555555552 344432 11  23555555555543

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.36  E-value=1.7e-12  Score=141.32  Aligned_cols=155  Identities=17%  Similarity=0.220  Sum_probs=83.8

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+..+.+  ..+..+++|++|++++|.+..+|...+..+++|+.|+++.|.++.+++     ..+..+
T Consensus        36 ~~~l~~L~l~~n~l~~~~~--~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~-----~~~~~l  108 (270)
T 2o6q_A           36 PADTKKLDLQSNKLSSLPS--KAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPI-----GVFDQL  108 (270)
T ss_dssp             CTTCSEEECCSSCCSCCCT--TSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCT-----TTTTTC
T ss_pred             CCCCCEEECcCCCCCeeCH--HHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcCCH-----hHcccc
Confidence            3466777777776666543  233456677777777776767766666667777777776555555432     122335


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhcccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      ++|+.|+++++. +..+   .+..+..+++|++|++++| .++.+|+. +..+++|+.|++++| .++.++. ..+..++
T Consensus       109 ~~L~~L~l~~n~-l~~~---~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~-~~~~~l~  181 (270)
T 2o6q_A          109 VNLAELRLDRNQ-LKSL---PPRVFDSLTKLTYLSLGYN-ELQSLPKGVFDKLTSLKELRLYNN-QLKRVPE-GAFDKLT  181 (270)
T ss_dssp             SSCCEEECCSSC-CCCC---CTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCSCCCT-TTTTTCT
T ss_pred             cCCCEEECCCCc-cCee---CHHHhCcCcCCCEEECCCC-cCCccCHhHccCCcccceeEecCC-cCcEeCh-hHhccCC
Confidence            566666666543 2222   1233455566666666654 23344433 345556666666553 4444432 1233445


Q ss_pred             cccEEEecCc
Q 000945          933 CLTKLRIDGC  942 (1212)
Q Consensus       933 ~L~~L~i~~c  942 (1212)
                      +|+.|++++|
T Consensus       182 ~L~~L~L~~N  191 (270)
T 2o6q_A          182 ELKTLKLDNN  191 (270)
T ss_dssp             TCCEEECCSS
T ss_pred             CcCEEECCCC
Confidence            5555555544

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.36  E-value=7.3e-13  Score=147.51  Aligned_cols=203  Identities=17%  Similarity=0.108  Sum_probs=108.8

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhc-----CccceeEEEccceeEeccccchhh
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERF-----HNLEKLELRWSSYKEIFSNEEIVE  848 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l-----~~L~~L~l~c~~l~~~~~~~~~~~  848 (1212)
                      +++|++|++++|.+.+..+.......+++|++|++++|.+..+|.. +..+     ++|+.|+++.|.+..+++     .
T Consensus        94 l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~-~~~l~~~~~~~L~~L~L~~N~l~~~~~-----~  167 (312)
T 1wwl_A           94 ISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAW-LAELQQWLKPGLKVLSIAQAHSLNFSC-----E  167 (312)
T ss_dssp             TSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSH-HHHHHTTCCTTCCEEEEESCSCCCCCT-----T
T ss_pred             cCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchhHH-HHHHHHhhcCCCcEEEeeCCCCccchH-----H
Confidence            5678888888777775544322235677777777777777776533 5555     666666666555554432     1


Q ss_pred             ccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCccc--ccCCc--cccCCccEEeeccccCcccccc
Q 000945          849 HAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLIN--LVPSS--ASFKNLTTLELWYCQRLMNLVT  924 (1212)
Q Consensus       849 ~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~--lp~~~--~~l~~L~~L~l~~c~~l~~l~~  924 (1212)
                      .+..+++|+.|++++                            |...+.  +|+.+  ..+++|++|++++| .++.++.
T Consensus       168 ~~~~l~~L~~L~Ls~----------------------------N~l~~~~~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~  218 (312)
T 1wwl_A          168 QVRVFPALSTLDLSD----------------------------NPELGERGLISALCPLKFPTLQVLALRNA-GMETPSG  218 (312)
T ss_dssp             TCCCCSSCCEEECCS----------------------------CTTCHHHHHHHHSCTTSCTTCCEEECTTS-CCCCHHH
T ss_pred             HhccCCCCCEEECCC----------------------------CCcCcchHHHHHHHhccCCCCCEEECCCC-cCcchHH
Confidence            222344555555554                            433322  12122  44455555555553 3443221


Q ss_pred             --hhhhcccccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCc
Q 000945          925 --SSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKM 1002 (1212)
Q Consensus       925 --~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l 1002 (1212)
                        ......+++|+.|++++|. +...+..     .....+++|+.|+++++. ++.+|....    ++|++|+++++ .+
T Consensus       219 ~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~-----~~~~~l~~L~~L~Ls~N~-l~~ip~~~~----~~L~~L~Ls~N-~l  286 (312)
T 1wwl_A          219 VCSALAAARVQLQGLDLSHNS-LRDAAGA-----PSCDWPSQLNSLNLSFTG-LKQVPKGLP----AKLSVLDLSYN-RL  286 (312)
T ss_dssp             HHHHHHHTTCCCSEEECTTSC-CCSSCCC-----SCCCCCTTCCEEECTTSC-CSSCCSSCC----SEEEEEECCSS-CC
T ss_pred             HHHHHHhcCCCCCEEECCCCc-CCcccch-----hhhhhcCCCCEEECCCCc-cChhhhhcc----CCceEEECCCC-CC
Confidence              1222344555666665554 2221100     011224566666666653 555655432    57777777776 45


Q ss_pred             cccCcCCcCCCccceEEeccCc
Q 000945         1003 KIFSHRVLSTPRLREVRQNWGL 1024 (1212)
Q Consensus      1003 ~~lp~~~~~~~~L~~l~~~~~~ 1024 (1212)
                      +.+|. +..+++|+.+++++|.
T Consensus       287 ~~~p~-~~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          287 DRNPS-PDELPQVGNLSLKGNP  307 (312)
T ss_dssp             CSCCC-TTTSCEEEEEECTTCT
T ss_pred             CCChh-HhhCCCCCEEeccCCC
Confidence            66666 6667788888877654

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.36  E-value=1.7e-12  Score=141.26  Aligned_cols=199  Identities=20%  Similarity=0.199  Sum_probs=126.7

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      .+.+.++++++.++.++.     ...++|++|++++|.+..++...+..+++|+.|+++.|.++.+++     ..+..++
T Consensus        16 ~~~~~l~~~~~~l~~ip~-----~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~-----~~~~~l~   85 (270)
T 2o6q_A           16 NNKNSVDCSSKKLTAIPS-----NIPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPA-----GIFKELK   85 (270)
T ss_dssp             TTTTEEECTTSCCSSCCS-----CCCTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCT-----TTTSSCT
T ss_pred             CCCCEEEccCCCCCccCC-----CCCCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeCh-----hhhcCCC
Confidence            356778888888877652     123578999999988888888778888899999988777766553     2234477


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccC-CccccCCccEEeeccccCcccccchhhhccccc
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVP-SSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~-~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      +|++|+++++. +..++   +..+..+++|++|++++|. ++.+++ .+..+++|++|++++| .++.++. ..+..+++
T Consensus        86 ~L~~L~l~~n~-l~~~~---~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~-~~~~~l~~  158 (270)
T 2o6q_A           86 NLETLWVTDNK-LQALP---IGVFDQLVNLAELRLDRNQ-LKSLPPRVFDSLTKLTYLSLGYN-ELQSLPK-GVFDKLTS  158 (270)
T ss_dssp             TCCEEECCSSC-CCCCC---TTTTTTCSSCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCT-TTTTTCTT
T ss_pred             CCCEEECCCCc-CCcCC---HhHcccccCCCEEECCCCc-cCeeCHHHhCcCcCCCEEECCCC-cCCccCH-hHccCCcc
Confidence            88888888754 33332   3445677788888888754 344443 3567778888888775 5666653 23456677


Q ss_pred             ccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcC-CcCC
Q 000945          934 LTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHR-VLST 1012 (1212)
Q Consensus       934 L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~-~~~~ 1012 (1212)
                      |+.|++++|. +..++                               ..... .+++|++|++++| .+..+|.. +..+
T Consensus       159 L~~L~L~~n~-l~~~~-------------------------------~~~~~-~l~~L~~L~L~~N-~l~~~~~~~~~~l  204 (270)
T 2o6q_A          159 LKELRLYNNQ-LKRVP-------------------------------EGAFD-KLTELKTLKLDNN-QLKRVPEGAFDSL  204 (270)
T ss_dssp             CCEEECCSSC-CSCCC-------------------------------TTTTT-TCTTCCEEECCSS-CCSCCCTTTTTTC
T ss_pred             cceeEecCCc-CcEeC-------------------------------hhHhc-cCCCcCEEECCCC-cCCcCCHHHhccc
Confidence            7777777664 33322                               21111 2356666666665 34455543 3456


Q ss_pred             CccceEEeccCc
Q 000945         1013 PRLREVRQNWGL 1024 (1212)
Q Consensus      1013 ~~L~~l~~~~~~ 1024 (1212)
                      ++|+.+++++|.
T Consensus       205 ~~L~~L~l~~N~  216 (270)
T 2o6q_A          205 EKLKMLQLQENP  216 (270)
T ss_dssp             TTCCEEECCSSC
T ss_pred             cCCCEEEecCCC
Confidence            666666666554

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.36  E-value=2.3e-12  Score=140.29  Aligned_cols=154  Identities=18%  Similarity=0.231  Sum_probs=97.2

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|++|++++|.+..+.    ....+++|++|++++|.+..++...+..+++|+.|+++.|.++.+++     ..+..+
T Consensus        62 l~~L~~L~l~~n~l~~~~----~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-----~~~~~l  132 (272)
T 3rfs_A           62 LPNVRYLALGGNKLHDIS----ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPD-----GVFDKL  132 (272)
T ss_dssp             CTTCCEEECTTSCCCCCG----GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCT-----TTTTTC
T ss_pred             CCCCcEEECCCCCCCCch----hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCccCH-----HHhccC
Confidence            566666777666665542    33456677777777777777776666777777777777666665543     123346


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhcccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      ++|+.|++++|. +..+   .+..+..+++|+.|++++|. ++.+|+. +..+++|+.|++++| .++.+++ ..+..++
T Consensus       133 ~~L~~L~L~~n~-l~~~---~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~  205 (272)
T 3rfs_A          133 TNLTYLNLAHNQ-LQSL---PKGVFDKLTNLTELDLSYNQ-LQSLPEGVFDKLTQLKDLRLYQN-QLKSVPD-GVFDRLT  205 (272)
T ss_dssp             TTCCEEECCSSC-CCCC---CTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCSCCCT-TTTTTCT
T ss_pred             CCCCEEECCCCc-cCcc---CHHHhccCccCCEEECCCCC-cCccCHHHhcCCccCCEEECCCC-cCCccCH-HHHhCCc
Confidence            677777777652 3333   13335667777777777764 4455443 466778888888775 5666543 3446677


Q ss_pred             cccEEEecCcc
Q 000945          933 CLTKLRIDGCR  943 (1212)
Q Consensus       933 ~L~~L~i~~c~  943 (1212)
                      +|+.|++++|+
T Consensus       206 ~L~~L~l~~N~  216 (272)
T 3rfs_A          206 SLQYIWLHDNP  216 (272)
T ss_dssp             TCCEEECCSSC
T ss_pred             CCCEEEccCCC
Confidence            77888877775

>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=99.34  E-value=5e-12  Score=138.59  Aligned_cols=130  Identities=18%  Similarity=0.112  Sum_probs=67.0

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+..++   .....+++|++|++++|.+..+|+..|..+++|+.|+++.|.++.+++     ..+..+
T Consensus        76 l~~L~~L~Ls~N~l~~l~---~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~-----~~~~~l  147 (290)
T 1p9a_G           76 LPVLGTLDLSHNQLQSLP---LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPP-----GLLTPT  147 (290)
T ss_dssp             CTTCCEEECCSSCCSSCC---CCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCT-----TTTTTC
T ss_pred             CCcCCEEECCCCcCCcCc---hhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccCh-----hhcccc
Confidence            445555555555555443   122345566666666666666655555666666666666555554432     112234


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYC  916 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c  916 (1212)
                      ++|+.|+++++. +..++   +..+..+++|+.|++++| .++.+|..+..+++|+.|+++++
T Consensus       148 ~~L~~L~L~~N~-l~~l~---~~~~~~l~~L~~L~L~~N-~l~~ip~~~~~~~~L~~l~L~~N  205 (290)
T 1p9a_G          148 PKLEKLSLANNN-LTELP---AGLLNGLENLDTLLLQEN-SLYTIPKGFFGSHLLPFAFLHGN  205 (290)
T ss_dssp             TTCCEEECTTSC-CSCCC---TTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCCCSEEECCSC
T ss_pred             cCCCEEECCCCc-CCccC---HHHhcCcCCCCEEECCCC-cCCccChhhcccccCCeEEeCCC
Confidence            555555555532 33331   122344556666666554 34455555555556666666554

>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=99.34  E-value=4.7e-13  Score=180.37  Aligned_cols=121  Identities=18%  Similarity=0.214  Sum_probs=92.9

Q ss_pred             CCCcccccchHHHHHHHHHHhC--CCCceEEEEEecCCCchhHHHHHHHHHhhh-cCCC-CEEEEEEecCCCC--HHHHH
Q 000945          145 SEGYEAFESRKSILNDALDALS--NPNVNVIGLCGLGGIGKTTLAKIVFYQAKK-LKLC-DEVVFVEVSQTPD--VKRIQ  218 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~--~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v-~~~F-~~~~wv~vs~~~~--~~~l~  218 (1212)
                      +.....++||++++++|.++|.  ++.+++|+|+||||+||||||+++|++.++ ..+| +.++||++++.++  .....
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            4455678999999999999995  467899999999999999999999998654 3444 6777999998654  44556


Q ss_pred             HHHHHHhcCccc-----CCChhHHHHHHHHHHHc-CCcEE-EecCccccccccc
Q 000945          219 GDIADQLGLYIC-----EGSESERAMVLCGLLKK-GKKIL-VLDNIWTSLDLDK  265 (1212)
Q Consensus       219 ~~il~~l~~~~~-----~~~~~~~~~~l~~~L~~-~kr~L-VLDDVw~~~~~~~  265 (1212)
                      ..++..+.....     ..+..+....++..|.. +|||| ||||||+..+|+.
T Consensus       200 ~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~  253 (1249)
T 3sfz_A          200 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKA  253 (1249)
T ss_dssp             HHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTT
T ss_pred             HHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHh
Confidence            677777765421     13445667777777764 13999 9999999988776

>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=99.33  E-value=4.2e-13  Score=151.84  Aligned_cols=78  Identities=15%  Similarity=0.171  Sum_probs=55.6

Q ss_pred             ceeeeccCCccccccHHHHhh--cccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCcc-chhh
Q 000945          267 LEILSLVDSNIEQLPEEMAQL--TQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNA-SLQE  343 (1212)
Q Consensus       267 Lr~L~ls~~~i~~lp~~i~~L--~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~-~~~~  343 (1212)
                      ++.++++++.+.  |..+..+  .++++|++++| .+...+.. +.++.+|++|++++|.+.           .. ....
T Consensus        49 ~~~l~l~~~~~~--~~~~~~~~~~~l~~L~l~~n-~l~~~~~~-~~~~~~L~~L~L~~~~l~-----------~~~~~~~  113 (336)
T 2ast_B           49 WQTLDLTGKNLH--PDVTGRLLSQGVIAFRCPRS-FMDQPLAE-HFSPFRVQHMDLSNSVIE-----------VSTLHGI  113 (336)
T ss_dssp             SSEEECTTCBCC--HHHHHHHHHTTCSEEECTTC-EECSCCCS-CCCCBCCCEEECTTCEEC-----------HHHHHHH
T ss_pred             heeeccccccCC--HHHHHhhhhccceEEEcCCc-cccccchh-hccCCCCCEEEccCCCcC-----------HHHHHHH
Confidence            567888888766  6677777  88899999888 67666665 567888888888888763           22 3344


Q ss_pred             hhcCCCCCcceeeecc
Q 000945          344 LKLLSHLTTLEIQICD  359 (1212)
Q Consensus       344 L~~l~~L~~L~l~~~~  359 (1212)
                      +..+++|++|+++.|.
T Consensus       114 ~~~~~~L~~L~L~~~~  129 (336)
T 2ast_B          114 LSQCSKLQNLSLEGLR  129 (336)
T ss_dssp             HTTBCCCSEEECTTCB
T ss_pred             HhhCCCCCEEeCcCcc
Confidence            5666677766666553

>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=99.33  E-value=8.1e-12  Score=138.46  Aligned_cols=36  Identities=17%  Similarity=0.121  Sum_probs=23.7

Q ss_pred             cCcCccEEEEecCCCccccCchhhhhccCCCcEEEecccc
Q 000945          642 YSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCS  681 (1212)
Q Consensus       642 ~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~  681 (1212)
                      .+++|++|++++| .++.++.   +..+++|++|++++|.
T Consensus        39 ~l~~L~~L~l~~~-~i~~l~~---~~~l~~L~~L~L~~n~   74 (308)
T 1h6u_A           39 DLDGITTLSAFGT-GVTTIEG---VQYLNNLIGLELKDNQ   74 (308)
T ss_dssp             HHHTCCEEECTTS-CCCCCTT---GGGCTTCCEEECCSSC
T ss_pred             HcCCcCEEEeeCC-CccCchh---hhccCCCCEEEccCCc
Confidence            4677777777775 4555543   5667777777777664

>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=99.29  E-value=7.1e-13  Score=149.93  Aligned_cols=207  Identities=16%  Similarity=0.156  Sum_probs=129.9

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCcccc-chHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENF-RIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~-p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      ++++.|++++|.+.+..+.   ...+++|++|+++++.+... .+..+..+++|+.|+++.+.++...+     ..+..+
T Consensus        70 ~~l~~L~l~~n~l~~~~~~---~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~-----~~l~~~  141 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAE---HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIV-----NTLAKN  141 (336)
T ss_dssp             TTCSEEECTTCEECSCCCS---CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHH-----HHHTTC
T ss_pred             ccceEEEcCCccccccchh---hccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHH-----HHHhcC
Confidence            6888899988888776532   34678899999998776542 33447888899999988444543211     233447


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCccc--ccCCccccC-CccEEeecccc-Ccccccchhhhc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLIN--LVPSSASFK-NLTTLELWYCQ-RLMNLVTSSTAK  929 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~--lp~~~~~l~-~L~~L~l~~c~-~l~~l~~~~~~~  929 (1212)
                      ++|++|++++|..+....  .+..+..+++|++|++++|..++.  ++..+..++ +|++|++++|. .++.-.....+.
T Consensus       142 ~~L~~L~L~~~~~l~~~~--l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~  219 (336)
T 2ast_B          142 SNLVRLNLSGCSGFSEFA--LQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVR  219 (336)
T ss_dssp             TTCSEEECTTCBSCCHHH--HHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHH
T ss_pred             CCCCEEECCCCCCCCHHH--HHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHHh
Confidence            888888888886555310  023356778888888888855553  555566777 88888888875 443211124556


Q ss_pred             ccccccEEEecCcchhh-HhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccC
Q 000945          930 SLVCLTKLRIDGCRMLT-EIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIEC  999 (1212)
Q Consensus       930 ~l~~L~~L~i~~c~~l~-~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C  999 (1212)
                      .+++|+.|++++|..+. ..+.       ....+++|+.|++++|..+..-..... ..+++|++|++++|
T Consensus       220 ~~~~L~~L~l~~~~~l~~~~~~-------~l~~l~~L~~L~l~~~~~~~~~~~~~l-~~~~~L~~L~l~~~  282 (336)
T 2ast_B          220 RCPNLVHLDLSDSVMLKNDCFQ-------EFFQLNYLQHLSLSRCYDIIPETLLEL-GEIPTLKTLQVFGI  282 (336)
T ss_dssp             HCTTCSEEECTTCTTCCGGGGG-------GGGGCTTCCEEECTTCTTCCGGGGGGG-GGCTTCCEEECTTS
T ss_pred             hCCCCCEEeCCCCCcCCHHHHH-------HHhCCCCCCEeeCCCCCCCCHHHHHHH-hcCCCCCEEeccCc
Confidence            77888888888887433 2221       223457777777777753322111001 13567777777776

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.26  E-value=1.2e-11  Score=111.71  Aligned_cols=77  Identities=14%  Similarity=0.114  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC-chhhHHHHHHHHHHHHHHHHHhHhhh
Q 000945            7 SATAKVLGQLVGAIPRQLRNYKSNFDDLKKKTEKLKLTLEDLHLWVDAAKENG-EEIEQSVEKWLISANTTVVEAGKLIE   85 (1212)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~i~~~l~~ae~~~-~~~~~~v~~Wl~~lk~~~~~aed~ld   85 (1212)
                      ++++|+...+.+++        ..+.+|+++++.|+++|..|++||.+|+++. +..++.++.|+.+||++||||||++|
T Consensus         5 ~ll~KL~~ll~~E~--------~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD   76 (115)
T 3qfl_A            5 NLIPKLGELLTEEF--------KLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVD   76 (115)
T ss_dssp             SHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--------HHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            47788887776665        4568999999999999999999999999864 35689999999999999999999999


Q ss_pred             HHHHhh
Q 000945           86 DEEKEK   91 (1212)
Q Consensus        86 ~~~~~~   91 (1212)
                      +|.+..
T Consensus        77 ~f~~~~   82 (115)
T 3qfl_A           77 KFLVQV   82 (115)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998864

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.26  E-value=5.2e-12  Score=140.55  Aligned_cols=205  Identities=15%  Similarity=0.009  Sum_probs=109.9

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCcccc----chHHHhhcCccceeEEEccceeEeccccchhhc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENF----RIGFLERFHNLEKLELRWSSYKEIFSNEEIVEH  849 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~----p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~  849 (1212)
                      +++|++|++++|.+.+..+.......+++|++|++++|.+...    +...+..+++|+.|+++.|.+..++        
T Consensus        90 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~--------  161 (310)
T 4glp_A           90 YSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFS--------  161 (310)
T ss_dssp             HSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCC--------
T ss_pred             cCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhh--------
Confidence            3567777777777766554222114566677777776655542    1122334555555555544443332        


Q ss_pred             cccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCccc--ccC--CccccCCccEEeeccccCcccccch
Q 000945          850 AEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLIN--LVP--SSASFKNLTTLELWYCQRLMNLVTS  925 (1212)
Q Consensus       850 ~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~--lp~--~~~~l~~L~~L~l~~c~~l~~l~~~  925 (1212)
                                               +..+..+++|++|++++|...+.  ++.  ....+++|++|++++| .++.++..
T Consensus       162 -------------------------~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~  215 (310)
T 4glp_A          162 -------------------------CEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNT-GMETPTGV  215 (310)
T ss_dssp             -------------------------TTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSS-CCCCHHHH
T ss_pred             -------------------------HHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCC-CCCchHHH
Confidence                                     23334455555555555543321  221  1245566666666664 45444311


Q ss_pred             --hhhcccccccEEEecCcchhhHh-hccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCc
Q 000945          926 --STAKSLVCLTKLRIDGCRMLTEI-ISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKM 1002 (1212)
Q Consensus       926 --~~~~~l~~L~~L~i~~c~~l~~~-~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l 1002 (1212)
                        ..+..+++|++|++++|. +... |....    ....+++|++|+++++ .++.+|...    +++|++|++++| .+
T Consensus       216 ~~~l~~~l~~L~~L~Ls~N~-l~~~~p~~~~----~~~~~~~L~~L~Ls~N-~l~~lp~~~----~~~L~~L~Ls~N-~l  284 (310)
T 4glp_A          216 CAALAAAGVQPHSLDLSHNS-LRATVNPSAP----RCMWSSALNSLNLSFA-GLEQVPKGL----PAKLRVLDLSSN-RL  284 (310)
T ss_dssp             HHHHHHHTCCCSSEECTTSC-CCCCCCSCCS----SCCCCTTCCCEECCSS-CCCSCCSCC----CSCCSCEECCSC-CC
T ss_pred             HHHHHhcCCCCCEEECCCCC-CCccchhhHH----hccCcCcCCEEECCCC-CCCchhhhh----cCCCCEEECCCC-cC
Confidence              123455667777776665 3322 21110    0111357777777766 356666543    267888888776 45


Q ss_pred             cccCcCCcCCCccceEEeccCc
Q 000945         1003 KIFSHRVLSTPRLREVRQNWGL 1024 (1212)
Q Consensus      1003 ~~lp~~~~~~~~L~~l~~~~~~ 1024 (1212)
                      ..+|. ...+++|+.+++++|.
T Consensus       285 ~~~~~-~~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          285 NRAPQ-PDELPEVDNLTLDGNP  305 (310)
T ss_dssp             CSCCC-TTSCCCCSCEECSSTT
T ss_pred             CCCch-hhhCCCccEEECcCCC
Confidence            56655 4567888888887664

>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=99.23  E-value=3.3e-11  Score=129.37  Aligned_cols=156  Identities=19%  Similarity=0.162  Sum_probs=119.1

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      .++|+.|++++|.+..+.+  ..+..+++|++|++++|.+..+++..+..+++|+.|+++.|.++.+++     ..+..+
T Consensus        34 ~~~l~~L~L~~n~l~~~~~--~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-----~~~~~l  106 (251)
T 3m19_A           34 PADTEKLDLQSTGLATLSD--ATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPL-----GVFDHL  106 (251)
T ss_dssp             CTTCCEEECTTSCCCCCCT--TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCT-----TTTTTC
T ss_pred             CCCCCEEEccCCCcCccCH--hHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccccCh-----hHhccc
Confidence            4678899999998888764  334578899999999988888888878889999999999888876654     233457


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccC-CccccCCccEEeeccccCcccccchhhhcccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVP-SSASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~-~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      ++|+.|+++++. +..++   +..+..+++|++|++++| .++.+|+ .+..+++|+.|++++| .++.++. ..+..++
T Consensus       107 ~~L~~L~L~~N~-l~~~~---~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~  179 (251)
T 3m19_A          107 TQLDKLYLGGNQ-LKSLP---SGVFDRLTKLKELRLNTN-QLQSIPAGAFDKLTNLQTLSLSTN-QLQSVPH-GAFDRLG  179 (251)
T ss_dssp             TTCCEEECCSSC-CCCCC---TTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCSCCCT-TTTTTCT
T ss_pred             CCCCEEEcCCCc-CCCcC---hhHhccCCcccEEECcCC-cCCccCHHHcCcCcCCCEEECCCC-cCCccCH-HHHhCCC
Confidence            889999998863 44442   334577889999999987 5566666 4677889999999885 6777754 3456788


Q ss_pred             cccEEEecCcc
Q 000945          933 CLTKLRIDGCR  943 (1212)
Q Consensus       933 ~L~~L~i~~c~  943 (1212)
                      +|+.|++++|+
T Consensus       180 ~L~~L~l~~N~  190 (251)
T 3m19_A          180 KLQTITLFGNQ  190 (251)
T ss_dssp             TCCEEECCSCC
T ss_pred             CCCEEEeeCCc
Confidence            89999988876

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.22  E-value=9.2e-12  Score=138.52  Aligned_cols=140  Identities=12%  Similarity=0.045  Sum_probs=100.1

Q ss_pred             cccCcccEEEEecCCCcccccCCccccCCccEEeeccccCccc--ccchhhhcccccccEEEecCcchhhHhhccCcccc
Q 000945          879 SITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMN--LVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVA  956 (1212)
Q Consensus       879 ~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~--l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~  956 (1212)
                      ..+++|++|++++|......|..+..+++|++|++++|+-...  ++....+..+++|++|++++|. +..++...   .
T Consensus       142 ~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~---~  217 (310)
T 4glp_A          142 WLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTG-METPTGVC---A  217 (310)
T ss_dssp             TBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSC-CCCHHHHH---H
T ss_pred             hhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCC-CCchHHHH---H
Confidence            4688999999999876555556678899999999999753322  3333444688999999999997 54433100   0


Q ss_pred             ccceeccchhhhhhccCCCcccc-cCCCcee-ecCCccEEEeccCCCccccCcCCcCCCccceEEeccCccc
Q 000945          957 EDEIVFSKLKWVSLERLENLTSF-CSGNYTL-KFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGLYK 1026 (1212)
Q Consensus       957 ~~~~~l~~L~~L~l~~~~~L~~l-~~~~~~~-~~~sL~~L~i~~C~~l~~lp~~~~~~~~L~~l~~~~~~~~ 1026 (1212)
                      .....+++|++|+++++. +..+ |.....+ .+++|++|++++|. ++.+|.++.  ++|+.++++.|...
T Consensus       218 ~l~~~l~~L~~L~Ls~N~-l~~~~p~~~~~~~~~~~L~~L~Ls~N~-l~~lp~~~~--~~L~~L~Ls~N~l~  285 (310)
T 4glp_A          218 ALAAAGVQPHSLDLSHNS-LRATVNPSAPRCMWSSALNSLNLSFAG-LEQVPKGLP--AKLRVLDLSSNRLN  285 (310)
T ss_dssp             HHHHHTCCCSSEECTTSC-CCCCCCSCCSSCCCCTTCCCEECCSSC-CCSCCSCCC--SCCSCEECCSCCCC
T ss_pred             HHHhcCCCCCEEECCCCC-CCccchhhHHhccCcCcCCEEECCCCC-CCchhhhhc--CCCCEEECCCCcCC
Confidence            011346899999999985 5555 5443321 13799999999874 668998775  79999999987653

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.21  E-value=1.5e-11  Score=150.50  Aligned_cols=116  Identities=22%  Similarity=0.255  Sum_probs=87.2

Q ss_pred             CcccccchHHHHHHHHHHhC--CCCceEEEEEecCCCchhHHHHHHHHHhhh-cCCC-CEEEEEEecCCCCHHHHHHHH-
Q 000945          147 GYEAFESRKSILNDALDALS--NPNVNVIGLCGLGGIGKTTLAKIVFYQAKK-LKLC-DEVVFVEVSQTPDVKRIQGDI-  221 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~--~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v-~~~F-~~~~wv~vs~~~~~~~l~~~i-  221 (1212)
                      ....++||+.+++.|.++|.  .+..++|+|+||||+||||||+.+|++.++ ..+| +.++|++++.. +...+...+ 
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~  200 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQ  200 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHHH
Confidence            34568999999999999997  356899999999999999999999998765 6889 58999999876 334444443 


Q ss_pred             --HHHhcCc-----ccCCChhHHHHHHHHHHHcC-CcEE-EecCccccccc
Q 000945          222 --ADQLGLY-----ICEGSESERAMVLCGLLKKG-KKIL-VLDNIWTSLDL  263 (1212)
Q Consensus       222 --l~~l~~~-----~~~~~~~~~~~~l~~~L~~~-kr~L-VLDDVw~~~~~  263 (1212)
                        +..++..     ....+.......++..+... +++| ||||||+...+
T Consensus       201 ~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l  251 (591)
T 1z6t_A          201 NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVL  251 (591)
T ss_dssp             HHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHH
T ss_pred             HHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHH
Confidence              3445421     11234456777788888742 6888 99999987543

>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=99.20  E-value=1.3e-12  Score=150.57  Aligned_cols=164  Identities=12%  Similarity=0.055  Sum_probs=80.4

Q ss_pred             ccceeeeeccccccccccc--cCcccccccceEeEeecCCccc-----cchHHHhhcCccceeEEEccceeEeccccchh
Q 000945          775 SKLEELKLSGKDIAMICQS--QFPKHIFRNLKNLEVVNDESEN-----FRIGFLERFHNLEKLELRWSSYKEIFSNEEIV  847 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~--~~~~~~~~~L~~L~l~~~~~~~-----~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~  847 (1212)
                      ++|++|++++|.+......  ......+++|++|++++|.+..     +.+..+..+++|+.|+|+.|.++... ...+.
T Consensus       159 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g-~~~l~  237 (386)
T 2ca6_A          159 PPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLG-SSALA  237 (386)
T ss_dssp             CCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHH-HHHHH
T ss_pred             CCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHH-HHHHH
Confidence            5666666666665421100  0112245566666666665552     12213556667777777755442100 00011


Q ss_pred             hccccccccceEeeCCCccchhhhc-cCCCCc--cccCcccEEEEecCCCcc----cccCCc-cccCCccEEeeccccCc
Q 000945          848 EHAEMLTQVKSLKLWELSDLMYIWK-QDSKLD--SITENLESLEVWWCENLI----NLVPSS-ASFKNLTTLELWYCQRL  919 (1212)
Q Consensus       848 ~~~~~l~~L~~L~l~~c~~l~~l~~-~~~~~~--~~l~~L~~L~l~~c~~l~----~lp~~~-~~l~~L~~L~l~~c~~l  919 (1212)
                      ..+..+++|+.|++++|. +..... ..+..+  +.+++|++|++++|..-.    .+|..+ .++++|+.|++++|+ +
T Consensus       238 ~~l~~~~~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~-l  315 (386)
T 2ca6_A          238 IALKSWPNLRELGLNDCL-LSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNR-F  315 (386)
T ss_dssp             HHGGGCTTCCEEECTTCC-CCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSB-S
T ss_pred             HHHccCCCcCEEECCCCC-CchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCc-C
Confidence            223345667777777664 221100 001222  236777777777765444    366555 446777777777753 4


Q ss_pred             ccccc--hhhhcccccccEEEecC
Q 000945          920 MNLVT--SSTAKSLVCLTKLRIDG  941 (1212)
Q Consensus       920 ~~l~~--~~~~~~l~~L~~L~i~~  941 (1212)
                      +....  ..+...++.++.+.+..
T Consensus       316 ~~~~~~~~~l~~~l~~~~~~~l~~  339 (386)
T 2ca6_A          316 SEEDDVVDEIREVFSTRGRGELDE  339 (386)
T ss_dssp             CTTSHHHHHHHHHHHHHTCCEECC
T ss_pred             CcchhHHHHHHHHhhhcCcchhhh
Confidence            43321  23334445555444443

>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=99.17  E-value=6.7e-11  Score=129.75  Aligned_cols=145  Identities=21%  Similarity=0.218  Sum_probs=92.0

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+.++.+    ...+++|++|++++|.+..+|.  +..+++|+.|+++.|.++.+.       .+..+
T Consensus        67 l~~L~~L~L~~n~l~~~~~----l~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~L~~n~i~~~~-------~l~~l  133 (291)
T 1h6t_A           67 LPNVTKLFLNGNKLTDIKP----LANLKNLGWLFLDENKVKDLSS--LKDLKKLKSLSLEHNGISDIN-------GLVHL  133 (291)
T ss_dssp             CTTCCEEECCSSCCCCCGG----GTTCTTCCEEECCSSCCCCGGG--GTTCTTCCEEECTTSCCCCCG-------GGGGC
T ss_pred             CCCCCEEEccCCccCCCcc----cccCCCCCEEECCCCcCCCChh--hccCCCCCEEECCCCcCCCCh-------hhcCC
Confidence            5566666666666666542    4456677777777766666553  666777777777755665542       12336


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++++|. +..+     ..+..+++|+.|++++| .++.+++ +..+++|+.|++++| .++.++   .+..+++
T Consensus       134 ~~L~~L~l~~n~-l~~~-----~~l~~l~~L~~L~L~~N-~l~~~~~-l~~l~~L~~L~L~~N-~i~~l~---~l~~l~~  201 (291)
T 1h6t_A          134 PQLESLYLGNNK-ITDI-----TVLSRLTKLDTLSLEDN-QISDIVP-LAGLTKLQNLYLSKN-HISDLR---ALAGLKN  201 (291)
T ss_dssp             TTCCEEECCSSC-CCCC-----GGGGGCTTCSEEECCSS-CCCCCGG-GTTCTTCCEEECCSS-CCCBCG---GGTTCTT
T ss_pred             CCCCEEEccCCc-CCcc-----hhhccCCCCCEEEccCC-ccccchh-hcCCCccCEEECCCC-cCCCCh---hhccCCC
Confidence            677777777653 3332     34566777777777776 3444544 567777777777775 566664   2466777


Q ss_pred             ccEEEecCcc
Q 000945          934 LTKLRIDGCR  943 (1212)
Q Consensus       934 L~~L~i~~c~  943 (1212)
                      |+.|++++|+
T Consensus       202 L~~L~l~~n~  211 (291)
T 1h6t_A          202 LDVLELFSQE  211 (291)
T ss_dssp             CSEEEEEEEE
T ss_pred             CCEEECcCCc
Confidence            7777777765

>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=99.17  E-value=3.3e-12  Score=147.25  Aligned_cols=241  Identities=13%  Similarity=0.022  Sum_probs=161.0

Q ss_pred             cccceeeeecccccccccccc--CcccccccceEeEeecCCcc----ccchHH------HhhcCccceeEEEccceeEec
Q 000945          774 TSKLEELKLSGKDIAMICQSQ--FPKHIFRNLKNLEVVNDESE----NFRIGF------LERFHNLEKLELRWSSYKEIF  841 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~--~~~~~~~~L~~L~l~~~~~~----~~p~~~------l~~l~~L~~L~l~c~~l~~~~  841 (1212)
                      +++|+.|++++|.+....+..  .....+++|++|+++++.+.    .+|.++      +..+++|+.|+++.|.+...-
T Consensus        31 ~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~  110 (386)
T 2ca6_A           31 DDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTA  110 (386)
T ss_dssp             CSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTT
T ss_pred             CCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHHH
Confidence            678999999999887653321  12346889999999986544    334443      467899999999977775410


Q ss_pred             cccchhhccccccccceEeeCCCccchhhhc-cCCCCcccc---------CcccEEEEecCCCc-cccc---CCccccCC
Q 000945          842 SNEEIVEHAEMLTQVKSLKLWELSDLMYIWK-QDSKLDSIT---------ENLESLEVWWCENL-INLV---PSSASFKN  907 (1212)
Q Consensus       842 ~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~-~~~~~~~~l---------~~L~~L~l~~c~~l-~~lp---~~~~~l~~  907 (1212)
                       ...+...+..+++|++|++++|. +..... ..+..+..+         ++|++|++++|..- ..+|   ..+..+++
T Consensus       111 -~~~l~~~l~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~  188 (386)
T 2ca6_A          111 -QEPLIDFLSKHTPLEHLYLHNNG-LGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRL  188 (386)
T ss_dssp             -HHHHHHHHHHCTTCCEEECCSSC-CHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTT
T ss_pred             -HHHHHHHHHhCCCCCEEECcCCC-CCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCC
Confidence             00112344568999999999985 221110 011223344         89999999998654 3444   34567889


Q ss_pred             ccEEeeccccCccccc----chhhhcccccccEEEecCcchh----hHhhccCccccccceeccchhhhhhccCCCcccc
Q 000945          908 LTTLELWYCQRLMNLV----TSSTAKSLVCLTKLRIDGCRML----TEIISKEEDVAEDEIVFSKLKWVSLERLENLTSF  979 (1212)
Q Consensus       908 L~~L~l~~c~~l~~l~----~~~~~~~l~~L~~L~i~~c~~l----~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l  979 (1212)
                      |++|++++| .++...    ....+..+++|+.|++++|.--    ..++.       ....+++|+.|++++|. +...
T Consensus       189 L~~L~L~~n-~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~-------~l~~~~~L~~L~L~~n~-i~~~  259 (386)
T 2ca6_A          189 LHTVKMVQN-GIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAI-------ALKSWPNLRELGLNDCL-LSAR  259 (386)
T ss_dssp             CCEEECCSS-CCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHH-------HGGGCTTCCEEECTTCC-CCHH
T ss_pred             cCEEECcCC-CCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHH-------HHccCCCcCEEECCCCC-Cchh
Confidence            999999997 555210    0125568899999999999832    44542       23457899999999985 4432


Q ss_pred             -----cCCCceeecCCccEEEeccCCCcc----ccCcCC-cCCCccceEEeccCcc
Q 000945          980 -----CSGNYTLKFPSLEDLFVIECPKMK----IFSHRV-LSTPRLREVRQNWGLY 1025 (1212)
Q Consensus       980 -----~~~~~~~~~~sL~~L~i~~C~~l~----~lp~~~-~~~~~L~~l~~~~~~~ 1025 (1212)
                           +.......+++|++|++++|.--.    .+|..+ .++++|+.+++++|..
T Consensus       260 ~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l  315 (386)
T 2ca6_A          260 GAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRF  315 (386)
T ss_dssp             HHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBS
T ss_pred             hHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCcC
Confidence                 332100125899999999987544    388877 5589999999998764

>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=99.16  E-value=8.9e-11  Score=120.63  Aligned_cols=150  Identities=13%  Similarity=0.146  Sum_probs=87.9

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+..++    ....+++|++|++++|.+..++  .+..+++|+.|+++.|.++...+     ..+..+
T Consensus        43 l~~L~~L~l~~n~i~~l~----~l~~l~~L~~L~l~~n~~~~~~--~l~~l~~L~~L~l~~n~l~~~~~-----~~l~~l  111 (197)
T 4ezg_A           43 MNSLTYITLANINVTDLT----GIEYAHNIKDLTINNIHATNYN--PISGLSNLERLRIMGKDVTSDKI-----PNLSGL  111 (197)
T ss_dssp             HHTCCEEEEESSCCSCCT----TGGGCTTCSEEEEESCCCSCCG--GGTTCTTCCEEEEECTTCBGGGS-----CCCTTC
T ss_pred             cCCccEEeccCCCccChH----HHhcCCCCCEEEccCCCCCcch--hhhcCCCCCEEEeECCccCcccC-----hhhcCC
Confidence            566777777777666543    2445667777777776655554  25667777777777555543211     123346


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++++|.--...    +..+..+++|++|++++|..++.+| .+..+++|+.|++++| .++.++   .+..+++
T Consensus       112 ~~L~~L~Ls~n~i~~~~----~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n-~i~~~~---~l~~l~~  182 (197)
T 4ezg_A          112 TSLTLLDISHSAHDDSI----LTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFD-GVHDYR---GIEDFPK  182 (197)
T ss_dssp             TTCCEEECCSSBCBGGG----HHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTB-CCCCCT---TGGGCSS
T ss_pred             CCCCEEEecCCccCcHh----HHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCC-CCcChH---HhccCCC
Confidence            66777777665421111    3344566677777777666566665 3566667777777665 455543   3455666


Q ss_pred             ccEEEecCcc
Q 000945          934 LTKLRIDGCR  943 (1212)
Q Consensus       934 L~~L~i~~c~  943 (1212)
                      |+.|++++++
T Consensus       183 L~~L~l~~N~  192 (197)
T 4ezg_A          183 LNQLYAFSQT  192 (197)
T ss_dssp             CCEEEECBC-
T ss_pred             CCEEEeeCcc
Confidence            6666666654

>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=99.16  E-value=3.9e-11  Score=131.68  Aligned_cols=145  Identities=20%  Similarity=0.191  Sum_probs=98.0

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|+++++.+..+.    ....+++|++|++++|.+..++.  +..+++|+.|+++.|.++.++.       +..+
T Consensus        45 l~~L~~L~l~~~~i~~~~----~~~~l~~L~~L~L~~n~l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-------l~~l  111 (291)
T 1h6t_A           45 LNSIDQIIANNSDIKSVQ----GIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENKVKDLSS-------LKDL  111 (291)
T ss_dssp             HHTCCEEECTTSCCCCCT----TGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCGGG-------GTTC
T ss_pred             cCcccEEEccCCCcccCh----hHhcCCCCCEEEccCCccCCCcc--cccCCCCCEEECCCCcCCCChh-------hccC
Confidence            567888888887777663    24567788888888887777776  7778888888888666665432       3346


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++++|. +..+     ..+..+++|+.|++++|. ++.+ +.+..+++|+.|++++| .++.++.   +..+++
T Consensus       112 ~~L~~L~L~~n~-i~~~-----~~l~~l~~L~~L~l~~n~-l~~~-~~l~~l~~L~~L~L~~N-~l~~~~~---l~~l~~  179 (291)
T 1h6t_A          112 KKLKSLSLEHNG-ISDI-----NGLVHLPQLESLYLGNNK-ITDI-TVLSRLTKLDTLSLEDN-QISDIVP---LAGLTK  179 (291)
T ss_dssp             TTCCEEECTTSC-CCCC-----GGGGGCTTCCEEECCSSC-CCCC-GGGGGCTTCSEEECCSS-CCCCCGG---GTTCTT
T ss_pred             CCCCEEECCCCc-CCCC-----hhhcCCCCCCEEEccCCc-CCcc-hhhccCCCCCEEEccCC-ccccchh---hcCCCc
Confidence            777888877763 3332     345667777777777763 3444 34566777777777775 5666542   566677


Q ss_pred             ccEEEecCcc
Q 000945          934 LTKLRIDGCR  943 (1212)
Q Consensus       934 L~~L~i~~c~  943 (1212)
                      |+.|++++|.
T Consensus       180 L~~L~L~~N~  189 (291)
T 1h6t_A          180 LQNLYLSKNH  189 (291)
T ss_dssp             CCEEECCSSC
T ss_pred             cCEEECCCCc
Confidence            7777777764

>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=99.13  E-value=7e-11  Score=121.42  Aligned_cols=130  Identities=15%  Similarity=0.175  Sum_probs=82.8

Q ss_pred             cccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCC
Q 000945          798 HIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKL  877 (1212)
Q Consensus       798 ~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~  877 (1212)
                      ..+++|+.|+++++.+..+| + +..+++|+.|+++.+.++.+.       .+..+++|++|++++|. +..   ..+..
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~-~-l~~l~~L~~L~l~~n~~~~~~-------~l~~l~~L~~L~l~~n~-l~~---~~~~~  107 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLT-G-IEYAHNIKDLTINNIHATNYN-------PISGLSNLERLRIMGKD-VTS---DKIPN  107 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCT-T-GGGCTTCSEEEEESCCCSCCG-------GGTTCTTCCEEEEECTT-CBG---GGSCC
T ss_pred             hhcCCccEEeccCCCccChH-H-HhcCCCCCEEEccCCCCCcch-------hhhcCCCCCEEEeECCc-cCc---ccChh
Confidence            45778888888888888777 3 777888888888844554432       12336777777777653 221   12445


Q ss_pred             ccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcc
Q 000945          878 DSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       878 ~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      +..+++|++|++++|......|..+..+++|+.|++++|..++.++   .+..+++|+.|++++|.
T Consensus       108 l~~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~---~l~~l~~L~~L~l~~n~  170 (197)
T 4ezg_A          108 LSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM---PLKTLPELKSLNIQFDG  170 (197)
T ss_dssp             CTTCTTCCEEECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG---GGGGCSSCCEEECTTBC
T ss_pred             hcCCCCCCEEEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH---hhcCCCCCCEEECCCCC
Confidence            6667777777777765544455555666777777777765466653   34556666666666664

>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=99.11  E-value=6.6e-11  Score=142.64  Aligned_cols=145  Identities=21%  Similarity=0.222  Sum_probs=68.3

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|+|++|.+..+.+    +..+++|+.|+|++|.+..+|  .+..+++|+.|+|+.|.+..++.       +..+
T Consensus        64 l~~L~~L~Ls~N~l~~~~~----l~~l~~L~~L~Ls~N~l~~l~--~l~~l~~L~~L~Ls~N~l~~l~~-------l~~l  130 (605)
T 1m9s_A           64 LPNVTKLFLNGNKLTDIKP----LTNLKNLGWLFLDENKIKDLS--SLKDLKKLKSLSLEHNGISDING-------LVHL  130 (605)
T ss_dssp             CTTCCEEECTTSCCCCCGG----GGGCTTCCEEECCSSCCCCCT--TSTTCTTCCEEECTTSCCCCCGG-------GGGC
T ss_pred             CCCCCEEEeeCCCCCCChh----hccCCCCCEEECcCCCCCCCh--hhccCCCCCEEEecCCCCCCCcc-------ccCC
Confidence            4555555555555554432    334555555555555555444  24455555555555444443321       2224


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|+|++|. +..+     ..+..+++|+.|++++|. +..+++ +..+++|+.|+|++| .+..++   .+..+++
T Consensus       131 ~~L~~L~Ls~N~-l~~l-----~~l~~l~~L~~L~Ls~N~-l~~~~~-l~~l~~L~~L~Ls~N-~i~~l~---~l~~l~~  198 (605)
T 1m9s_A          131 PQLESLYLGNNK-ITDI-----TVLSRLTKLDTLSLEDNQ-ISDIVP-LAGLTKLQNLYLSKN-HISDLR---ALAGLKN  198 (605)
T ss_dssp             TTCSEEECCSSC-CCCC-----GGGGSCTTCSEEECCSSC-CCCCGG-GTTCTTCCEEECCSS-CCCBCG---GGTTCTT
T ss_pred             CccCEEECCCCc-cCCc-----hhhcccCCCCEEECcCCc-CCCchh-hccCCCCCEEECcCC-CCCCCh---HHccCCC
Confidence            555555555542 2221     234445555555555543 223322 445555555555553 344442   2344555


Q ss_pred             ccEEEecCcc
Q 000945          934 LTKLRIDGCR  943 (1212)
Q Consensus       934 L~~L~i~~c~  943 (1212)
                      |+.|++++|+
T Consensus       199 L~~L~L~~N~  208 (605)
T 1m9s_A          199 LDVLELFSQE  208 (605)
T ss_dssp             CSEEECCSEE
T ss_pred             CCEEEccCCc
Confidence            5555555554

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.11  E-value=3.5e-10  Score=134.58  Aligned_cols=142  Identities=17%  Similarity=0.133  Sum_probs=76.2

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+++++.    ..  .+|++|++++|.+..+|.    .+++|+.|+++.|.++.++.         .+
T Consensus        99 l~~L~~L~Ls~N~l~~ip~----l~--~~L~~L~Ls~N~l~~lp~----~l~~L~~L~Ls~N~l~~lp~---------~l  159 (571)
T 3cvr_A           99 PASLEYLDACDNRLSTLPE----LP--ASLKHLDVDNNQLTMLPE----LPALLEYINADNNQLTMLPE---------LP  159 (571)
T ss_dssp             CTTCCEEECCSSCCSCCCC----CC--TTCCEEECCSSCCSCCCC----CCTTCCEEECCSSCCSCCCC---------CC
T ss_pred             cCCCCEEEccCCCCCCcch----hh--cCCCEEECCCCcCCCCCC----cCccccEEeCCCCccCcCCC---------cC
Confidence            3455555555555554331    11  155666666655555554    35566666666555555432         14


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCc-------cEEeeccccCcccccchh
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNL-------TTLELWYCQRLMNLVTSS  926 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L-------~~L~l~~c~~l~~l~~~~  926 (1212)
                      ++|+.|++++|. +..+    |. +.  ++|+.|++++| .++.+|. +..  +|       +.|++++| .++.+|  .
T Consensus       160 ~~L~~L~Ls~N~-L~~l----p~-l~--~~L~~L~Ls~N-~L~~lp~-~~~--~L~~~~~~L~~L~Ls~N-~l~~lp--~  224 (571)
T 3cvr_A          160 TSLEVLSVRNNQ-LTFL----PE-LP--ESLEALDVSTN-LLESLPA-VPV--RNHHSEETEIFFRCREN-RITHIP--E  224 (571)
T ss_dssp             TTCCEEECCSSC-CSCC----CC-CC--TTCCEEECCSS-CCSSCCC-CC----------CCEEEECCSS-CCCCCC--G
T ss_pred             CCcCEEECCCCC-CCCc----ch-hh--CCCCEEECcCC-CCCchhh-HHH--hhhcccccceEEecCCC-cceecC--H
Confidence            566666666653 3333    22 22  66777777665 4446655 322  55       77777774 666665  2


Q ss_pred             hhcccccccEEEecCcchhhHhh
Q 000945          927 TAKSLVCLTKLRIDGCRMLTEII  949 (1212)
Q Consensus       927 ~~~~l~~L~~L~i~~c~~l~~~~  949 (1212)
                      .+..+++|+.|++++|+.-..+|
T Consensus       225 ~l~~l~~L~~L~L~~N~l~~~~p  247 (571)
T 3cvr_A          225 NILSLDPTCTIILEDNPLSSRIR  247 (571)
T ss_dssp             GGGGSCTTEEEECCSSSCCHHHH
T ss_pred             HHhcCCCCCEEEeeCCcCCCcCH
Confidence            33447777777777776444443

>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=99.11  E-value=1.2e-10  Score=124.86  Aligned_cols=152  Identities=16%  Similarity=0.157  Sum_probs=108.0

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      .+.+.++++++.+..++..     ..++++.|++++|.+..++...+..+++|+.|+++.|.++.+++     ..+..++
T Consensus        14 ~~~~~l~~~~~~l~~~p~~-----~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-----~~~~~l~   83 (251)
T 3m19_A           14 EGKKEVDCQGKSLDSVPSG-----IPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSA-----GVFDDLT   83 (251)
T ss_dssp             GGGTEEECTTCCCSSCCSC-----CCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCT-----TTTTTCT
T ss_pred             CCCeEEecCCCCccccCCC-----CCCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCH-----hHhccCC
Confidence            4567788888888877532     23689999999998888888778889999999999777776654     2234478


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhccccc
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      +|+.|+++++. +..+   .+..+..+++|++|++++| .++.+|+. +..+++|+.|++++| .++.++. ..+..+++
T Consensus        84 ~L~~L~L~~n~-l~~~---~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~-~~~~~l~~  156 (251)
T 3m19_A           84 ELGTLGLANNQ-LASL---PLGVFDHLTQLDKLYLGGN-QLKSLPSGVFDRLTKLKELRLNTN-QLQSIPA-GAFDKLTN  156 (251)
T ss_dssp             TCCEEECTTSC-CCCC---CTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT-TTTTTCTT
T ss_pred             cCCEEECCCCc-cccc---ChhHhcccCCCCEEEcCCC-cCCCcChhHhccCCcccEEECcCC-cCCccCH-HHcCcCcC
Confidence            88888888754 3333   2345567788888888876 45566654 466788888888875 6776653 23456677


Q ss_pred             ccEEEecCcc
Q 000945          934 LTKLRIDGCR  943 (1212)
Q Consensus       934 L~~L~i~~c~  943 (1212)
                      |+.|++++|.
T Consensus       157 L~~L~L~~N~  166 (251)
T 3m19_A          157 LQTLSLSTNQ  166 (251)
T ss_dssp             CCEEECCSSC
T ss_pred             CCEEECCCCc
Confidence            7777777765

>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=99.08  E-value=1.7e-10  Score=139.03  Aligned_cols=175  Identities=21%  Similarity=0.172  Sum_probs=135.2

Q ss_pred             cccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeecccc
Q 000945          698 TFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSKL  777 (1212)
Q Consensus       698 ~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~L  777 (1212)
                      ...+++|+.|.+.++. +..++.   ...+++|+.|++++| .+..+++    +                    ..+++|
T Consensus        39 ~~~L~~L~~L~l~~n~-i~~l~~---l~~l~~L~~L~Ls~N-~l~~~~~----l--------------------~~l~~L   89 (605)
T 1m9s_A           39 QNELNSIDQIIANNSD-IKSVQG---IQYLPNVTKLFLNGN-KLTDIKP----L--------------------TNLKNL   89 (605)
T ss_dssp             HHHHTTCCCCBCTTCC-CCCCTT---GGGCTTCCEEECTTS-CCCCCGG----G--------------------GGCTTC
T ss_pred             hhcCCCCCEEECcCCC-CCCChH---HccCCCCCEEEeeCC-CCCCChh----h--------------------ccCCCC
Confidence            3458999999998874 444432   346999999999997 4555532    1                    127899


Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVK  857 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~  857 (1212)
                      +.|+|++|.+..+.    .+..+++|+.|+|++|.+..++.  +..+++|+.|+|+.|.+..+.       .+..+++|+
T Consensus        90 ~~L~Ls~N~l~~l~----~l~~l~~L~~L~Ls~N~l~~l~~--l~~l~~L~~L~Ls~N~l~~l~-------~l~~l~~L~  156 (605)
T 1m9s_A           90 GWLFLDENKIKDLS----SLKDLKKLKSLSLEHNGISDING--LVHLPQLESLYLGNNKITDIT-------VLSRLTKLD  156 (605)
T ss_dssp             CEEECCSSCCCCCT----TSTTCTTCCEEECTTSCCCCCGG--GGGCTTCSEEECCSSCCCCCG-------GGGSCTTCS
T ss_pred             CEEECcCCCCCCCh----hhccCCCCCEEEecCCCCCCCcc--ccCCCccCEEECCCCccCCch-------hhcccCCCC
Confidence            99999999998864    45678999999999999998763  889999999999977887652       234589999


Q ss_pred             eEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCccccc
Q 000945          858 SLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLV  923 (1212)
Q Consensus       858 ~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~  923 (1212)
                      .|+|++|. +..+.     .+..+++|+.|++++| .+..+| .+..+++|+.|++++|+ +...|
T Consensus       157 ~L~Ls~N~-l~~~~-----~l~~l~~L~~L~Ls~N-~i~~l~-~l~~l~~L~~L~L~~N~-l~~~p  213 (605)
T 1m9s_A          157 TLSLEDNQ-ISDIV-----PLAGLTKLQNLYLSKN-HISDLR-ALAGLKNLDVLELFSQE-CLNKP  213 (605)
T ss_dssp             EEECCSSC-CCCCG-----GGTTCTTCCEEECCSS-CCCBCG-GGTTCTTCSEEECCSEE-EECCC
T ss_pred             EEECcCCc-CCCch-----hhccCCCCCEEECcCC-CCCCCh-HHccCCCCCEEEccCCc-CcCCc
Confidence            99999975 44432     2778999999999997 455664 47889999999999974 55443

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.07  E-value=2.5e-10  Score=135.76  Aligned_cols=138  Identities=17%  Similarity=0.147  Sum_probs=85.8

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      .+|+.|++++|.+.+++..     .+++|++|++++|.+..+|    ..+++|+.|+++.|.++.++.   +      ..
T Consensus        59 ~~L~~L~Ls~n~L~~lp~~-----l~~~L~~L~Ls~N~l~~ip----~~l~~L~~L~Ls~N~l~~ip~---l------~~  120 (571)
T 3cvr_A           59 NQFSELQLNRLNLSSLPDN-----LPPQITVLEITQNALISLP----ELPASLEYLDACDNRLSTLPE---L------PA  120 (571)
T ss_dssp             TTCSEEECCSSCCSCCCSC-----CCTTCSEEECCSSCCSCCC----CCCTTCCEEECCSSCCSCCCC---C------CT
T ss_pred             CCccEEEeCCCCCCccCHh-----HcCCCCEEECcCCCCcccc----cccCCCCEEEccCCCCCCcch---h------hc
Confidence            3788888888777765421     1367888888887777777    336777777777666766543   1      23


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccc
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCL  934 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L  934 (1212)
                      +|+.|+++++. +..+    |.   .+++|+.|++++|. ++.+|.   .+++|+.|++++| .++.+|.   +.  ++|
T Consensus       121 ~L~~L~Ls~N~-l~~l----p~---~l~~L~~L~Ls~N~-l~~lp~---~l~~L~~L~Ls~N-~L~~lp~---l~--~~L  182 (571)
T 3cvr_A          121 SLKHLDVDNNQ-LTML----PE---LPALLEYINADNNQ-LTMLPE---LPTSLEVLSVRNN-QLTFLPE---LP--ESL  182 (571)
T ss_dssp             TCCEEECCSSC-CSCC----CC---CCTTCCEEECCSSC-CSCCCC---CCTTCCEEECCSS-CCSCCCC---CC--TTC
T ss_pred             CCCEEECCCCc-CCCC----CC---cCccccEEeCCCCc-cCcCCC---cCCCcCEEECCCC-CCCCcch---hh--CCC
Confidence            67777777653 3333    22   45677777777654 444654   4567777777764 4666653   22  567


Q ss_pred             cEEEecCcchhhHhh
Q 000945          935 TKLRIDGCRMLTEII  949 (1212)
Q Consensus       935 ~~L~i~~c~~l~~~~  949 (1212)
                      +.|++++|. +..+|
T Consensus       183 ~~L~Ls~N~-L~~lp  196 (571)
T 3cvr_A          183 EALDVSTNL-LESLP  196 (571)
T ss_dssp             CEEECCSSC-CSSCC
T ss_pred             CEEECcCCC-CCchh
Confidence            777776664 44443

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.06  E-value=5.6e-10  Score=115.91  Aligned_cols=175  Identities=13%  Similarity=0.095  Sum_probs=116.5

Q ss_pred             eeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccce
Q 000945          779 ELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKS  858 (1212)
Q Consensus       779 ~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~  858 (1212)
                      .++.+++.+..++     ....++|++|++++|.+..++...+..+++|+.|+++.|.++.+++     ..+..+++|++
T Consensus        11 ~v~c~~~~l~~~p-----~~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-----~~~~~l~~L~~   80 (208)
T 2o6s_A           11 TVECYSQGRTSVP-----TGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPN-----GVFNKLTSLTY   80 (208)
T ss_dssp             EEECCSSCCSSCC-----SCCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCT-----TTTTTCTTCCE
T ss_pred             EEEecCCCccCCC-----CCCCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccCh-----hhcCCCCCcCE
Confidence            3444444444443     2234578888888877777777777788888888888777766543     12334678888


Q ss_pred             EeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhcccccccEE
Q 000945          859 LKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKL  937 (1212)
Q Consensus       859 L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L  937 (1212)
                      |+++++. +..++   +..+..+++|++|++++|. ++.+|+. +..+++|+.|++++| .++.++. ..+..+++|+.|
T Consensus        81 L~Ls~n~-l~~~~---~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~-~~~~~l~~L~~L  153 (208)
T 2o6s_A           81 LNLSTNQ-LQSLP---NGVFDKLTQLKELALNTNQ-LQSLPDGVFDKLTQLKDLRLYQN-QLKSVPD-GVFDRLTSLQYI  153 (208)
T ss_dssp             EECCSSC-CCCCC---TTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCSCCCT-TTTTTCTTCCEE
T ss_pred             EECCCCc-CCccC---HhHhcCccCCCEEEcCCCc-CcccCHhHhccCCcCCEEECCCC-ccceeCH-HHhccCCCccEE
Confidence            8888763 44332   3345678888888888864 5566554 567888999999885 6777653 345678889999


Q ss_pred             EecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCc
Q 000945          938 RIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNY  984 (1212)
Q Consensus       938 ~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~  984 (1212)
                      ++++|+-              ...+++|+.|+++.+..-..+|....
T Consensus       154 ~l~~N~~--------------~~~~~~l~~L~~~~n~~~g~ip~~~~  186 (208)
T 2o6s_A          154 WLHDNPW--------------DCTCPGIRYLSEWINKHSGVVRNSAG  186 (208)
T ss_dssp             ECCSCCB--------------CCCTTTTHHHHHHHHHCTTTBBCTTS
T ss_pred             EecCCCe--------------ecCCCCHHHHHHHHHhCCceeeccCc
Confidence            9988851              12356788888877654456665433

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.05  E-value=3.1e-11  Score=137.47  Aligned_cols=114  Identities=12%  Similarity=-0.000  Sum_probs=59.5

Q ss_pred             cceEeEeecCCccccchHHH----hhc-CccceeEEEccceeEeccccchhhcccc-ccccceEeeCCCccchhhhcc-C
Q 000945          802 NLKNLEVVNDESENFRIGFL----ERF-HNLEKLELRWSSYKEIFSNEEIVEHAEM-LTQVKSLKLWELSDLMYIWKQ-D  874 (1212)
Q Consensus       802 ~L~~L~l~~~~~~~~p~~~l----~~l-~~L~~L~l~c~~l~~~~~~~~~~~~~~~-l~~L~~L~l~~c~~l~~l~~~-~  874 (1212)
                      +|++|++++|.+...+...+    ..+ ++|+.|+++.|.++.... ..+...+.. .++|++|++++|. +...+.. .
T Consensus       168 ~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~-~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l  245 (362)
T 3goz_A          168 NVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSY-AELAYIFSSIPNHVVSLNLCLNC-LHGPSLENL  245 (362)
T ss_dssp             TCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCH-HHHHHHHHHSCTTCCEEECCSSC-CCCCCHHHH
T ss_pred             cccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHH-HHHHHHHhcCCCCceEEECcCCC-CCcHHHHHH
Confidence            56666666655554443322    223 466666666554543110 001111222 3467777776653 2211000 0


Q ss_pred             CCCccccCcccEEEEecCC-------CcccccCCccccCCccEEeecccc
Q 000945          875 SKLDSITENLESLEVWWCE-------NLINLVPSSASFKNLTTLELWYCQ  917 (1212)
Q Consensus       875 ~~~~~~l~~L~~L~l~~c~-------~l~~lp~~~~~l~~L~~L~l~~c~  917 (1212)
                      ...+..+++|+.|++++|.       .+..++..+..+++|+.|++++++
T Consensus       246 ~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          246 KLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKE  295 (362)
T ss_dssp             HHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSCB
T ss_pred             HHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCCc
Confidence            1223556778888888875       133455556678889999998864

>3iwl_A Copper transport protein ATOX1; beta-alpha-beta-BETA-alpha-beta, cisplatin, platinum, chaperone, ION transport, metal-binding, metal transport; HET: TCE; 1.60A {Homo sapiens} SCOP: d.58.17.1 PDB: 1fe4_A* 1fee_A* 1tl4_A 1tl5_A 2k1r_B 1fe0_A* 3iwx_A 3cjk_A

Probab=99.04  E-value=5.7e-10  Score=91.38  Aligned_cols=67  Identities=13%  Similarity=0.197  Sum_probs=62.8

Q ss_pred             ceEEEEEEEecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEEec
Q 000945         1116 KQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSI 1183 (1212)
Q Consensus      1116 ~~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~~~ 1183 (1212)
                      |+++.++|+|+|.+|+.++.+++.+++|| ++.+|...++++|.|.+++.++.+++++.|+.+.++++
T Consensus         1 m~~~~~~vgm~C~~C~~~i~~~l~~~~gV-~v~v~~~~~~~~v~~~~~~~~i~~~i~~~Gy~~~~~~~   67 (68)
T 3iwl_A            1 MPKHEFSVDMTCGGCAEAVSRVLNKLGGV-KYDIDLPNKKVCIESEHSMDTLLATLKKTGKTVSYLGL   67 (68)
T ss_dssp             -CEEEEEECCCSHHHHHHHHHHHHHHCSE-EEEEETTTTEEEEEESSCHHHHHHHHHTTCSCEEEEEC
T ss_pred             CceEEEEECcCcHHHHHHHHHHHHcCCCe-EEEEEcCCCEEEEEecCCHHHHHHHHHHcCCceEecCC
Confidence            46788999999999999999999999999 99999999999999999999999999999999998864

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.01  E-value=6.8e-10  Score=126.15  Aligned_cols=156  Identities=15%  Similarity=0.103  Sum_probs=123.5

Q ss_pred             cccceeeeeccccccccccccCccc-ccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKH-IFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEM  852 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~-~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~  852 (1212)
                      .+.++.|++++|.+..+.+.  ... .+++|+.|+|++|.+..+++..|..+++|+.|+|+.|.++.+++     ..+..
T Consensus        38 ~~~l~~L~Ls~N~l~~l~~~--~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~-----~~~~~  110 (361)
T 2xot_A           38 PSYTALLDLSHNNLSRLRAE--WTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDE-----FLFSD  110 (361)
T ss_dssp             CTTCSEEECCSSCCCEECTT--SSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECT-----TTTTT
T ss_pred             CCCCCEEECCCCCCCccChh--hhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCCcCCH-----HHhCC
Confidence            45789999999999988753  233 68999999999999999998889999999999999888988764     23455


Q ss_pred             ccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCc----cccCCccEEeeccccCcccccchhhh
Q 000945          853 LTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSS----ASFKNLTTLELWYCQRLMNLVTSSTA  928 (1212)
Q Consensus       853 l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~----~~l~~L~~L~l~~c~~l~~l~~~~~~  928 (1212)
                      +++|+.|+++++. +..+   .+..+..+++|+.|++++| .++.+|...    ..+++|+.|+++++ .++.+|.. .+
T Consensus       111 l~~L~~L~L~~N~-i~~~---~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~~~~l~~L~~L~L~~N-~l~~l~~~-~~  183 (361)
T 2xot_A          111 LQALEVLLLYNNH-IVVV---DRNAFEDMAQLQKLYLSQN-QISRFPVELIKDGNKLPKLMLLDLSSN-KLKKLPLT-DL  183 (361)
T ss_dssp             CTTCCEEECCSSC-CCEE---CTTTTTTCTTCCEEECCSS-CCCSCCGGGTC----CTTCCEEECCSS-CCCCCCHH-HH
T ss_pred             CcCCCEEECCCCc-ccEE---CHHHhCCcccCCEEECCCC-cCCeeCHHHhcCcccCCcCCEEECCCC-CCCccCHH-Hh
Confidence            8999999999865 3433   3567788999999999986 566787764    46899999999995 78888643 34


Q ss_pred             ccccc--ccEEEecCcc
Q 000945          929 KSLVC--LTKLRIDGCR  943 (1212)
Q Consensus       929 ~~l~~--L~~L~i~~c~  943 (1212)
                      ..++.  |+.|++++++
T Consensus       184 ~~l~~~~l~~l~l~~N~  200 (361)
T 2xot_A          184 QKLPAWVKNGLYLHNNP  200 (361)
T ss_dssp             HHSCHHHHTTEECCSSC
T ss_pred             hhccHhhcceEEecCCC
Confidence            55555  4889998865

>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=98.99  E-value=1.2e-09  Score=115.11  Aligned_cols=132  Identities=19%  Similarity=0.160  Sum_probs=70.7

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+..+.+  ..+..+++|++|++++|.+..+|...+..+++|+.|+++.|.++.+++           
T Consensus        39 ~~~L~~L~Ls~n~i~~~~~--~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~-----------  105 (229)
T 3e6j_A           39 PTNAQILYLHDNQITKLEP--GVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPS-----------  105 (229)
T ss_dssp             CTTCSEEECCSSCCCCCCT--TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT-----------
T ss_pred             CCCCCEEEcCCCccCccCH--HHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCccCh-----------
Confidence            3556666666666665543  223345566666666665655555555555555555555444443332           


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                                            ..+..+++|+.|++++| .++.+|..+..+++|+.|+++++ .++.++. ..+..+++
T Consensus       106 ----------------------~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~  160 (229)
T 3e6j_A          106 ----------------------AVFDRLVHLKELFMCCN-KLTELPRGIERLTHLTHLALDQN-QLKSIPH-GAFDRLSS  160 (229)
T ss_dssp             ----------------------TTTTTCTTCCEEECCSS-CCCSCCTTGGGCTTCSEEECCSS-CCCCCCT-TTTTTCTT
T ss_pred             ----------------------hHhCcchhhCeEeccCC-cccccCcccccCCCCCEEECCCC-cCCccCH-HHHhCCCC
Confidence                                  22344555555555553 23455555555666666666653 4555543 33455566


Q ss_pred             ccEEEecCcc
Q 000945          934 LTKLRIDGCR  943 (1212)
Q Consensus       934 L~~L~i~~c~  943 (1212)
                      |+.|++++++
T Consensus       161 L~~L~l~~N~  170 (229)
T 3e6j_A          161 LTHAYLFGNP  170 (229)
T ss_dssp             CCEEECTTSC
T ss_pred             CCEEEeeCCC
Confidence            6666666554

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.96  E-value=1.4e-09  Score=117.12  Aligned_cols=144  Identities=19%  Similarity=0.200  Sum_probs=73.9

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+..+.    ....+++|+.|++++|.+..+++  +..+++|+.|+++.|.++.+++..        .
T Consensus        40 l~~L~~L~l~~n~i~~l~----~l~~l~~L~~L~L~~N~i~~~~~--l~~l~~L~~L~L~~N~l~~l~~~~--------~  105 (263)
T 1xeu_A           40 LSGVQNFNGDNSNIQSLA----GMQFFTNLKELHLSHNQISDLSP--LKDLTKLEELSVNRNRLKNLNGIP--------S  105 (263)
T ss_dssp             HTTCSEEECTTSCCCCCT----TGGGCTTCCEEECCSSCCCCCGG--GTTCSSCCEEECCSSCCSCCTTCC--------C
T ss_pred             cCcCcEEECcCCCcccch----HHhhCCCCCEEECCCCccCCChh--hccCCCCCEEECCCCccCCcCccc--------c
Confidence            455666666666555542    23345566666666666665554  555666666666655555443211        1


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++++|. +..+     ..+..+++|+.|++++|. ++.++ .+..+++|+.|++++| .++.+   ..+..+++
T Consensus       106 ~~L~~L~L~~N~-l~~~-----~~l~~l~~L~~L~Ls~N~-i~~~~-~l~~l~~L~~L~L~~N-~i~~~---~~l~~l~~  173 (263)
T 1xeu_A          106 ACLSRLFLDNNE-LRDT-----DSLIHLKNLEILSIRNNK-LKSIV-MLGFLSKLEVLDLHGN-EITNT---GGLTRLKK  173 (263)
T ss_dssp             SSCCEEECCSSC-CSBS-----GGGTTCTTCCEEECTTSC-CCBCG-GGGGCTTCCEEECTTS-CCCBC---TTSTTCCC
T ss_pred             CcccEEEccCCc-cCCC-----hhhcCcccccEEECCCCc-CCCCh-HHccCCCCCEEECCCC-cCcch---HHhccCCC
Confidence            555566655542 3322     234455555555555543 33343 3445555555555553 34443   23344555


Q ss_pred             ccEEEecCcc
Q 000945          934 LTKLRIDGCR  943 (1212)
Q Consensus       934 L~~L~i~~c~  943 (1212)
                      |+.|++++|+
T Consensus       174 L~~L~l~~N~  183 (263)
T 1xeu_A          174 VNWIDLTGQK  183 (263)
T ss_dssp             CCEEEEEEEE
T ss_pred             CCEEeCCCCc
Confidence            5555555544

>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=98.95  E-value=1.9e-09  Score=112.58  Aligned_cols=132  Identities=16%  Similarity=0.167  Sum_probs=65.7

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      ++|+.|++++|.+..+.+  ..+..+++|+.|++++|.+..+++..|.++++|+.|+|+.|.++.+++            
T Consensus        32 ~~l~~L~l~~n~i~~i~~--~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~------------   97 (220)
T 2v9t_B           32 ETITEIRLEQNTIKVIPP--GAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPK------------   97 (220)
T ss_dssp             TTCCEEECCSSCCCEECT--TSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCCCCCT------------
T ss_pred             cCCCEEECCCCcCCCcCH--hHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCCccCH------------
Confidence            355555555555555442  122344555555555555555544445555555555555444443322            


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccc
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCL  934 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L  934 (1212)
                                           ..+..+++|+.|++++|..-.-.|..+..+++|+.|+++++ .++.++. ..+..+++|
T Consensus        98 ---------------------~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~L  154 (220)
T 2v9t_B           98 ---------------------SLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDN-KLQTIAK-GTFSPLRAI  154 (220)
T ss_dssp             ---------------------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCSCCCT-TTTTTCTTC
T ss_pred             ---------------------hHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCC-cCCEECH-HHHhCCCCC
Confidence                                 22344555555555554322222334455566666666663 4555542 233455666


Q ss_pred             cEEEecCcc
Q 000945          935 TKLRIDGCR  943 (1212)
Q Consensus       935 ~~L~i~~c~  943 (1212)
                      +.|++++++
T Consensus       155 ~~L~L~~N~  163 (220)
T 2v9t_B          155 QTMHLAQNP  163 (220)
T ss_dssp             CEEECCSSC
T ss_pred             CEEEeCCCC
Confidence            666666654

>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=98.95  E-value=2.2e-09  Score=112.19  Aligned_cols=66  Identities=12%  Similarity=0.206  Sum_probs=36.4

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEec
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIF  841 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~  841 (1212)
                      +.++.|++++|.+..+.+. ..+..+++|++|++++|.+..++...+..+++|+.|+++.|.++.++
T Consensus        32 ~~~~~L~L~~N~l~~~~~~-~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~   97 (220)
T 2v70_A           32 QYTAELRLNNNEFTVLEAT-GIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQ   97 (220)
T ss_dssp             TTCSEEECCSSCCCEECCC-CCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCCCC
T ss_pred             CCCCEEEcCCCcCCccCch-hhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCccCccC
Confidence            3456666666666655321 11334556666666666666665555556666666666655554443

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.95  E-value=8.5e-10  Score=125.56  Aligned_cols=245  Identities=13%  Similarity=0.044  Sum_probs=129.0

Q ss_pred             cceeeeccCCcccccc-----HHHHhhc-ccccccccCCCCCcccchhHhhcc-----ccCceeecCCCcceeeeecccc
Q 000945          266 KLEILSLVDSNIEQLP-----EEMAQLT-QLRLFDLSGCSKLKVIPPNLLSGL-----SRLEDLYMGNTSVKWEFEGLNV  334 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp-----~~i~~L~-~L~~L~Ls~~~~l~~lp~~~i~~L-----~~L~~L~l~~~~~~w~~~~~~~  334 (1212)
                      .|+.|++++|.+...+     ..+..+. +|++|++++| .+...+...+..+     .+|++|++++|.+.....    
T Consensus        23 ~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~----   97 (362)
T 3goz_A           23 GVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGN-SLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSS----   97 (362)
T ss_dssp             TCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSS-CGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCH----
T ss_pred             CceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCC-CCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHH----
Confidence            3666666666666554     4455565 6666677666 5655544444444     666666666666541111    


Q ss_pred             CCCccchhhhhcC-CCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHH---
Q 000945          335 GRSNASLQELKLL-SHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQ---  410 (1212)
Q Consensus       335 ~~~~~~~~~L~~l-~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~---  410 (1212)
                         ......+..+ .+|+.|+++.|.+...+..                                       .+...   
T Consensus        98 ---~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~---------------------------------------~l~~~l~~  135 (362)
T 3goz_A           98 ---DELVKTLAAIPFTITVLDLGWNDFSSKSSS---------------------------------------EFKQAFSN  135 (362)
T ss_dssp             ---HHHHHHHHTSCTTCCEEECCSSCGGGSCHH---------------------------------------HHHHHHTT
T ss_pred             ---HHHHHHHHhCCCCccEEECcCCcCCcHHHH---------------------------------------HHHHHHHh
Confidence               1111223344 5666666666655433221                                       11111   


Q ss_pred             -hccceEEEeccCCCcc----cccccCCcccc-CCCcEEEeecCCCceeeecCcchhccccc-cccceeeccccccccee
Q 000945          411 -LKGIEELYLDEVPGIK----NVLYDLDIEGF-LQLKHLHVQNNPFILFIVDSMAWVRYNAF-LLLESLVLHNLIHLEKI  483 (1212)
Q Consensus       411 -l~~l~~L~l~~~~~~~----~~~~~l~~~~l-~~L~~L~l~~~~~~~~l~~~~~~~~~~~~-~~L~~L~L~~~~~l~~i  483 (1212)
                       ...++.|.+.++.-..    .+...+.  .+ ++|++|++++|. +..............+ ++|+.|+++++. +...
T Consensus       136 ~~~~L~~L~Ls~N~l~~~~~~~l~~~l~--~~~~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-i~~~  211 (362)
T 3goz_A          136 LPASITSLNLRGNDLGIKSSDELIQILA--AIPANVNSLNLRGNN-LASKNCAELAKFLASIPASVTSLDLSANL-LGLK  211 (362)
T ss_dssp             SCTTCCEEECTTSCGGGSCHHHHHHHHH--TSCTTCCEEECTTSC-GGGSCHHHHHHHHHTSCTTCCEEECTTSC-GGGS
T ss_pred             CCCceeEEEccCCcCCHHHHHHHHHHHh--cCCccccEeeecCCC-CchhhHHHHHHHHHhCCCCCCEEECCCCC-CChh
Confidence             1356666665443221    1111111  33 389999999883 2221110000112334 589999999874 3321


Q ss_pred             ec--ccCCccc-cCCccEEEEecCCCCCccCc---hhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceeccc
Q 000945          484 CL--GQLRAES-FYKLKIIKVRNCDKLKNIFS---FSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQ  557 (1212)
Q Consensus       484 ~~--~~~~~~~-l~~L~~L~L~~c~~l~~l~~---~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~  557 (1212)
                      ..  .+..+.. .++|++|+|++| .+...+.   ...+..+++|++|++++|. +..+..-+    .......+..+++
T Consensus       212 ~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~~~~l~~L~~L~L~~n~-l~~i~~~~----~~~l~~~~~~l~~  285 (362)
T 3goz_A          212 SYAELAYIFSSIPNHVVSLNLCLN-CLHGPSLENLKLLKDSLKHLQTVYLDYDI-VKNMSKEQ----CKALGAAFPNIQK  285 (362)
T ss_dssp             CHHHHHHHHHHSCTTCCEEECCSS-CCCCCCHHHHHHTTTTTTTCSEEEEEHHH-HTTCCHHH----HHHHHTTSTTCCE
T ss_pred             HHHHHHHHHhcCCCCceEEECcCC-CCCcHHHHHHHHHHhcCCCccEEEeccCC-ccccCHHH----HHHHHHHhccCCc
Confidence            10  1222333 358999999985 6766543   1234678999999999986 22211100    0000014556788


Q ss_pred             ccEEecccCC
Q 000945          558 LHSLTLKFLP  567 (1212)
Q Consensus       558 L~~L~l~~~~  567 (1212)
                      |+.|++++.+
T Consensus       286 L~~LdL~~N~  295 (362)
T 3goz_A          286 IILVDKNGKE  295 (362)
T ss_dssp             EEEECTTSCB
T ss_pred             eEEEecCCCc
Confidence            8899988754

>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=98.95  E-value=2e-09  Score=113.31  Aligned_cols=107  Identities=21%  Similarity=0.098  Sum_probs=76.7

Q ss_pred             ccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhccc
Q 000945          853 LTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSL  931 (1212)
Q Consensus       853 l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l  931 (1212)
                      +++|+.|+++++. +..++   +..+..+++|+.|++++| .++.+|+. +..+++|+.|+++++ .++.+|  ..+..+
T Consensus        63 l~~L~~L~L~~N~-l~~i~---~~~~~~l~~L~~L~Ls~N-~l~~l~~~~~~~l~~L~~L~Ls~N-~l~~lp--~~~~~l  134 (229)
T 3e6j_A           63 LINLKELYLGSNQ-LGALP---VGVFDSLTQLTVLDLGTN-QLTVLPSAVFDRLVHLKELFMCCN-KLTELP--RGIERL  134 (229)
T ss_dssp             CTTCCEEECCSSC-CCCCC---TTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCSCC--TTGGGC
T ss_pred             ccCCcEEECCCCC-CCCcC---hhhcccCCCcCEEECCCC-cCCccChhHhCcchhhCeEeccCC-cccccC--cccccC
Confidence            4555555555533 23331   234567888999999987 56667665 578999999999995 788887  455889


Q ss_pred             ccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCC
Q 000945          932 VCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLE  974 (1212)
Q Consensus       932 ~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~  974 (1212)
                      ++|+.|++++|. +..++..      ....+++|+.|++.+++
T Consensus       135 ~~L~~L~L~~N~-l~~~~~~------~~~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A          135 THLTHLALDQNQ-LKSIPHG------AFDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             TTCSEEECCSSC-CCCCCTT------TTTTCTTCCEEECTTSC
T ss_pred             CCCCEEECCCCc-CCccCHH------HHhCCCCCCEEEeeCCC
Confidence            999999999986 6666531      23457899999999886

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.93  E-value=1e-09  Score=113.82  Aligned_cols=155  Identities=14%  Similarity=0.068  Sum_probs=121.6

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|++|++++|.+..+.+  .....+++|++|++++|.+..+|...+..+++|+.|+++.|.++.+++.     .+..+
T Consensus        27 ~~~l~~L~l~~n~l~~~~~--~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~-----~~~~l   99 (208)
T 2o6s_A           27 PAQTTYLDLETNSLKSLPN--GVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNG-----VFDKL   99 (208)
T ss_dssp             CTTCSEEECCSSCCCCCCT--TTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT-----TTTTC
T ss_pred             CCCCcEEEcCCCccCcCCh--hhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHh-----HhcCc
Confidence            5689999999999987764  2345789999999999999999998889999999999998888876542     23458


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhcccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      ++|+.|+++++. +..+   .+..+..+++|++|++++|. ++.+|+. +..+++|+.|++++++-.         ..++
T Consensus       100 ~~L~~L~L~~N~-l~~~---~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~~---------~~~~  165 (208)
T 2o6s_A          100 TQLKELALNTNQ-LQSL---PDGVFDKLTQLKDLRLYQNQ-LKSVPDGVFDRLTSLQYIWLHDNPWD---------CTCP  165 (208)
T ss_dssp             TTCCEEECCSSC-CCCC---CTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSCCBC---------CCTT
T ss_pred             cCCCEEEcCCCc-Cccc---CHhHhccCCcCCEEECCCCc-cceeCHHHhccCCCccEEEecCCCee---------cCCC
Confidence            999999999864 4444   23446789999999999974 5566654 678999999999997422         3456


Q ss_pred             cccEEEecCcchhhHhh
Q 000945          933 CLTKLRIDGCRMLTEII  949 (1212)
Q Consensus       933 ~L~~L~i~~c~~l~~~~  949 (1212)
                      .|+.|+++.+..-..+|
T Consensus       166 ~l~~L~~~~n~~~g~ip  182 (208)
T 2o6s_A          166 GIRYLSEWINKHSGVVR  182 (208)
T ss_dssp             TTHHHHHHHHHCTTTBB
T ss_pred             CHHHHHHHHHhCCceee
Confidence            68888888776555555

>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=98.93  E-value=2.2e-09  Score=112.11  Aligned_cols=150  Identities=17%  Similarity=0.159  Sum_probs=117.4

Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccc-hHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFR-IGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p-~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      +.++++++.+..++.     .....++.|++++|.+..++ ...+..+++|+.|+++.|.++.+++     ..+..+++|
T Consensus        14 ~~l~~s~n~l~~iP~-----~~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~-----~~~~~l~~L   83 (220)
T 2v70_A           14 TTVDCSNQKLNKIPE-----HIPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEE-----GAFEGASGV   83 (220)
T ss_dssp             TEEECCSSCCSSCCS-----CCCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECT-----TTTTTCTTC
T ss_pred             CEeEeCCCCcccCcc-----CCCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECH-----HHhCCCCCC
Confidence            478888888887653     22456799999999999884 4668899999999999888988764     234558999


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccE
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTK  936 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~  936 (1212)
                      +.|+++++. +..+   .+..+..+++|++|++++|......|..+..+++|+.|++++| .++.+++ ..+..+++|+.
T Consensus        84 ~~L~Ls~N~-l~~~---~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~L~~  157 (220)
T 2v70_A           84 NEILLTSNR-LENV---QHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDN-QITTVAP-GAFDTLHSLST  157 (220)
T ss_dssp             CEEECCSSC-CCCC---CGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTS-CCCCBCT-TTTTTCTTCCE
T ss_pred             CEEECCCCc-cCcc---CHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCC-cCCEECH-HHhcCCCCCCE
Confidence            999999864 4443   2345778999999999997655545667788999999999995 7877743 45678899999


Q ss_pred             EEecCcc
Q 000945          937 LRIDGCR  943 (1212)
Q Consensus       937 L~i~~c~  943 (1212)
                      |++++++
T Consensus       158 L~L~~N~  164 (220)
T 2v70_A          158 LNLLANP  164 (220)
T ss_dssp             EECCSCC
T ss_pred             EEecCcC
Confidence            9999887

>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=98.93  E-value=3.8e-11  Score=143.90  Aligned_cols=156  Identities=19%  Similarity=0.153  Sum_probs=93.2

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCC-------------ccccchHHHhhcCccceeE-EEccceeE
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDE-------------SENFRIGFLERFHNLEKLE-LRWSSYKE  839 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~-------------~~~~p~~~l~~l~~L~~L~-l~c~~l~~  839 (1212)
                      .++|+.|++++|.+..++   .....+++|+.|+++++.             ....++..+.++++|+.|+ ++++.+..
T Consensus       348 ~~~L~~L~Ls~n~L~~Lp---~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~~~~  424 (567)
T 1dce_A          348 DEQLFRCELSVEKSTVLQ---SELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDD  424 (567)
T ss_dssp             TTTSSSCCCCHHHHHHHH---HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHH
T ss_pred             CccceeccCChhhHHhhH---HHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcccch
Confidence            567777888888887775   344567788888876542             2334445577888888887 44554433


Q ss_pred             eccccchhhccc--cccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeecccc
Q 000945          840 IFSNEEIVEHAE--MLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQ  917 (1212)
Q Consensus       840 ~~~~~~~~~~~~--~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~  917 (1212)
                      +....-....+.  ....|+.|+++++ .+..+    |. ++.+++|+.|++++|. ++.+|..++.+++|+.|++++| 
T Consensus       425 L~~l~l~~n~i~~l~~~~L~~L~Ls~n-~l~~l----p~-~~~l~~L~~L~Ls~N~-l~~lp~~~~~l~~L~~L~Ls~N-  496 (567)
T 1dce_A          425 LRSKFLLENSVLKMEYADVRVLHLAHK-DLTVL----CH-LEQLLLVTHLDLSHNR-LRALPPALAALRCLEVLQASDN-  496 (567)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSEEECTTS-CCSSC----CC-GGGGTTCCEEECCSSC-CCCCCGGGGGCTTCCEEECCSS-
T ss_pred             hhhhhhhcccccccCccCceEEEecCC-CCCCC----cC-ccccccCcEeecCccc-ccccchhhhcCCCCCEEECCCC-
Confidence            221100000000  0235667777765 34444    33 6667777777777653 4467766677777777777764 


Q ss_pred             CcccccchhhhcccccccEEEecCcc
Q 000945          918 RLMNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       918 ~l~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      .++.+|   .+..+++|+.|++++|.
T Consensus       497 ~l~~lp---~l~~l~~L~~L~Ls~N~  519 (567)
T 1dce_A          497 ALENVD---GVANLPRLQELLLCNNR  519 (567)
T ss_dssp             CCCCCG---GGTTCSSCCEEECCSSC
T ss_pred             CCCCCc---ccCCCCCCcEEECCCCC
Confidence            566654   34566677777776664

>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=98.92  E-value=3e-09  Score=111.05  Aligned_cols=90  Identities=17%  Similarity=0.081  Sum_probs=68.7

Q ss_pred             CCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCc
Q 000945          875 SKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEE  953 (1212)
Q Consensus       875 ~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~  953 (1212)
                      +..+..+++|++|++++| .++.+|+. +..+++|+.|+++++ .++.+++ ..+..+++|+.|++++|. +..++..  
T Consensus        73 ~~~~~~l~~L~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~L~~L~L~~N~-l~~~~~~--  146 (220)
T 2v9t_B           73 PDAFQGLRSLNSLVLYGN-KITELPKSLFEGLFSLQLLLLNAN-KINCLRV-DAFQDLHNLNLLSLYDNK-LQTIAKG--  146 (220)
T ss_dssp             TTTTTTCSSCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT-TTTTTCTTCCEEECCSSC-CSCCCTT--
T ss_pred             HHHhhCCcCCCEEECCCC-cCCccCHhHccCCCCCCEEECCCC-CCCEeCH-HHcCCCCCCCEEECCCCc-CCEECHH--
Confidence            445667788899999886 45677765 467999999999995 7887754 456788999999999987 5555521  


Q ss_pred             cccccceeccchhhhhhccCC
Q 000945          954 DVAEDEIVFSKLKWVSLERLE  974 (1212)
Q Consensus       954 ~~~~~~~~l~~L~~L~l~~~~  974 (1212)
                          ....+++|+.|++.+++
T Consensus       147 ----~~~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B          147 ----TFSPLRAIQTMHLAQNP  163 (220)
T ss_dssp             ----TTTTCTTCCEEECCSSC
T ss_pred             ----HHhCCCCCCEEEeCCCC
Confidence                23447889999999876

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.91  E-value=5.3e-10  Score=120.46  Aligned_cols=144  Identities=18%  Similarity=0.167  Sum_probs=100.7

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +.++..++++++.+..+.    ....+++|+.|+++++.+..+|  .+..+++|+.|+++.|.++.+++       +..+
T Consensus        18 l~~l~~l~l~~~~i~~~~----~~~~l~~L~~L~l~~n~i~~l~--~l~~l~~L~~L~L~~N~i~~~~~-------l~~l   84 (263)
T 1xeu_A           18 LANAVKQNLGKQSVTDLV----SQKELSGVQNFNGDNSNIQSLA--GMQFFTNLKELHLSHNQISDLSP-------LKDL   84 (263)
T ss_dssp             HHHHHHHHHTCSCTTSEE----CHHHHTTCSEEECTTSCCCCCT--TGGGCTTCCEEECCSSCCCCCGG-------GTTC
T ss_pred             HHHHHHHHhcCCCccccc----chhhcCcCcEEECcCCCcccch--HHhhCCCCCEEECCCCccCCChh-------hccC
Confidence            456777778777777664    3456788888888888888887  37788888888888777776654       3347


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++++|. +..++     .+.. ++|+.|++++| .++.++ .+..+++|+.|++++| .++.++   .+..+++
T Consensus        85 ~~L~~L~L~~N~-l~~l~-----~~~~-~~L~~L~L~~N-~l~~~~-~l~~l~~L~~L~Ls~N-~i~~~~---~l~~l~~  151 (263)
T 1xeu_A           85 TKLEELSVNRNR-LKNLN-----GIPS-ACLSRLFLDNN-ELRDTD-SLIHLKNLEILSIRNN-KLKSIV---MLGFLSK  151 (263)
T ss_dssp             SSCCEEECCSSC-CSCCT-----TCCC-SSCCEEECCSS-CCSBSG-GGTTCTTCCEEECTTS-CCCBCG---GGGGCTT
T ss_pred             CCCCEEECCCCc-cCCcC-----cccc-CcccEEEccCC-ccCCCh-hhcCcccccEEECCCC-cCCCCh---HHccCCC
Confidence            888888888764 44442     1222 77888888876 445554 3667788888888875 576663   3566777


Q ss_pred             ccEEEecCcc
Q 000945          934 LTKLRIDGCR  943 (1212)
Q Consensus       934 L~~L~i~~c~  943 (1212)
                      |+.|++++|.
T Consensus       152 L~~L~L~~N~  161 (263)
T 1xeu_A          152 LEVLDLHGNE  161 (263)
T ss_dssp             CCEEECTTSC
T ss_pred             CCEEECCCCc
Confidence            8888887775

>1cc8_A Protein (metallochaperone ATX1); copper transport, mercury coordination, metal transport; 1.02A {Saccharomyces cerevisiae} SCOP: d.58.17.1 PDB: 1cc7_A 1fd8_A 1fes_A 2ggp_A 3k7r_A

Probab=98.91  E-value=5.4e-09  Score=87.03  Aligned_cols=68  Identities=9%  Similarity=0.028  Sum_probs=63.9

Q ss_pred             cceEEEEEEEecchhHHHHHHhHhccCC-CeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEEe
Q 000945         1115 TKQKAVLKLEIHGEKARQKAFSIVSKFT-GVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVS 1182 (1212)
Q Consensus      1115 ~~~~~~~~v~~~c~~c~~~~~~~~~~~~-gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~~ 1182 (1212)
                      ||++++++|+|+|++|+.++.+++.+++ ||.++.+|...++++|.+.+++.++.+.+++.|+.+..+.
T Consensus         3 ~m~~~~~~v~m~C~~C~~~ie~~l~~~~~GV~~~~v~~~~~~~~v~~~~~~~~i~~~i~~~Gy~~~~~~   71 (73)
T 1cc8_A            3 EIKHYQFNVVMTCSGCSGAVNKVLTKLEPDVSKIDISLEKQLVDVYTTLPYDFILEKIKKTGKEVRSGK   71 (73)
T ss_dssp             CCEEEEEEECCCSHHHHHHHHHHHHTTTTSEEEEEEETTTTEEEEEESSCHHHHHHHHHTTSSCEEEEE
T ss_pred             CceEEEEEEeeECHHHHHHHHHHHHhCCCCceEEEEECCCCEEEEEEeCCHHHHHHHHHHhCCCceeee
Confidence            4678899999999999999999999999 9999999999999999999999999999999999887764

>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=98.90  E-value=3.1e-10  Score=136.05  Aligned_cols=89  Identities=19%  Similarity=0.202  Sum_probs=60.3

Q ss_pred             ccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCCCCCccC-chh
Q 000945          436 GFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIF-SFS  514 (1212)
Q Consensus       436 ~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l~-~~~  514 (1212)
                      .+++|+.|++++|. +..+|..     ...+++|+.|+|+++ .++.   .| .++.+++|++|+|++ +.++.++ + .
T Consensus       461 ~l~~L~~L~Ls~N~-l~~lp~~-----~~~l~~L~~L~Ls~N-~l~~---lp-~l~~l~~L~~L~Ls~-N~l~~~~~p-~  527 (567)
T 1dce_A          461 QLLLVTHLDLSHNR-LRALPPA-----LAALRCLEVLQASDN-ALEN---VD-GVANLPRLQELLLCN-NRLQQSAAI-Q  527 (567)
T ss_dssp             GGTTCCEEECCSSC-CCCCCGG-----GGGCTTCCEEECCSS-CCCC---CG-GGTTCSSCCEEECCS-SCCCSSSTT-G
T ss_pred             ccccCcEeecCccc-ccccchh-----hhcCCCCCEEECCCC-CCCC---Cc-ccCCCCCCcEEECCC-CCCCCCCCc-H
Confidence            67788888888773 3344432     456778888888776 3333   24 577788888888887 4677763 2 4


Q ss_pred             hhccCCCccEEEEccCcCcchhhc
Q 000945          515 FVRGLPQLQTLNVINCKNMKEIFT  538 (1212)
Q Consensus       515 ~~~~L~~L~~L~l~~c~~l~~l~~  538 (1212)
                      .+..+++|++|+++++. +..+|.
T Consensus       528 ~l~~l~~L~~L~L~~N~-l~~~~~  550 (567)
T 1dce_A          528 PLVSCPRLVLLNLQGNS-LCQEEG  550 (567)
T ss_dssp             GGGGCTTCCEEECTTSG-GGGSSS
T ss_pred             HHhcCCCCCEEEecCCc-CCCCcc
Confidence            57788888888888866 555543

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.87  E-value=2.1e-09  Score=122.14  Aligned_cols=156  Identities=18%  Similarity=0.120  Sum_probs=118.2

Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccchHHHh-hcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLE-RFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~-~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      +.++++++++..++.     .....++.|+|++|.+..++...+. .+++|+.|+|+.|.++.+++     ..+..+++|
T Consensus        21 ~~l~c~~~~l~~iP~-----~~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~-----~~~~~l~~L   90 (361)
T 2xot_A           21 NILSCSKQQLPNVPQ-----SLPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISS-----EAFVPVPNL   90 (361)
T ss_dssp             TEEECCSSCCSSCCS-----SCCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECT-----TTTTTCTTC
T ss_pred             CEEEeCCCCcCccCc-----cCCCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccCh-----hhccCCCCC
Confidence            467777777777653     2245689999999999999988777 89999999999888988764     234558999


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhh--cccccc
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTA--KSLVCL  934 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~--~~l~~L  934 (1212)
                      +.|+++++. +..++   +..+..+++|+.|++++|....-.|..+..+++|+.|++++| .++.+|...+.  ..+++|
T Consensus        91 ~~L~Ls~N~-l~~~~---~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~~~~l~~L  165 (361)
T 2xot_A           91 RYLDLSSNH-LHTLD---EFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQN-QISRFPVELIKDGNKLPKL  165 (361)
T ss_dssp             CEEECCSSC-CCEEC---TTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCSCCGGGTC----CTTC
T ss_pred             CEEECCCCc-CCcCC---HHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCC-cCCeeCHHHhcCcccCCcC
Confidence            999999864 55552   445778899999999997654444566788999999999995 78888643221  568899


Q ss_pred             cEEEecCcchhhHhh
Q 000945          935 TKLRIDGCRMLTEII  949 (1212)
Q Consensus       935 ~~L~i~~c~~l~~~~  949 (1212)
                      +.|+++++. +..++
T Consensus       166 ~~L~L~~N~-l~~l~  179 (361)
T 2xot_A          166 MLLDLSSNK-LKKLP  179 (361)
T ss_dssp             CEEECCSSC-CCCCC
T ss_pred             CEEECCCCC-CCccC
Confidence            999999886 54444

>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=98.83  E-value=2.9e-09  Score=106.15  Aligned_cols=61  Identities=26%  Similarity=0.254  Sum_probs=26.9

Q ss_pred             cCcccEEEEecCCCccccc--CCccccCCccEEeeccccCcccccc--hhhhcccccccEEEecCcc
Q 000945          881 TENLESLEVWWCENLINLV--PSSASFKNLTTLELWYCQRLMNLVT--SSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       881 l~~L~~L~l~~c~~l~~lp--~~~~~l~~L~~L~l~~c~~l~~l~~--~~~~~~l~~L~~L~i~~c~  943 (1212)
                      +++|++|++++| .++.+|  ..+..+++|+.|++++| .++.++.  ...+..+++|+.|++++|.
T Consensus        94 l~~L~~L~Ls~N-~l~~~~~~~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~~n~  158 (168)
T 2ell_A           94 LPNLTHLNLSGN-KLKDISTLEPLKKLECLKSLDLFNC-EVTNLNDYRESVFKLLPQLTYLDGYDRE  158 (168)
T ss_dssp             CTTCCEEECBSS-SCCSSGGGGGGSSCSCCCEEECCSS-GGGTSTTHHHHHHTTCSSCCEETTEETT
T ss_pred             CCCCCEEeccCC-ccCcchhHHHHhcCCCCCEEEeeCC-cCcchHHHHHHHHHhCccCcEecCCCCC
Confidence            444444554444 233332  23344555555555553 3444332  1133444555555555543

>2crl_A Copper chaperone for superoxide dismutase; SOD1, familial ALS, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.81  E-value=3.6e-08  Score=86.94  Aligned_cols=72  Identities=13%  Similarity=0.114  Sum_probs=66.0

Q ss_pred             cceEEEEEEEecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEEecCCC
Q 000945         1115 TKQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSIGPA 1186 (1212)
Q Consensus      1115 ~~~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~~~~~~ 1186 (1212)
                      ++++++++|.|+|.+|+.++.+++.+++||.++.+|...++++|.+.+++.++.+.+++.++.+.++..+++
T Consensus        17 ~~~~~~l~V~m~C~~C~~~Ie~aL~~l~GV~~v~vdl~~~~~~V~~~~~~~~i~~~i~~~Gy~~~~~~~~~~   88 (98)
T 2crl_A           17 TLCTLEFAVQMTCQSCVDAVRKSLQGVAGVQDVEVHLEDQMVLVHTTLPSQEVQALLEGTGRQAVLKGMGSG   88 (98)
T ss_dssp             CCEEEEEEECCCSHHHHHHHHHTTTTCTTCCEEEEETTTTEEEEEESSCHHHHHHHHHTTTSCEEEEESCCC
T ss_pred             cceEEEEEEeeECHHHHHHHHHHHHcCCCceEEEEECCCCEEEEEEeCCHHHHHHHHHHhCCceEEccCCCC
Confidence            356788999999999999999999999999999999999999999999999999999999999988865544

>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=98.78  E-value=6.5e-09  Score=103.53  Aligned_cols=135  Identities=24%  Similarity=0.155  Sum_probs=105.4

Q ss_pred             cccceeeeecccccc--ccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccc
Q 000945          774 TSKLEELKLSGKDIA--MICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAE  851 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~--~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~  851 (1212)
                      +++|+.|++++|.+.  .++   .....+++|+.|++++|.+..+  ..+..+++|+.|+++.|.+...++     ..+.
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~---~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~-----~~~~   92 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIE---GLTAEFVNLEFLSLINVGLISV--SNLPKLPKLKKLELSENRIFGGLD-----MLAE   92 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCS---SCCGGGGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESCCCCSCCC-----HHHH
T ss_pred             cccCCEEECCCCCCChhhHH---HHHHhCCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCCcCchHHH-----HHHh
Confidence            688999999999988  553   2346789999999999988887  448889999999999877876432     2234


Q ss_pred             cccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccC----CccccCCccEEeeccccCccccc
Q 000945          852 MLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVP----SSASFKNLTTLELWYCQRLMNLV  923 (1212)
Q Consensus       852 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~----~~~~l~~L~~L~l~~c~~l~~l~  923 (1212)
                      .+++|+.|++++|. +..++.  +..+..+++|+.|++++|. ++.+|+    .+..+++|+.|++++| .+..+|
T Consensus        93 ~l~~L~~L~Ls~N~-l~~~~~--~~~l~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~l~~L~~L~l~~n-~~~~~~  163 (168)
T 2ell_A           93 KLPNLTHLNLSGNK-LKDIST--LEPLKKLECLKSLDLFNCE-VTNLNDYRESVFKLLPQLTYLDGYDR-EDQEAP  163 (168)
T ss_dssp             HCTTCCEEECBSSS-CCSSGG--GGGGSSCSCCCEEECCSSG-GGTSTTHHHHHHTTCSSCCEETTEET-TSCBCC
T ss_pred             hCCCCCEEeccCCc-cCcchh--HHHHhcCCCCCEEEeeCCc-CcchHHHHHHHHHhCccCcEecCCCC-Chhhcc
Confidence            48999999999974 555421  2567789999999999974 556665    5778999999999997 455554

>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=98.73  E-value=2.5e-08  Score=111.67  Aligned_cols=101  Identities=16%  Similarity=-0.002  Sum_probs=56.1

Q ss_pred             cCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCccc-EEEEecCCCcccccC-C
Q 000945          824 FHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLE-SLEVWWCENLINLVP-S  901 (1212)
Q Consensus       824 l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~-~L~l~~c~~l~~lp~-~  901 (1212)
                      +++|+.|+|+.|+++.++.     ..+..+++|++|++.+.  +..++   ...+.++++|+ .+++.+  .++.+++ .
T Consensus       225 ~~~L~~l~L~~n~i~~I~~-----~aF~~~~~L~~l~l~~n--i~~I~---~~aF~~~~~L~~~l~l~~--~l~~I~~~a  292 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPD-----FTFAQKKYLLKIKLPHN--LKTIG---QRVFSNCGRLAGTLELPA--SVTAIEFGA  292 (329)
T ss_dssp             CTTCCEEECTTBCCCEECT-----TTTTTCTTCCEEECCTT--CCEEC---TTTTTTCTTCCEEEEECT--TCCEECTTT
T ss_pred             cCCCeEEECCCCCcceecH-----hhhhCCCCCCEEECCcc--cceeh---HHHhhCChhccEEEEEcc--cceEEchhh
Confidence            5556666665444555442     22334556666666552  44442   34455666666 666665  5555543 3


Q ss_pred             ccccCCccEEeeccccCcccccchhhhcccccccEEE
Q 000945          902 SASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLR  938 (1212)
Q Consensus       902 ~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~  938 (1212)
                      +..+++|+.|++++ ++++.++. ..+.++++|+.++
T Consensus       293 F~~c~~L~~l~l~~-n~i~~I~~-~aF~~~~~L~~ly  327 (329)
T 3sb4_A          293 FMGCDNLRYVLATG-DKITTLGD-ELFGNGVPSKLIY  327 (329)
T ss_dssp             TTTCTTEEEEEECS-SCCCEECT-TTTCTTCCCCEEE
T ss_pred             hhCCccCCEEEeCC-CccCccch-hhhcCCcchhhhc
Confidence            45567777777755 36666643 3445666777665

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.69  E-value=8.5e-09  Score=100.28  Aligned_cols=127  Identities=24%  Similarity=0.247  Sum_probs=67.7

Q ss_pred             cccceeeeecccccc--ccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccc
Q 000945          774 TSKLEELKLSGKDIA--MICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAE  851 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~--~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~  851 (1212)
                      +++|+.|++++|.+.  .++   .....+++|+.|++++|.+..+  ..+..+++|+.|+++.|.++..           
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~---~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~-----------   79 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLE---GLTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVSGG-----------   79 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCC---SCCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCCSC-----------
T ss_pred             CccCeEEEccCCcCChhHHH---HHHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCcccch-----------
Confidence            456777777776665  332   1223455666666666555554  2244555555555554444331           


Q ss_pred             cccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCccccc--CCccccCCccEEeeccccCcccccc--hhh
Q 000945          852 MLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLV--PSSASFKNLTTLELWYCQRLMNLVT--SST  927 (1212)
Q Consensus       852 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp--~~~~~l~~L~~L~l~~c~~l~~l~~--~~~  927 (1212)
                                        +    |..+..+++|++|++++|. ++.+|  ..+..+++|+.|++++| .++.++.  ...
T Consensus        80 ------------------~----~~~~~~l~~L~~L~ls~N~-i~~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~  135 (149)
T 2je0_A           80 ------------------L----EVLAEKCPNLTHLNLSGNK-IKDLSTIEPLKKLENLKSLDLFNC-EVTNLNDYRENV  135 (149)
T ss_dssp             ------------------T----HHHHHHCTTCCEEECTTSC-CCSHHHHGGGGGCTTCCEEECTTC-GGGGSTTHHHHH
T ss_pred             ------------------H----HHHhhhCCCCCEEECCCCc-CCChHHHHHHhhCCCCCEEeCcCC-cccchHHHHHHH
Confidence                              1    2223345556666665543 33332  44566677777777765 4555543  134


Q ss_pred             hcccccccEEEec
Q 000945          928 AKSLVCLTKLRID  940 (1212)
Q Consensus       928 ~~~l~~L~~L~i~  940 (1212)
                      +..+++|+.|+++
T Consensus       136 ~~~l~~L~~L~l~  148 (149)
T 2je0_A          136 FKLLPQLTYLDGY  148 (149)
T ss_dssp             HHHCTTCCEETTB
T ss_pred             HHHCCCcccccCC
Confidence            5666777777664

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.69  E-value=4e-09  Score=130.74  Aligned_cols=106  Identities=16%  Similarity=0.034  Sum_probs=62.7

Q ss_pred             cccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCC
Q 000945          798 HIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKL  877 (1212)
Q Consensus       798 ~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~  877 (1212)
                      ..+++|+.|+|++|.+..+|... ..+++|+.|+|+.|.++.++.      .+..+++|+.|+|++|. +..+    |..
T Consensus       221 ~~l~~L~~L~Ls~n~l~~l~~~~-~~l~~L~~L~Ls~N~l~~lp~------~~~~l~~L~~L~Ls~N~-l~~l----p~~  288 (727)
T 4b8c_D          221 YDDQLWHALDLSNLQIFNISANI-FKYDFLTRLYLNGNSLTELPA------EIKNLSNLRVLDLSHNR-LTSL----PAE  288 (727)
T ss_dssp             -CCCCCCEEECTTSCCSCCCGGG-GGCCSCSCCBCTTSCCSCCCG------GGGGGTTCCEEECTTSC-CSSC----CSS
T ss_pred             ccCCCCcEEECCCCCCCCCChhh-cCCCCCCEEEeeCCcCcccCh------hhhCCCCCCEEeCcCCc-CCcc----Chh
Confidence            34566677777776666666653 366666666666556654432      23345666666666653 3333    455


Q ss_pred             ccccCcccEEEEecCCCcccccCCccccCCccEEeeccc
Q 000945          878 DSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYC  916 (1212)
Q Consensus       878 ~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c  916 (1212)
                      +..+++|++|++++| .++.+|..++.+++|+.|+|++|
T Consensus       289 ~~~l~~L~~L~L~~N-~l~~lp~~~~~l~~L~~L~L~~N  326 (727)
T 4b8c_D          289 LGSCFQLKYFYFFDN-MVTTLPWEFGNLCNLQFLGVEGN  326 (727)
T ss_dssp             GGGGTTCSEEECCSS-CCCCCCSSTTSCTTCCCEECTTS
T ss_pred             hcCCCCCCEEECCCC-CCCccChhhhcCCCccEEeCCCC
Confidence            566666666666665 34566666666666666666664

>4a4j_A Pacszia, cation-transporting ATPase PACS; hydrolase, copper homeostasis, zinc homeostasis, ATX1, metal-transporting atpases; 1.25A {Synechocystis} PDB: 4a48_A 2gcf_A 2xmw_A

Probab=98.67  E-value=5.6e-08  Score=79.79  Aligned_cols=64  Identities=16%  Similarity=0.171  Sum_probs=59.9

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEE--EecCHHHHHHHHHhhcCceEE
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVI--GDIDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~--g~~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      |++.++|. |+|.+|+.++.+++.+++||..+.+|...++++|.  +.+++.++.+.+++.|+.+++
T Consensus         2 ~~~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~i~~~i~~~Gy~~~~   68 (69)
T 4a4j_A            2 QTINLQLEGMDCTSCASSIERAIAKVPGVQSCQVNFALEQAVVSYHGETTPQILTDAVERAGYHARV   68 (69)
T ss_dssp             EEEEEEEESCCSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEECTTCCHHHHHHHHHHTTCEEEE
T ss_pred             CEEEEEECCeecHHHHHHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCHHHHHHHHHHcCCceEe
Confidence            67889998 99999999999999999999999999999999998  669999999999999988765

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.67  E-value=9.2e-09  Score=100.06  Aligned_cols=109  Identities=19%  Similarity=0.139  Sum_probs=76.9

Q ss_pred             ccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccc
Q 000945          853 LTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLV  932 (1212)
Q Consensus       853 l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~  932 (1212)
                      +++|+.|++++|. +..+     ..+..+++|++|++++|.....+|..+..+++|+.|++++| .++.++....+..++
T Consensus        41 l~~L~~L~l~~n~-l~~~-----~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~N-~i~~~~~~~~~~~l~  113 (149)
T 2je0_A           41 FEELEFLSTINVG-LTSI-----ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGN-KIKDLSTIEPLKKLE  113 (149)
T ss_dssp             CTTCCEEECTTSC-CCCC-----TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTTS-CCCSHHHHGGGGGCT
T ss_pred             cCCCcEEECcCCC-CCCc-----hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECCCC-cCCChHHHHHHhhCC
Confidence            5566666666652 3332     34567889999999988765557776677999999999996 587765446678899


Q ss_pred             cccEEEecCcchhhHhhccCccccccceeccchhhhhhcc
Q 000945          933 CLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLER  972 (1212)
Q Consensus       933 ~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~  972 (1212)
                      +|+.|++++|. +..++...   ......+++|+.|++++
T Consensus       114 ~L~~L~l~~N~-l~~~~~~~---~~~~~~l~~L~~L~l~d  149 (149)
T 2je0_A          114 NLKSLDLFNCE-VTNLNDYR---ENVFKLLPQLTYLDGYD  149 (149)
T ss_dssp             TCCEEECTTCG-GGGSTTHH---HHHHHHCTTCCEETTBC
T ss_pred             CCCEEeCcCCc-ccchHHHH---HHHHHHCCCcccccCCC
Confidence            99999999996 55554200   00234578898888763

>3dxs_X Copper-transporting ATPase RAN1; CXXC motif, ferredoxin-like fold, ATP- binding, ethylene signaling pathway, hydrolase, ION transport; 1.70A {Arabidopsis thaliana} SCOP: d.58.17.0

Probab=98.63  E-value=1.2e-07  Score=79.00  Aligned_cols=67  Identities=9%  Similarity=0.128  Sum_probs=61.9

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEEe
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELVS 1182 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~~ 1182 (1212)
                      |+++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+   +++.++.+++++.|+.+++++
T Consensus         1 M~~~~~~v~gm~C~~C~~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~~   71 (74)
T 3dxs_X            1 MRKIQVGVTGMTCAACSNSVEAALMNVNGVFKASVALLQNRADVVFDPNLVKEEDIKEEIEDAGFEAEILA   71 (74)
T ss_dssp             CEEEEEEEECCCSHHHHHHHHHHHHTSTTEEEEEEEGGGTEEEEEECTTTCCHHHHHHHHHHHTCEEEEEE
T ss_pred             CcEEEEEECCcCCHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHCCCceEEcc
Confidence            578899997 9999999999999999999999999999999999765   689999999999999988774

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.59  E-value=2.1e-08  Score=124.18  Aligned_cols=156  Identities=15%  Similarity=0.044  Sum_probs=93.1

Q ss_pred             ccceeeeeccccccccccccCcccccccceEe-----EeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNL-----EVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEH  849 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L-----~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~  849 (1212)
                      +.++.|+|.++.+......   ......|..+     +++.|.+. +++..+..+++|+.|+|+.|.+..+++.      
T Consensus       173 ~~~~~l~L~~n~~~~~~~~---~l~~l~Ls~~~i~~~~~~~n~~~-~~~~~~~~l~~L~~L~Ls~n~l~~l~~~------  242 (727)
T 4b8c_D          173 PLTPKIELFANGKDEANQA---LLQHKKLSQYSIDEDDDIENRMV-MPKDSKYDDQLWHALDLSNLQIFNISAN------  242 (727)
T ss_dssp             -----------------------------------------------------CCCCCCEEECTTSCCSCCCGG------
T ss_pred             CccceEEeeCCCCCcchhh---HhhcCccCcccccCcccccccee-cChhhhccCCCCcEEECCCCCCCCCChh------
Confidence            4566777766666554321   1111222222     22233344 4556688999999999998778766532      


Q ss_pred             cccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhc
Q 000945          850 AEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAK  929 (1212)
Q Consensus       850 ~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~  929 (1212)
                      +..+++|+.|+|++|. +..+    |..+..+++|+.|++++|. ++.+|..++.+++|++|+|++| .++.+|.  .+.
T Consensus       243 ~~~l~~L~~L~Ls~N~-l~~l----p~~~~~l~~L~~L~Ls~N~-l~~lp~~~~~l~~L~~L~L~~N-~l~~lp~--~~~  313 (727)
T 4b8c_D          243 IFKYDFLTRLYLNGNS-LTEL----PAEIKNLSNLRVLDLSHNR-LTSLPAELGSCFQLKYFYFFDN-MVTTLPW--EFG  313 (727)
T ss_dssp             GGGCCSCSCCBCTTSC-CSCC----CGGGGGGTTCCEEECTTSC-CSSCCSSGGGGTTCSEEECCSS-CCCCCCS--STT
T ss_pred             hcCCCCCCEEEeeCCc-Cccc----ChhhhCCCCCCEEeCcCCc-CCccChhhcCCCCCCEEECCCC-CCCccCh--hhh
Confidence            3358999999999974 5555    6778999999999999976 5589999999999999999996 7888874  478


Q ss_pred             ccccccEEEecCcchhhHhh
Q 000945          930 SLVCLTKLRIDGCRMLTEII  949 (1212)
Q Consensus       930 ~l~~L~~L~i~~c~~l~~~~  949 (1212)
                      .+++|+.|++++|.....+|
T Consensus       314 ~l~~L~~L~L~~N~l~~~~p  333 (727)
T 4b8c_D          314 NLCNLQFLGVEGNPLEKQFL  333 (727)
T ss_dssp             SCTTCCCEECTTSCCCSHHH
T ss_pred             cCCCccEEeCCCCccCCCCh
Confidence            99999999999998444444

>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=98.59  E-value=7.7e-08  Score=97.89  Aligned_cols=125  Identities=20%  Similarity=0.196  Sum_probs=75.6

Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccchH-HHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIG-FLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~-~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      +.++++++.+..++.     ....+|+.|++++|.+..++.. .+..+++|+.|+++.|.++.+.+     ..+..+++|
T Consensus        11 ~~l~~s~~~l~~ip~-----~~~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-----~~~~~l~~L   80 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPR-----DIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEP-----NAFEGASHI   80 (192)
T ss_dssp             TEEECTTSCCSSCCS-----CCCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCT-----TTTTTCTTC
T ss_pred             CEEEcCCCCcCcCcc-----CCCCCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCH-----hHcCCcccC
Confidence            566777777766542     1233777888888777777653 46777777777777666665543     223345666


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccc
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYC  916 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c  916 (1212)
                      +.|+++++. +..+   .+..+..+++|++|++++|...+..|..+..+++|+.|+++++
T Consensus        81 ~~L~Ls~N~-l~~~---~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (192)
T 1w8a_A           81 QELQLGENK-IKEI---SNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             CEEECCSCC-CCEE---CSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             CEEECCCCc-CCcc---CHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCC
Confidence            777766643 3332   2334556666666666665444444555556666666666664

>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=98.59  E-value=6.4e-08  Score=108.32  Aligned_cols=227  Identities=13%  Similarity=0.058  Sum_probs=123.3

Q ss_pred             cccceeeeeccccccc--ccc----------------ccCcccc--------cccceEeEeecCCccccchHHHhhcCcc
Q 000945          774 TSKLEELKLSGKDIAM--ICQ----------------SQFPKHI--------FRNLKNLEVVNDESENFRIGFLERFHNL  827 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~--l~~----------------~~~~~~~--------~~~L~~L~l~~~~~~~~p~~~l~~l~~L  827 (1212)
                      +++|+.|+|++|.+..  ...                ....+.+        +++|+.|+|.+ .+..++...|.++++|
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L~~-~i~~I~~~aF~~~~~L  126 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVILSE-KIKNIEDAAFKGCDNL  126 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CBCT-TCCEECTTTTTTCTTC
T ss_pred             hccCeEEecCcceeEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEECCc-cccchhHHHhhcCccc
Confidence            5678888888887771  110                0112234        67888888887 7777888888888888


Q ss_pred             ceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCccc----------------------
Q 000945          828 EKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLE----------------------  885 (1212)
Q Consensus       828 ~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~----------------------  885 (1212)
                      +.|++..|.+..+.+.     .+..+.++..+.............-....+..+.+|+                      
T Consensus       127 ~~l~l~~n~i~~i~~~-----aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~~~~~  201 (329)
T 3sb4_A          127 KICQIRKKTAPNLLPE-----ALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMKAGLQP  201 (329)
T ss_dssp             CEEEBCCSSCCEECTT-----SSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEEEEECTTCCHHHHHHHTTCCG
T ss_pred             ceEEcCCCCccccchh-----hhcCCCceEEecCcchhhhhccccccccccccccccceeEEecCCCcHHHHHhhcccCc
Confidence            8888886666555431     2222333444433221000000000011122222333                      


Q ss_pred             ----EEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCcccccccee
Q 000945          886 ----SLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDEIV  961 (1212)
Q Consensus       886 ----~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~  961 (1212)
                          .+.+.+.-....+..-...+++|+.|++.++ +++.++. ..+..+++|+.|++.++  +..++.      .....
T Consensus       202 ~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n-~i~~I~~-~aF~~~~~L~~l~l~~n--i~~I~~------~aF~~  271 (329)
T 3sb4_A          202 RDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKT-NATTIPD-FTFAQKKYLLKIKLPHN--LKTIGQ------RVFSN  271 (329)
T ss_dssp             GGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTB-CCCEECT-TTTTTCTTCCEEECCTT--CCEECT------TTTTT
T ss_pred             cccceEEEeeeecHHHHHHHHHhcCCCeEEECCCC-CcceecH-hhhhCCCCCCEEECCcc--cceehH------HHhhC
Confidence                3333321100000000012677888888774 5777754 34567788888888764  555442      12334


Q ss_pred             ccchh-hhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCc-CCcCCCccceEEe
Q 000945          962 FSKLK-WVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSH-RVLSTPRLREVRQ 1020 (1212)
Q Consensus       962 l~~L~-~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~-~~~~~~~L~~l~~ 1020 (1212)
                      +++|+ .+.+.+  +++.++..... .|++|+.+++.+ ..++.++. .+.+|++|+.++.
T Consensus       272 ~~~L~~~l~l~~--~l~~I~~~aF~-~c~~L~~l~l~~-n~i~~I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          272 CGRLAGTLELPA--SVTAIEFGAFM-GCDNLRYVLATG-DKITTLGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             CTTCCEEEEECT--TCCEECTTTTT-TCTTEEEEEECS-SCCCEECTTTTCTTCCCCEEEC
T ss_pred             ChhccEEEEEcc--cceEEchhhhh-CCccCCEEEeCC-CccCccchhhhcCCcchhhhcc
Confidence            56666 666665  56777665543 467888888754 35666665 3466788887763

>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=98.59  E-value=3.4e-08  Score=99.05  Aligned_cols=64  Identities=19%  Similarity=0.108  Sum_probs=40.6

Q ss_pred             cccCcccEEEEecCCCcccccC--CccccCCccEEeeccccCcccccch--hhhcccccccEEEecCcch
Q 000945          879 SITENLESLEVWWCENLINLVP--SSASFKNLTTLELWYCQRLMNLVTS--STAKSLVCLTKLRIDGCRM  944 (1212)
Q Consensus       879 ~~l~~L~~L~l~~c~~l~~lp~--~~~~l~~L~~L~l~~c~~l~~l~~~--~~~~~l~~L~~L~i~~c~~  944 (1212)
                      ..+++|++|++++|. ++.+|.  .+..+++|+.|++++| .+..+|..  ..+..+++|+.|++++|..
T Consensus        85 ~~l~~L~~L~L~~N~-i~~~~~~~~l~~l~~L~~L~l~~N-~i~~~~~~~~~~~~~l~~L~~Ld~~~n~~  152 (176)
T 1a9n_A           85 QALPDLTELILTNNS-LVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDFQKVKL  152 (176)
T ss_dssp             HHCTTCCEEECCSCC-CCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETTEECCH
T ss_pred             hcCCCCCEEECCCCc-CCcchhhHhhhcCCCCCEEEecCC-CCCCcHhHHHHHHHHCCccceeCCCcCCH
Confidence            456666666666653 355554  4566777777777775 45555421  1356778888888887763

>3fry_A Probable copper-exporting P-type ATPase A; transport protein, metal binding domain, domain SWAP, ATP-BI cell membrane, copper transport; HET: CIT; 2.00A {Archaeoglobus fulgidus}

Probab=98.57  E-value=8.7e-08  Score=79.53  Aligned_cols=66  Identities=14%  Similarity=0.135  Sum_probs=61.3

Q ss_pred             cceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEEe
Q 000945         1115 TKQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVS 1182 (1212)
Q Consensus      1115 ~~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~~ 1182 (1212)
                      +|++++++|. |+|.+|+.++.+++.+ +||..+.+|...++++|.++ ++.++.+.+++.|+.+.+.+
T Consensus         3 ~m~~~~~~v~gm~C~~C~~~ie~~l~~-~gv~~~~v~~~~~~~~v~~~-~~~~i~~~i~~~Gy~~~~~~   69 (73)
T 3fry_A            3 SVEKIVLELSGLSCHHCVARVKKALEE-AGAKVEKVDLNEAVVAGNKE-DVDKYIKAVEAAGYQAKLRS   69 (73)
T ss_dssp             CCEEEEEEEESSBCGGGHHHHHHHHHH-TTCEEEEECSSEEEEEEEGG-GHHHHHHHHHHTTCEEEECC
T ss_pred             ccEEEEEEECCCCCHHHHHHHHHHhcc-CCcEEEEEEccCCEEEEEEC-CHHHHHHHHHHcCCceEecC
Confidence            5788999998 9999999999999999 99999999999999999999 99999999999998877654

>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=98.54  E-value=1e-07  Score=95.47  Aligned_cols=129  Identities=15%  Similarity=0.096  Sum_probs=64.0

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+..+.   ......++|++|++++|.+..++  .+..+++|+.|+++.|.++.+++.     .+..+
T Consensus        18 ~~~L~~L~l~~n~l~~i~---~~~~~~~~L~~L~Ls~N~l~~~~--~l~~l~~L~~L~Ls~N~l~~~~~~-----~~~~l   87 (176)
T 1a9n_A           18 AVRDRELDLRGYKIPVIE---NLGATLDQFDAIDFSDNEIRKLD--GFPLLRRLKTLLVNNNRICRIGEG-----LDQAL   87 (176)
T ss_dssp             TTSCEEEECTTSCCCSCC---CGGGGTTCCSEEECCSSCCCEEC--CCCCCSSCCEEECCSSCCCEECSC-----HHHHC
T ss_pred             cCCceEEEeeCCCCchhH---HhhhcCCCCCEEECCCCCCCccc--ccccCCCCCEEECCCCcccccCcc-----hhhcC
Confidence            556666666666665542   11112235666666665555552  255555666666665555554321     11235


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC----ccccCCccEEeeccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS----SASFKNLTTLELWYC  916 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~----~~~l~~L~~L~l~~c  916 (1212)
                      ++|+.|+++++. +..++.  ...+..+++|+.|++++|+ ++.+|..    +..+++|+.|+++++
T Consensus        88 ~~L~~L~L~~N~-i~~~~~--~~~l~~l~~L~~L~l~~N~-i~~~~~~~~~~~~~l~~L~~Ld~~~n  150 (176)
T 1a9n_A           88 PDLTELILTNNS-LVELGD--LDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDFQKV  150 (176)
T ss_dssp             TTCCEEECCSCC-CCCGGG--GGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETTEEC
T ss_pred             CCCCEEECCCCc-CCcchh--hHhhhcCCCCCEEEecCCC-CCCcHhHHHHHHHHCCccceeCCCcC
Confidence            556666665543 233311  1134455566666666543 2344442    445556666665554

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.51  E-value=2.5e-07  Score=93.97  Aligned_cols=122  Identities=15%  Similarity=0.118  Sum_probs=66.9

Q ss_pred             eeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccc
Q 000945          778 EELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVK  857 (1212)
Q Consensus       778 ~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~  857 (1212)
                      +.++++++.+..++.     ...++|+.|++++|.+..+|. .+..+++|+.|+++.|.++.+++     ..+..+++|+
T Consensus        13 ~~l~~~~~~l~~ip~-----~~~~~l~~L~L~~n~i~~ip~-~~~~l~~L~~L~Ls~N~i~~i~~-----~~f~~l~~L~   81 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPK-----GIPRDVTELYLDGNQFTLVPK-ELSNYKHLTLIDLSNNRISTLSN-----QSFSNMTQLL   81 (193)
T ss_dssp             TEEECTTSCCSSCCS-----CCCTTCCEEECCSSCCCSCCG-GGGGCTTCCEEECCSSCCCCCCT-----TTTTTCTTCC
T ss_pred             CEEEcCCCCCCcCCC-----CCCCCCCEEECCCCcCchhHH-HhhcccCCCEEECCCCcCCEeCH-----hHccCCCCCC
Confidence            456677777776642     123578888888888888874 47777888888877666665543     1223355555


Q ss_pred             eEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeecc
Q 000945          858 SLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWY  915 (1212)
Q Consensus       858 ~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~  915 (1212)
                      .|+++++. +..+   .+..+..+++|+.|++++|. ++.+|+. +..+++|+.|++++
T Consensus        82 ~L~Ls~N~-l~~i---~~~~f~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~  135 (193)
T 2wfh_A           82 TLILSYNR-LRCI---PPRTFDGLKSLRLLSLHGND-ISVVPEGAFNDLSALSHLAIGA  135 (193)
T ss_dssp             EEECCSSC-CCBC---CTTTTTTCTTCCEEECCSSC-CCBCCTTTTTTCTTCCEEECCS
T ss_pred             EEECCCCc-cCEe---CHHHhCCCCCCCEEECCCCC-CCeeChhhhhcCccccEEEeCC
Confidence            55555532 2222   12234444555555555432 3333332 33344444444444

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.46  E-value=3.2e-07  Score=92.02  Aligned_cols=125  Identities=17%  Similarity=0.167  Sum_probs=65.5

Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      .+.++++++.+..++.     ...++|+.|++++|.+..+|...+..+++|+.|+++.|.++.+++.     .+..+++|
T Consensus         9 ~~~l~~~~~~l~~~p~-----~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-----~~~~l~~L   78 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPT-----GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDG-----VFDKLTKL   78 (177)
T ss_dssp             TTEEECCSSCCSSCCT-----TCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTT-----TTTTCTTC
T ss_pred             CCEEEecCCCCccCCC-----CCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChh-----HccCCCcc
Confidence            3456666666665542     2235777777777777777776667777777777776666554321     12234555


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCc-cccCCccEEeeccc
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSS-ASFKNLTTLELWYC  916 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~-~~l~~L~~L~l~~c  916 (1212)
                      +.|+++++. +..++   +..+..+++|++|++++| .++.+|+.. ..+++|+.|+++++
T Consensus        79 ~~L~l~~N~-l~~~~---~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N  134 (177)
T 2o6r_A           79 TILYLHENK-LQSLP---NGVFDKLTQLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTN  134 (177)
T ss_dssp             CEEECCSSC-CCCCC---TTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEECCCCC-ccccC---HHHhhCCcccCEEECcCC-cceEeCHHHhcCCcccCEEEecCC
Confidence            555555532 22221   122344455555555544 233444332 33444555555443

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.45  E-value=4.2e-07  Score=105.54  Aligned_cols=113  Identities=21%  Similarity=0.201  Sum_probs=81.2

Q ss_pred             ccccchHHHHHHHHHHh-C----C--CCceEEEE--EecCCCchhHHHHHHHHHhhhc---CCCCE-EEEEEecCCCCHH
Q 000945          149 EAFESRKSILNDALDAL-S----N--PNVNVIGL--CGLGGIGKTTLAKIVFYQAKKL---KLCDE-VVFVEVSQTPDVK  215 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L-~----~--~~~~vi~I--~GmgGiGKTTLA~~vyn~~~v~---~~F~~-~~wv~vs~~~~~~  215 (1212)
                      ..++||+.+++.+.+++ .    .  .....+-|  +|++|+||||||+.+++.....   ..|+. .+|+.+....+..
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY  101 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHH
Confidence            46899999999999888 3    1  23344545  9999999999999999976521   12332 4677666778899


Q ss_pred             HHHHHHHHHhcCccc--CCChhHHHHHHHHHHH-cCCcEE-EecCccccc
Q 000945          216 RIQGDIADQLGLYIC--EGSESERAMVLCGLLK-KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       216 ~l~~~il~~l~~~~~--~~~~~~~~~~l~~~L~-~~kr~L-VLDDVw~~~  261 (1212)
                      .+.+.|+.+++....  ..+..+....+.+.+. .+++++ |+||+|...
T Consensus       102 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~  151 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSML  151 (412)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHH
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHh
Confidence            999999999876532  2234455666776665 246888 999998753

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.42  E-value=7.7e-06  Score=93.29  Aligned_cols=127  Identities=9%  Similarity=0.007  Sum_probs=75.7

Q ss_pred             ccceEeEeecCCccccchHHHhhcCccceeEEEcccee-----EeccccchhhccccccccceEeeCCCccchhhhccCC
Q 000945          801 RNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYK-----EIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDS  875 (1212)
Q Consensus       801 ~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~-----~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~  875 (1212)
                      .+|+.+.+ .+.+..++...|.++++|+.+++..+.+.     .+..     ..+..+++|+.+.+.+  ++..+.   .
T Consensus       248 ~~L~~i~l-p~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~-----~aF~~c~~L~~l~l~~--~i~~I~---~  316 (401)
T 4fdw_A          248 SGITTVKL-PNGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHP-----YCLEGCPKLARFEIPE--SIRILG---Q  316 (401)
T ss_dssp             CCCSEEEE-ETTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECT-----TTTTTCTTCCEECCCT--TCCEEC---T
T ss_pred             CCccEEEe-CCCccEEChhHhhCCCCCCEEEeCCccccCCcccEECH-----HHhhCCccCCeEEeCC--ceEEEh---h
Confidence            45666666 33455666666777777777777643332     2221     3345567777777763  345552   3


Q ss_pred             CCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhcccccccEEEecCc
Q 000945          876 KLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGC  942 (1212)
Q Consensus       876 ~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c  942 (1212)
                      ..+.++++|+.+.+..  +++.++.. +..+ +|+.+++.++ .+..++...+.+.-..++.|++-..
T Consensus       317 ~aF~~c~~L~~l~lp~--~l~~I~~~aF~~~-~L~~l~l~~n-~~~~l~~~~F~~~~~~l~~l~vp~~  380 (401)
T 4fdw_A          317 GLLGGNRKVTQLTIPA--NVTQINFSAFNNT-GIKEVKVEGT-TPPQVFEKVWYGFPDDITVIRVPAE  380 (401)
T ss_dssp             TTTTTCCSCCEEEECT--TCCEECTTSSSSS-CCCEEEECCS-SCCBCCCSSCCCSCTTCCEEEECGG
T ss_pred             hhhcCCCCccEEEECc--cccEEcHHhCCCC-CCCEEEEcCC-CCcccccccccCCCCCccEEEeCHH
Confidence            4566778888888854  36666543 3455 8888888874 5555544333222246788888654

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.41  E-value=4e-07  Score=91.28  Aligned_cols=112  Identities=15%  Similarity=0.113  Sum_probs=90.3

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+..+.+  .....+++|++|++++|.+..+|...+..+++|+.|+++.|.++.+++.     .+..+
T Consensus        27 ~~~l~~L~l~~n~l~~~~~--~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~-----~~~~l   99 (177)
T 2o6r_A           27 PSSATRLELESNKLQSLPH--GVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNG-----VFDKL   99 (177)
T ss_dssp             CTTCSEEECCSSCCCCCCT--TTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT-----TTTTC
T ss_pred             CCCCcEEEeCCCcccEeCH--HHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccCHH-----HhhCC
Confidence            5789999999999987764  2345789999999999999999988889999999999998888877642     23457


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLI  896 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~  896 (1212)
                      ++|+.|+++++ .+..++   +..+..+++|++|++++|+...
T Consensus       100 ~~L~~L~l~~N-~l~~~~---~~~~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A          100 TQLKELALDTN-QLKSVP---DGIFDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             TTCCEEECCSS-CCSCCC---TTTTTTCTTCCEEECCSSCBCC
T ss_pred             cccCEEECcCC-cceEeC---HHHhcCCcccCEEEecCCCeec
Confidence            99999999987 355552   3345778999999999986543

>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=98.41  E-value=4e-07  Score=92.53  Aligned_cols=127  Identities=14%  Similarity=0.068  Sum_probs=97.3

Q ss_pred             eEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCc
Q 000945          804 KNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITEN  883 (1212)
Q Consensus       804 ~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~  883 (1212)
                      +.++++++.+..+|..+   ..+|+.|+++.|.++.+++..    .+..+++|+.|+++++. +..+   .+..+..+++
T Consensus        11 ~~l~~s~~~l~~ip~~~---~~~l~~L~l~~n~i~~~~~~~----~~~~l~~L~~L~Ls~N~-l~~~---~~~~~~~l~~   79 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDI---PLHTTELLLNDNELGRISSDG----LFGRLPHLVKLELKRNQ-LTGI---EPNAFEGASH   79 (192)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCSEEECCSCCCCSBCCSC----SGGGCTTCCEEECCSSC-CCCB---CTTTTTTCTT
T ss_pred             CEEEcCCCCcCcCccCC---CCCCCEEECCCCcCCccCCcc----ccccCCCCCEEECCCCC-CCCc---CHhHcCCccc
Confidence            67899999999999753   348999999988888776421    24458999999999864 3333   3567888999


Q ss_pred             ccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcc
Q 000945          884 LESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       884 L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  943 (1212)
                      |++|++++|......|..+..+++|+.|+++++ .++.+++ ..+..+++|+.|++++++
T Consensus        80 L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~L~~L~L~~N~  137 (192)
T 1w8a_A           80 IQELQLGENKIKEISNKMFLGLHQLKTLNLYDN-QISCVMP-GSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             CCEEECCSCCCCEECSSSSTTCTTCCEEECCSS-CCCEECT-TSSTTCTTCCEEECTTCC
T ss_pred             CCEEECCCCcCCccCHHHhcCCCCCCEEECCCC-cCCeeCH-HHhhcCCCCCEEEeCCCC
Confidence            999999997544434444778999999999995 6776643 455778899999999887

>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=98.40  E-value=5.3e-08  Score=99.84  Aligned_cols=109  Identities=19%  Similarity=0.229  Sum_probs=63.7

Q ss_pred             HhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccC
Q 000945          821 LERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVP  900 (1212)
Q Consensus       821 l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~  900 (1212)
                      +..+++|+.|+++.|.++.++       .+..+++|+.|++++|. +..+    |..+..+++|+.|++++| .++.+| 
T Consensus        44 ~~~l~~L~~L~ls~n~l~~l~-------~~~~l~~L~~L~l~~n~-l~~l----~~~~~~~~~L~~L~L~~N-~l~~l~-  109 (198)
T 1ds9_A           44 LSTLKACKHLALSTNNIEKIS-------SLSGMENLRILSLGRNL-IKKI----ENLDAVADTLEELWISYN-QIASLS-  109 (198)
T ss_dssp             HHHTTTCSEEECSEEEESCCC-------CHHHHTTCCEEEEEEEE-ECSC----SSHHHHHHHCSEEEEEEE-ECCCHH-
T ss_pred             HhcCCCCCEEECCCCCCcccc-------ccccCCCCCEEECCCCC-cccc----cchhhcCCcCCEEECcCC-cCCcCC-
Confidence            455555555555544444432       11224555555555542 3333    333445567777777776 444555 


Q ss_pred             CccccCCccEEeeccccCcccccchhhhcccccccEEEecCcch
Q 000945          901 SSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRM  944 (1212)
Q Consensus       901 ~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~  944 (1212)
                      .+..+++|+.|++++| .++.++....+..+++|+.|++++|+-
T Consensus       110 ~~~~l~~L~~L~l~~N-~i~~~~~~~~l~~l~~L~~L~l~~N~l  152 (198)
T 1ds9_A          110 GIEKLVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             HHHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSCHH
T ss_pred             ccccCCCCCEEECCCC-cCCchhHHHHHhcCCCCCEEEecCCcc
Confidence            4566778888888775 566655334566778888888888863

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.39  E-value=3.7e-07  Score=92.76  Aligned_cols=99  Identities=19%  Similarity=0.313  Sum_probs=86.6

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK  345 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~  345 (1212)
                      .++.|++++|.|..+|..+..+.+|++|++++| .+..++.+.|.++.+|++|++++|.+.           ......+.
T Consensus        32 ~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N-~i~~i~~~~f~~l~~L~~L~Ls~N~l~-----------~i~~~~f~   99 (193)
T 2wfh_A           32 DVTELYLDGNQFTLVPKELSNYKHLTLIDLSNN-RISTLSNQSFSNMTQLLTLILSYNRLR-----------CIPPRTFD   99 (193)
T ss_dssp             TCCEEECCSSCCCSCCGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC-----------BCCTTTTT
T ss_pred             CCCEEECCCCcCchhHHHhhcccCCCEEECCCC-cCCEeCHhHccCCCCCCEEECCCCccC-----------EeCHHHhC
Confidence            799999999999999999999999999999999 899999888999999999999999986           33345688


Q ss_pred             cCCCCCcceeeecccccCCCCc--ccccceEEe
Q 000945          346 LLSHLTTLEIQICDAMILPKGL--FSKKLERYK  376 (1212)
Q Consensus       346 ~l~~L~~L~l~~~~~~~~p~~~--~~~~L~~l~  376 (1212)
                      .+.+|+.|+++.|.+..+|.+.  .+.+++.+.
T Consensus       100 ~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~  132 (193)
T 2wfh_A          100 GLKSLRLLSLHGNDISVVPEGAFNDLSALSHLA  132 (193)
T ss_dssp             TCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEE
T ss_pred             CCCCCCEEECCCCCCCeeChhhhhcCccccEEE
Confidence            8999999999999999888864  456666654

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.34  E-value=2.5e-05  Score=88.98  Aligned_cols=60  Identities=12%  Similarity=0.089  Sum_probs=25.7

Q ss_pred             CccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhcccccccEEEecCc
Q 000945          877 LDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGC  942 (1212)
Q Consensus       877 ~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c  942 (1212)
                      .+..+++|+.+.+.+  .++.++.. +..+++|+.+.|..  +++.+... .+.++ +|+.+.+.++
T Consensus       295 aF~~c~~L~~l~l~~--~i~~I~~~aF~~c~~L~~l~lp~--~l~~I~~~-aF~~~-~L~~l~l~~n  355 (401)
T 4fdw_A          295 CLEGCPKLARFEIPE--SIRILGQGLLGGNRKVTQLTIPA--NVTQINFS-AFNNT-GIKEVKVEGT  355 (401)
T ss_dssp             TTTTCTTCCEECCCT--TCCEECTTTTTTCCSCCEEEECT--TCCEECTT-SSSSS-CCCEEEECCS
T ss_pred             HhhCCccCCeEEeCC--ceEEEhhhhhcCCCCccEEEECc--cccEEcHH-hCCCC-CCCEEEEcCC
Confidence            344445555555542  24444332 23345555555532  34444322 22333 5555555444

>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=98.32  E-value=3e-08  Score=101.73  Aligned_cols=126  Identities=21%  Similarity=0.110  Sum_probs=94.0

Q ss_pred             ccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCC
Q 000945          797 KHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSK  876 (1212)
Q Consensus       797 ~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~  876 (1212)
                      ...+++|++|++++|.+..+|  .+..+++|+.|+++.|.++.++.      .+..+++|+.|++++| .+..++     
T Consensus        44 ~~~l~~L~~L~ls~n~l~~l~--~~~~l~~L~~L~l~~n~l~~l~~------~~~~~~~L~~L~L~~N-~l~~l~-----  109 (198)
T 1ds9_A           44 LSTLKACKHLALSTNNIEKIS--SLSGMENLRILSLGRNLIKKIEN------LDAVADTLEELWISYN-QIASLS-----  109 (198)
T ss_dssp             HHHTTTCSEEECSEEEESCCC--CHHHHTTCCEEEEEEEEECSCSS------HHHHHHHCSEEEEEEE-ECCCHH-----
T ss_pred             HhcCCCCCEEECCCCCCcccc--ccccCCCCCEEECCCCCcccccc------hhhcCCcCCEEECcCC-cCCcCC-----
Confidence            456889999999998888888  48899999999999778876653      2234689999999987 355552     


Q ss_pred             CccccCcccEEEEecCCCcccccC--CccccCCccEEeeccccCcccccc---------hhhhcccccccEEE
Q 000945          877 LDSITENLESLEVWWCENLINLVP--SSASFKNLTTLELWYCQRLMNLVT---------SSTAKSLVCLTKLR  938 (1212)
Q Consensus       877 ~~~~l~~L~~L~l~~c~~l~~lp~--~~~~l~~L~~L~l~~c~~l~~l~~---------~~~~~~l~~L~~L~  938 (1212)
                      .+..+++|+.|++++|. ++.++.  .+..+++|+.|++++|+ +...++         ...+..+++|+.|+
T Consensus       110 ~~~~l~~L~~L~l~~N~-i~~~~~~~~l~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          110 GIEKLVNLRVLYMSNNK-ITNWGEIDKLAALDKLEDLLLAGNP-LYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             HHHHHHHSSEEEESEEE-CCCHHHHHHHTTTTTCSEEEECSCH-HHHHHHTTTTHHHHHHHHHHHCSSCSEEC
T ss_pred             ccccCCCCCEEECCCCc-CCchhHHHHHhcCCCCCEEEecCCc-cccccccccchHHHHHHHHHhCCCcEEEC
Confidence            46788999999999874 454443  56789999999999974 433321         12356677888776

>2xmw_A PACS-N, cation-transporting ATPase PACS; hydrolase, Cu(I)-binding, trafficking; 1.80A {Synechocystis SP} PDB: 2gcf_A

Probab=98.30  E-value=3.3e-06  Score=69.43  Aligned_cols=66  Identities=14%  Similarity=0.095  Sum_probs=57.7

Q ss_pred             cceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe--cCHHHHHHHHHhhcCceEE
Q 000945         1115 TKQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD--IDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1115 ~~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~--~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      |++++.++|. |+|++|+.++.+++.+++||.++.+|...++++|..+  +++..+.+.+++.|+.+..
T Consensus         1 m~~~~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~i~~~i~~~G~~~~~   69 (71)
T 2xmw_A            1 MAQTINLQLEGMRCAACASSIERAIAKVPGVQSCQVNFALEQAVVSYHGETTPQILTDAVERAGYHARV   69 (71)
T ss_dssp             -CEEEEEEEECCCSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEEC---CHHHHHHHHHHHTCEEEE
T ss_pred             CCcEEEEEECCcccHHHHHHHHHHHhcCCCeEEEEEEccCCEEEEEECCCCCHHHHHHHHHHcCCCcee
Confidence            5678889998 9999999999999999999999999999999999755  6788899999998886653

>2k2p_A Uncharacterized protein ATU1203; putative metal-binding domain ATU1203, ontario centre for ST proteomics, structural genomics; NMR {Agrobacterium tumefaciens str}

Probab=98.29  E-value=6.1e-07  Score=76.63  Aligned_cols=70  Identities=11%  Similarity=0.057  Sum_probs=58.0

Q ss_pred             cccccccceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCce
Q 000945         1109 SSCSTRTKQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCAT 1178 (1212)
Q Consensus      1109 ~~~~~~~~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~ 1178 (1212)
                      .+.....+++++++|. |+|..|+.++.+++.+++||.++.+|...++++|.+.+++.++.+.+++.|+.+
T Consensus        14 ~~~~~~~~~~~~l~V~Gm~C~~C~~~Ie~aL~~~~GV~~v~v~l~~~~~~V~~~~~~~~i~~~i~~~Gy~~   84 (85)
T 2k2p_A           14 RENLYFQGAGLSFHVEDMTCGHCAGVIKGAIEKTVPGAAVHADPASRTVVVGGVSDAAHIAEIITAAGYTP   84 (85)
T ss_dssp             --------CEEEEECTTCCHHHHHHHHHHHHHHHSTTCEEEEETTTTEEEEESCCCHHHHHHHHHHTTCCC
T ss_pred             cccccccccEEEEEECCCCCHHHHHHHHHHHhcCCCeeEEEEECCCCEEEEEecCCHHHHHHHHHHcCCCC
Confidence            3344445677889997 999999999999999999999999999999999999899999999999988754

>2roe_A Heavy metal binding protein; NMR {Thermus thermophilus} PDB: 2rog_A

Probab=98.27  E-value=8.1e-07  Score=71.95  Aligned_cols=61  Identities=18%  Similarity=0.243  Sum_probs=55.7

Q ss_pred             EEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEE
Q 000945         1120 VLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1120 ~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      .++|. |+|++|+.++.+++.+++||.++.+|...++++|.+.+++..+.+.+++.|+.+..
T Consensus         3 ~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~i~~~i~~~Gy~~~~   64 (66)
T 2roe_A            3 KLKVEGMTCNHCVMAVTKALKKVPGVEKVEVSLEKGEALVEGTADPKALVQAVEEEGYKAEV   64 (66)
T ss_dssp             CEEEECCCSHHHHHHHHHHHHTSTTCCCEEECSSSCBEEECSCCCHHHHHHHHHTTTCEEEE
T ss_pred             EEEECCeEcHHHHHHHHHHHHcCCCeEEEEEEeCCCEEEECCCCCHHHHHHHHHHcCCCcEe
Confidence            47787 99999999999999999999999999999999997779999999999998886654

>1qup_A Superoxide dismutase 1 copper chaperone; two domains, beta-alpha-beta-BETA-alpha-beta and beta barrel; 1.80A {Saccharomyces cerevisiae} SCOP: b.1.8.1 d.58.17.1

Probab=98.23  E-value=2.8e-06  Score=86.68  Aligned_cols=70  Identities=17%  Similarity=0.237  Sum_probs=63.6

Q ss_pred             ceEEEEEEEecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEEecCC
Q 000945         1116 KQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSIGP 1185 (1212)
Q Consensus      1116 ~~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~~~~~ 1185 (1212)
                      ..+++++|.|+|+.|+.++.+++.+++||.++.+|...++++|.+.+++.++.+++++.++.+.++..++
T Consensus         5 ~~~~~l~V~MtC~~Ca~~IekaL~~l~GV~~v~Vnl~~~~v~V~~~~~~~~I~~aI~~~Gy~a~~~~~~~   74 (222)
T 1qup_A            5 TYEATYAIPMHCENCVNDIKACLKNVPGINSLNFDIEQQIMSVESSVAPSTIINTLRNCGKDAIIRGAGK   74 (222)
T ss_dssp             CEEEEEECCCCSTTHHHHHHHHHTTCTTEEEEEEETTTTEEEEEESSCHHHHHHHHHHTTCCCEEECCSC
T ss_pred             ceEEEEEEccccHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEeccCCHHHHHHHHHHcCCccccccCCC
Confidence            3467788889999999999999999999999999999999999999999999999999999988875443

>2l3m_A Copper-ION-binding protein; structural genomics, center for structural genomics of infec diseases, csgid, metal binding protein; NMR {Bacillus anthracis}

Probab=98.21  E-value=3.6e-06  Score=69.20  Aligned_cols=63  Identities=16%  Similarity=0.153  Sum_probs=56.4

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCce
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCAT 1178 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~ 1178 (1212)
                      |+++.++|. |+|.+|+.++.+++.+++||..+.+|...++++|..+   +++..+.+.+++.|+.+
T Consensus         4 ~~~~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~   70 (71)
T 2l3m_A            4 MEQLTLQVEGMSCGHCVNAIESSVKELNGVEQVKVQLAEGTVEVTIDSSVVTLKDIVAVIEDQGYDV   70 (71)
T ss_dssp             EEEEEEEEECCCSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEEETTTSCHHHHHHHHHHTTCEE
T ss_pred             cEEEEEEECCccCHHHHHHHHHHHHcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCCC
Confidence            567889997 9999999999999999999999999999999999754   67888999999988754

>2xmm_A SSR2857 protein, ATX1; metal transport, copper homeostasis, chaperone, P-type atpas; 1.65A {Synechocystis SP} PDB: 2xmv_A 1sb6_A 2xmj_A 2xmk_A 2xmt_A 2xmu_A

Probab=98.20  E-value=1.3e-06  Score=70.18  Aligned_cols=60  Identities=12%  Similarity=0.099  Sum_probs=55.3

Q ss_pred             EEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCce
Q 000945         1119 AVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCAT 1178 (1212)
Q Consensus      1119 ~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~ 1178 (1212)
                      +.++|. |+|.+|+.++.+++.+++||.++.+|...++++|.+.+++..+.+.+++.|+.+
T Consensus         3 ~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~i~~~i~~~G~~~   63 (64)
T 2xmm_A            3 IQLTVPTIACEACAEAVTKAVQNEDAQATVQVDLTSKKVTITSALGEEQLRTAIASAGYEV   63 (64)
T ss_dssp             EEEECTTCCSHHHHHHHHHHHHHHCTTCEEEECTTTCEEEEECSSCHHHHHHHHHHTTCCC
T ss_pred             EEEEECCcCcHHHHHHHHHHHhcCCCcEEEEEEecCCEEEEEecCCHHHHHHHHHHcCCCC
Confidence            468886 999999999999999999999999999999999998899999999999988754

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.17  E-value=1.3e-06  Score=86.92  Aligned_cols=88  Identities=20%  Similarity=0.261  Sum_probs=54.9

Q ss_pred             cceeeeccCCccccc-cHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhh
Q 000945          266 KLEILSLVDSNIEQL-PEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL  344 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L  344 (1212)
                      .|++|++++|.|..+ |..|+.+.+|++|+|++| .+..+|.+++.++.+|++|++++|.+.           ......+
T Consensus        34 ~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L~~N~l~-----------~l~~~~~  101 (174)
T 2r9u_A           34 DKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSN-KLTAIPTGVFDKLTQLTQLDLNDNHLK-----------SIPRGAF  101 (174)
T ss_dssp             TCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC-----------CCCTTTT
T ss_pred             CCcEEEeCCCCccccCHHHhcCCcCCCEEECCCC-CCCccChhHhCCcchhhEEECCCCccc-----------eeCHHHh
Confidence            566677777776666 446666777777777777 666666665666777777777766664           1112235


Q ss_pred             hcCCCCCcceeeecccccCCC
Q 000945          345 KLLSHLTTLEIQICDAMILPK  365 (1212)
Q Consensus       345 ~~l~~L~~L~l~~~~~~~~p~  365 (1212)
                      ..+.+|++|+++.|.+...+.
T Consensus       102 ~~l~~L~~L~L~~N~~~c~~~  122 (174)
T 2r9u_A          102 DNLKSLTHIYLYNNPWDCECR  122 (174)
T ss_dssp             TTCTTCSEEECCSSCBCTTBG
T ss_pred             ccccCCCEEEeCCCCcccccc
Confidence            566666666666666554443

>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=98.11  E-value=2e-06  Score=85.28  Aligned_cols=84  Identities=26%  Similarity=0.381  Sum_probs=43.9

Q ss_pred             cceeeeccCCccccc-cHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhh
Q 000945          266 KLEILSLVDSNIEQL-PEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL  344 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~l-p~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L  344 (1212)
                      .+++|++++|.|..+ |..|+.+.+|++|+|++| .+..+|.+++.++.+|++|++++|.+.           ......+
T Consensus        31 ~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~N~l~-----------~~~~~~~   98 (170)
T 3g39_A           31 TTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNN-QLTVLPAGVFDKLTQLTQLSLNDNQLK-----------SIPRGAF   98 (170)
T ss_dssp             TCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC-----------CCCTTTT
T ss_pred             CCcEEEcCCCcCCccChhhhcCcccCCEEECCCC-CcCccChhhccCCCCCCEEECCCCccC-----------EeCHHHh
Confidence            455555555555555 344555555555555555 455555554555555555555555553           1111234


Q ss_pred             hcCCCCCcceeeecccc
Q 000945          345 KLLSHLTTLEIQICDAM  361 (1212)
Q Consensus       345 ~~l~~L~~L~l~~~~~~  361 (1212)
                      ..+.+|+.|+++.|.+.
T Consensus        99 ~~l~~L~~L~L~~N~~~  115 (170)
T 3g39_A           99 DNLKSLTHIWLLNNPWD  115 (170)
T ss_dssp             TTCTTCCEEECCSSCBC
T ss_pred             cCCCCCCEEEeCCCCCC
Confidence            45555555555555443

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.08  E-value=6.4e-06  Score=93.07  Aligned_cols=108  Identities=13%  Similarity=0.119  Sum_probs=72.5

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCC------CHHHHHH
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTP------DVKRIQG  219 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~------~~~~l~~  219 (1212)
                      .....++||+.+.+.+.+++..+  .++.|+|++|+|||||++.+++..      . .+|+.+....      +...+.+
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~~~~~~   79 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITREELIK   79 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCHHHHHH
T ss_pred             CChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCHHHHHH
Confidence            34556899999999999988653  799999999999999999999864      1 5666654332      5566666


Q ss_pred             HHHHHhcC---------------cc----cCCChhHHHHHHHHHHHcCCcEE-EecCcccccc
Q 000945          220 DIADQLGL---------------YI----CEGSESERAMVLCGLLKKGKKIL-VLDNIWTSLD  262 (1212)
Q Consensus       220 ~il~~l~~---------------~~----~~~~~~~~~~~l~~~L~~~kr~L-VLDDVw~~~~  262 (1212)
                      .+...+..               ..    ......+....+.+.....++++ |+||++....
T Consensus        80 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~  142 (350)
T 2qen_A           80 ELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRF  142 (350)
T ss_dssp             HHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGG
T ss_pred             HHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhc
Confidence            66665532               00    01223344455555554213677 9999987643

>1aw0_A Menkes copper-transporting ATPase; copper-binding domain, hydrolase; NMR {Homo sapiens} SCOP: d.58.17.1 PDB: 2aw0_A

Probab=98.08  E-value=1.1e-05  Score=66.43  Aligned_cols=64  Identities=19%  Similarity=0.170  Sum_probs=57.0

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEE
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      +++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+   +++..+.+.+++.|+.+.+
T Consensus         3 ~~~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~~   70 (72)
T 1aw0_A            3 QETVINIDGMTCNSCVQSIEGVISKKPGVKSIRVSLANSNGTVEYDPLLTSPETLRGAIEDMGFDATL   70 (72)
T ss_dssp             EEEEEEEECCCHHHHHHHHHHHHHTSTTCCCEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEEECCeecHHHHHHHHHHHhcCCCeEEEEEEccCCEEEEEECCCcCCHHHHHHHHHHCCCCcEe
Confidence            46788996 9999999999999999999999999999999999876   5778899999998886644

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.06  E-value=9.8e-06  Score=92.83  Aligned_cols=112  Identities=20%  Similarity=0.205  Sum_probs=80.9

Q ss_pred             ccccchHHHHHHHHHHhC----CCCceEEEEEecCCCchhHHHHHHHHHhhhc----CC--CCEEEEEEecCCC-CHHHH
Q 000945          149 EAFESRKSILNDALDALS----NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL----KL--CDEVVFVEVSQTP-DVKRI  217 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~----~~--F~~~~wv~vs~~~-~~~~l  217 (1212)
                      ..++||+++++.+.+++.    ......+.|+|++|+||||||+.+++...-.    ..  ....+|+.++... +...+
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            458899999998887764    3446689999999999999999999976321    11  3456777776666 78888


Q ss_pred             HHHHHHHhcCc-c--cCCChhHHHHHHHHHHHcCCcEE-EecCccccc
Q 000945          218 QGDIADQLGLY-I--CEGSESERAMVLCGLLKKGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       218 ~~~il~~l~~~-~--~~~~~~~~~~~l~~~L~~~kr~L-VLDDVw~~~  261 (1212)
                      ...++.++... .  ...+.......+.+.+.. ++.+ ||||++...
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-~~~vlilDEi~~l~  146 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRN-IRAIIYLDEVDTLV  146 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSS-SCEEEEEETTHHHH
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhcc-CCCEEEEECHHHhc
Confidence            88988887322 1  122345567777888875 4435 999998753

>1osd_A MERP, hypothetical protein MERP; mercury resistance, metal binding protein, perisplasm, structural genomics; 2.00A {Cupriavidus metallidurans} SCOP: d.58.17.1 PDB: 1afi_A 1afj_A 2hqi_A

Probab=98.06  E-value=1e-05  Score=66.69  Aligned_cols=65  Identities=12%  Similarity=0.123  Sum_probs=57.4

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      ++++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+   +++..+.+.+.+.|+.+.+
T Consensus         2 ~~~~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~~   70 (72)
T 1osd_A            2 TQTVTLSVPGMTCSACPITVKKAISKVEGVSKVDVTFETRQAVVTFDDAKTSVQKLTKATADAGYPSSV   70 (72)
T ss_dssp             EEEEEEECTTCCSTTHHHHHHHHHHTSTTEEEEEEETTTTEEEEEEETTTCCHHHHHHHHHHTTCCCEE
T ss_pred             ceEEEEEECCeEcHHHHHHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeEe
Confidence            356788887 9999999999999999999999999999999999865   5778899999998887654

>1jk9_B CCS, copper chaperone for superoxide dismutase; protein-protein complex, heterodimer, metallochaperone, amyotrophic lateral sclerosis; 2.90A {Saccharomyces cerevisiae} SCOP: b.1.8.1 d.58.17.1

Probab=98.05  E-value=8.7e-06  Score=84.32  Aligned_cols=70  Identities=17%  Similarity=0.238  Sum_probs=63.8

Q ss_pred             eEEEEEEEecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEEecCCC
Q 000945         1117 QKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSIGPA 1186 (1212)
Q Consensus      1117 ~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~~~~~~ 1186 (1212)
                      .+++++|.|+|+.|+.++.+++.+++||.++.+|...++++|.+.+++.++.+++++.++.+.+...+++
T Consensus         7 ~~~~l~V~MtC~~Ca~~IekaL~~l~GV~~v~Vnl~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~~   76 (249)
T 1jk9_B            7 YEATYAIPMHCENCVNDIKACLKNVPGINSLNFDIEQQIMSVESSVAPSTIINTLRNCGKDAIIRGAGKP   76 (249)
T ss_dssp             EEEEEECCCCSSSHHHHHHHHHTTCTTEEEEEEETTTTEEEEEESSCHHHHHHHHHTTTCCCEEEEESST
T ss_pred             eeEEEEEeeccHHHHHHHHHHHhccCCeeEEEEEcCCCeEEEecCCCHHHHHHHHHHhCCCcccccCCcc
Confidence            4567888899999999999999999999999999999999999999999999999999999888765544

>3cjk_B Copper-transporting ATPase 1; HAH1, ATP7B, menkes disease, metal homeostasis, chaperone, ION transport, metal- binding, alternative splicing; 1.80A {Homo sapiens} PDB: 2k1r_A

Probab=98.05  E-value=2.1e-05  Score=65.30  Aligned_cols=65  Identities=12%  Similarity=0.120  Sum_probs=57.7

Q ss_pred             EEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEEe
Q 000945         1118 KAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELVS 1182 (1212)
Q Consensus      1118 ~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~~ 1182 (1212)
                      ++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+   +++..+.+.+.+.|+.+.+..
T Consensus         3 ~~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~~   71 (75)
T 3cjk_B            3 SVTISVEGMTCNSCVWTIEQQIGKVNGVHHIKVSLEEKNATIIYDPKLQTPKTLQEAIDDMGFDAVIHN   71 (75)
T ss_dssp             EEEEEECCCCSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCccCHHHHHHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCceEeec
Confidence            4678886 9999999999999999999999999999999999865   577889999999998877654

>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=98.03  E-value=1.1e-05  Score=92.45  Aligned_cols=113  Identities=23%  Similarity=0.269  Sum_probs=81.4

Q ss_pred             ccccchHHHHHHHHHHhC----CCCceEEEEEecCCCchhHHHHHHHHHhhhcCC-CCEEEEEEecCCCCHHHHHHHHHH
Q 000945          149 EAFESRKSILNDALDALS----NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKL-CDEVVFVEVSQTPDVKRIQGDIAD  223 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~-F~~~~wv~vs~~~~~~~l~~~il~  223 (1212)
                      ..++||+++++.+.+++.    ......+.|+|++|+||||||+.+++...-... --..+|+.++...+...+...++.
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~   99 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLE   99 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTT
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            568999999999999886    345678999999999999999999997652210 124567776666677788888887


Q ss_pred             HhcCccc--CCChhHHHHHHHHHHHcC-CcEE-EecCccccc
Q 000945          224 QLGLYIC--EGSESERAMVLCGLLKKG-KKIL-VLDNIWTSL  261 (1212)
Q Consensus       224 ~l~~~~~--~~~~~~~~~~l~~~L~~~-kr~L-VLDDVw~~~  261 (1212)
                      .++....  ..+..+....+.+.+... ++.+ |+||++...
T Consensus       100 ~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~  141 (386)
T 2qby_A          100 SLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFV  141 (386)
T ss_dssp             TTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHH
T ss_pred             HhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhh
Confidence            7755422  223445566677777642 3667 999998754

>1q8l_A Copper-transporting ATPase 1; metal binding protein; NMR {Homo sapiens} SCOP: d.58.17.1 PDB: 1s6o_A 1s6u_A

Probab=98.02  E-value=8.8e-06  Score=69.50  Aligned_cols=66  Identities=11%  Similarity=0.132  Sum_probs=58.3

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      .+++.++|. |+|.+|+.++.+++.+++||..+.+|...++++|..+   +++..+.+.+++.|+.+.+.
T Consensus         8 ~~~~~~~v~gm~C~~C~~~ie~~l~~~~GV~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~   77 (84)
T 1q8l_A            8 EVVLKMKVEGMTCHSCTSTIEGKIGKLQGVQRIKVSLDNQEATIVYQPHLISVEEMKKQIEAMGFPAFVK   77 (84)
T ss_dssp             CEEEEEEECCTTTCSSCHHHHHHHHTCTTEEEEEECSTTTEEEEEECTTTCCHHHHHHHHHHTTCCEECS
T ss_pred             ceEEEEEECCcccHHHHHHHHHHHHcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCceEec
Confidence            457789996 9999999999999999999999999999999999875   57888999999988876543

>1mwy_A ZNTA; open-faced beta-sandwich fold, beta-alpha-beta-BETA-alpha- beta, hydrolase; NMR {Escherichia coli} SCOP: d.58.17.1 PDB: 1mwz_A

Probab=98.02  E-value=2.4e-05  Score=64.65  Aligned_cols=64  Identities=17%  Similarity=0.131  Sum_probs=55.5

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEec-CHHHHHHHHHhhcCceE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDI-DAVPVVRKLRKQLCATE 1179 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~-d~~~~~~~l~k~~~~~~ 1179 (1212)
                      |+++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+. .+..+.+.+.+.|+.+.
T Consensus         2 m~~~~~~v~gm~C~~C~~~ie~~l~~~~gV~~~~v~~~~~~~~v~~~~~~~~~i~~~i~~~Gy~~~   67 (73)
T 1mwy_A            2 GTRYSWKVSGMDCAACARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESALQKAGYSLR   67 (73)
T ss_dssp             CEEEEEEEESCCSTTHHHHHHHHHHTSSSEEEEEEETTTTEEEEEESSCCHHHHHHHHHHHTCEEE
T ss_pred             CeEEEEEECCcCCHHHHHHHHHHHhcCCCeeEEEEEecCCEEEEEECCCCHHHHHHHHHHcCCccc
Confidence            557789998 99999999999999999999999999999999998763 25678888999887553

>2g9o_A Copper-transporting ATPase 1; menkes disease, solution structure, structural genomics, structural proteomics in europe, spine, hydrolase; NMR {Homo sapiens} PDB: 2ga7_A

Probab=98.02  E-value=1.5e-05  Score=69.00  Aligned_cols=65  Identities=15%  Similarity=0.242  Sum_probs=56.1

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhh---cCceEEE
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQ---LCATELV 1181 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~---~~~~~~~ 1181 (1212)
                      .++.++|. |+|..|+.++.+++.+++||.++.+|...++++|..+   +++.++.+.+.+.   ++.|.++
T Consensus         3 ~~~~l~v~Gm~C~~C~~~Ie~~L~~~~GV~~v~v~l~~~~~~V~~~~~~~~~~~i~~~i~~~g~Ggy~~~~~   74 (90)
T 2g9o_A            3 STATFIIDGMHCKSCVSNIESTLSALQYVSSIVVSLENRSAIVVYNASSVTPESLRKAIEAVSPGLYRVSIT   74 (90)
T ss_dssp             EEEEEEEESCCHHHHHHHHHHHHTTCTTEEEEEEETTTTEEEEEECCSSCCTHHHHHHHHTTSTTTCEEECC
T ss_pred             cEEEEEECCcCCHHHHHHHHHHHHcCCCeeEEEEEccCCEEEEEECCCCCCHHHHHHHHHhccCCCeEEEEe
Confidence            35678887 9999999999999999999999999999999999754   6788999999998   3655444

>1y3j_A Copper-transporting ATPase 1; ferrodoxin-like fold, beta-alpha-beta-BETA-alpha-beta structure, structural proteomics in europe, spine; NMR {Homo sapiens} PDB: 1y3k_A

Probab=98.02  E-value=1.1e-05  Score=67.44  Aligned_cols=66  Identities=14%  Similarity=0.121  Sum_probs=59.1

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      |+++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+   +++..+.+.+.+.|+.+.++
T Consensus         2 m~~~~~~v~gm~C~~C~~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~   71 (77)
T 1y3j_A            2 SSKCYIQVTGMTCASCVANIERNLRREEGIYSILVALMAGKAEVRYNPAVIQPPMIAEFIRELGFGATVI   71 (77)
T ss_dssp             CEEEEEEESCGGGCSHHHHHHHHHTTSSSEEECCCBTTTTBEEEEECTTTSCHHHHHHHHHHHTSCEEEE
T ss_pred             CEEEEEEECCeeCHHHHHHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCceEEC
Confidence            677889997 9999999999999999999999999999999999765   57788999999999877664

>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=98.00  E-value=4.7e-06  Score=82.56  Aligned_cols=97  Identities=16%  Similarity=0.264  Sum_probs=80.8

Q ss_pred             ceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhc
Q 000945          267 LEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKL  346 (1212)
Q Consensus       267 Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~  346 (1212)
                      .+.++++++.+..+|..+.  .+|++|++++| .+..+++..+.++.+|++|++++|.+.           ......+..
T Consensus        11 ~~~l~~s~n~l~~ip~~~~--~~l~~L~L~~N-~i~~~~~~~~~~l~~L~~L~Ls~N~l~-----------~l~~~~f~~   76 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGIP--TTTQVLYLYDN-QITKLEPGVFDRLTQLTRLDLDNNQLT-----------VLPAGVFDK   76 (170)
T ss_dssp             TTEEECTTSCCSSCCSCCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCC-----------CCCTTTTTT
T ss_pred             CCEEEeCCCCcCccCccCC--CCCcEEEcCCC-cCCccChhhhcCcccCCEEECCCCCcC-----------ccChhhccC
Confidence            4678999999999998774  78999999999 899997777999999999999999986           222344678


Q ss_pred             CCCCCcceeeecccccCCCCc--ccccceEEeE
Q 000945          347 LSHLTTLEIQICDAMILPKGL--FSKKLERYKI  377 (1212)
Q Consensus       347 l~~L~~L~l~~~~~~~~p~~~--~~~~L~~l~~  377 (1212)
                      +.+|++|+++.|.+..+|.+.  .+.+|+.+.+
T Consensus        77 l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  109 (170)
T 3g39_A           77 LTQLTQLSLNDNQLKSIPRGAFDNLKSLTHIWL  109 (170)
T ss_dssp             CTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCCEEECCCCccCEeCHHHhcCCCCCCEEEe
Confidence            999999999999999888763  5667776643

>1fvq_A Copper-transporting ATPase; APO-CCC2A, hydrolase; NMR {Saccharomyces cerevisiae} SCOP: d.58.17.1 PDB: 1fvs_A 2ggp_B

Probab=97.99  E-value=2.4e-05  Score=64.28  Aligned_cols=65  Identities=11%  Similarity=0.106  Sum_probs=57.9

Q ss_pred             EEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe--cCHHHHHHHHHhhcCceEEEe
Q 000945         1118 KAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD--IDAVPVVRKLRKQLCATELVS 1182 (1212)
Q Consensus      1118 ~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~--~d~~~~~~~l~k~~~~~~~~~ 1182 (1212)
                      ++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+  +++..+.+.+++.|+.+.++.
T Consensus         3 ~~~~~v~gm~C~~c~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~i~~~i~~~G~~~~~~~   70 (72)
T 1fvq_A            3 EVILAVHGMTCSACTNTINTQLRALKGVTKCDISLVTNECQVTYDNEVTADSIKEIIEDCGFDCEILR   70 (72)
T ss_dssp             EEEEEECSCCSHHHHHHHHHHHHTSSSEEEECCBTTTTEEEEEECTTSCHHHHHHHHHHHTCCEEEEE
T ss_pred             EEEEEECCeecHHHHHHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCHHHHHHHHHHCCCceEEcc
Confidence            4678887 9999999999999999999999999999999999864  678889999999998887763

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=97.97  E-value=5.7e-06  Score=82.22  Aligned_cols=96  Identities=17%  Similarity=0.320  Sum_probs=80.0

Q ss_pred             eeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhcC
Q 000945          268 EILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLL  347 (1212)
Q Consensus       268 r~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~l  347 (1212)
                      +.++++++.+..+|..+.  .+|++|++++| .+..+++..+.++.+|++|++++|.+.           ......+..+
T Consensus        15 ~~l~~~~n~l~~iP~~~~--~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~-----------~i~~~~~~~l   80 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGIP--TDKQRLWLNNN-QITKLEPGVFDHLVNLQQLYFNSNKLT-----------AIPTGVFDKL   80 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC--TTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCC-----------CCCTTTTTTC
T ss_pred             cEEEeCCCCCCccCCCcC--CCCcEEEeCCC-CccccCHHHhcCCcCCCEEECCCCCCC-----------ccChhHhCCc
Confidence            578999999999998775  89999999999 899997777999999999999999985           2222346788


Q ss_pred             CCCCcceeeecccccCCCCc--ccccceEEeE
Q 000945          348 SHLTTLEIQICDAMILPKGL--FSKKLERYKI  377 (1212)
Q Consensus       348 ~~L~~L~l~~~~~~~~p~~~--~~~~L~~l~~  377 (1212)
                      .+|+.|+++.|.+..+|.+.  .+.+|+.+.+
T Consensus        81 ~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L  112 (174)
T 2r9u_A           81 TQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYL  112 (174)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCSEEEC
T ss_pred             chhhEEECCCCccceeCHHHhccccCCCEEEe
Confidence            99999999999999888863  4667776643

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.96  E-value=3e-05  Score=88.92  Aligned_cols=113  Identities=22%  Similarity=0.245  Sum_probs=83.3

Q ss_pred             ccccchHHHHHHHHHHhC----CCCceEEEEEecCCCchhHHHHHHHHHhhhc----CCCCEEEEEEecCCCCHHHHHHH
Q 000945          149 EAFESRKSILNDALDALS----NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL----KLCDEVVFVEVSQTPDVKRIQGD  220 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~----~~F~~~~wv~vs~~~~~~~l~~~  220 (1212)
                      ..++||+.+++.+..++.    ......+.|+|++|+||||+|+.+++...-.    ..--..+|+.+....+...+...
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   98 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASA   98 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHH
Confidence            568999999999999884    2456788999999999999999999876421    00123567777777888899999


Q ss_pred             HHHHhcCcccC--CChhHHHHHHHHHHHc-CCcEE-EecCccccc
Q 000945          221 IADQLGLYICE--GSESERAMVLCGLLKK-GKKIL-VLDNIWTSL  261 (1212)
Q Consensus       221 il~~l~~~~~~--~~~~~~~~~l~~~L~~-~kr~L-VLDDVw~~~  261 (1212)
                      |+.+++.....  .+..+....+.+.+.. +++.+ ||||++...
T Consensus        99 l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~  143 (387)
T 2v1u_A           99 IAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLP  143 (387)
T ss_dssp             HHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHH
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhc
Confidence            99998764322  2344556677777753 34666 999998654

>2qif_A Copper chaperone COPZ; tetranuclear Cu(I) cluster; 1.50A {Bacillus subtilis} SCOP: d.58.17.1 PDB: 3i9z_A 1k0v_A 1p8g_A

Probab=97.96  E-value=3e-05  Score=62.94  Aligned_cols=63  Identities=14%  Similarity=0.184  Sum_probs=54.9

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCce
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCAT 1178 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~ 1178 (1212)
                      |.++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+   +++..+.+.+++.|+.+
T Consensus         1 m~~~~~~v~gm~C~~c~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~   67 (69)
T 2qif_A            1 MEQKTLQVEGMSCQHCVKAVETSVGELDGVSAVHVNLEAGKVDVSFDADKVSVKDIADAIEDQGYDV   67 (69)
T ss_dssp             CEEEEEEEECCCSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHTTCEE
T ss_pred             CeEEEEEECCcccHHHHHHHHHHHhcCCCeeEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCCc
Confidence            345678898 9999999999999999999999999999999999754   57788999999887643

>2aj0_A Probable cadmium-transporting ATPase; ferrodoxin-like fold, beta-alpha-beta-BETA-alpha-beta, metal binding protein, hydrolase; NMR {Listeria monocytogenes} PDB: 2aj1_A

Probab=97.95  E-value=1.5e-05  Score=65.48  Aligned_cols=62  Identities=16%  Similarity=0.262  Sum_probs=52.8

Q ss_pred             cceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEE
Q 000945         1115 TKQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1115 ~~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      |+++++++|. |+|.+|+.++.+++.+++||.++.+|...++++|.++.+    ...+++.|+.+.+
T Consensus         1 m~~~~~~~v~gm~C~~C~~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~----~~~i~~~Gy~~~~   63 (71)
T 2aj0_A            1 MAEKTVYRVDGLSCTNCAAKFERNVKEIEGVTEAIVNFGASKITVTGEAS----IQQVEQAGAFEHL   63 (71)
T ss_dssp             CCCEEEEEEESCCCHHHHHHHHHHHHHSTTEEEEEECCSSEEEEEEESCC----HHHHHHHHTTTTC
T ss_pred             CCeEEEEEECCcccHHHHHHHHHHHHcCCCeEEEEEECCCCEEEEEecCc----HHHHHHhCCCccc
Confidence            5567889998 999999999999999999999999999999999998765    3466777765443

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.92  E-value=0.00039  Score=79.49  Aligned_cols=36  Identities=17%  Similarity=0.213  Sum_probs=19.1

Q ss_pred             ccccCCccEEEEecCCCCCccCchhhhccCCCccEEEEc
Q 000945          490 AESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVI  528 (1212)
Q Consensus       490 ~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~  528 (1212)
                      +..+.+|+.+.|..  .++.+.. ..+.++.+|+.+++.
T Consensus        67 F~~c~~L~~i~lp~--~i~~I~~-~aF~~c~~L~~i~lp  102 (394)
T 4fs7_A           67 FQGCRKVTEIKIPS--TVREIGE-FAFENCSKLEIINIP  102 (394)
T ss_dssp             TTTCTTEEEEECCT--TCCEECT-TTTTTCTTCCEECCC
T ss_pred             hhCCCCceEEEeCC--CccCcch-hHhhCCCCCcEEEeC
Confidence            34455566666542  4555533 335566666666664

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.91  E-value=1.2e-06  Score=98.90  Aligned_cols=167  Identities=14%  Similarity=0.062  Sum_probs=94.6

Q ss_pred             cccceeeeeccccccccccccCcc---cccccceEeEeecCCccccch-HHHhhcCccceeEEEccceeEeccccchhhc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPK---HIFRNLKNLEVVNDESENFRI-GFLERFHNLEKLELRWSSYKEIFSNEEIVEH  849 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~---~~~~~L~~L~l~~~~~~~~p~-~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~  849 (1212)
                      .++|+.|++++|.++.........   ...++|+.|+|++|.++.... .+...+++|+.|+|+.|.++.... ..+...
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~-~~L~~~  149 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEAC-KDLRDL  149 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHH-HHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHH-HHHHHH
Confidence            578889999888876543211111   123688899998887765332 223456788888888666643211 111111


Q ss_pred             c-ccccccceEeeCCCccchhhhc-cCCCCccccCcccEEEEecCCCcc----cccCCccccCCccEEeeccccCccccc
Q 000945          850 A-EMLTQVKSLKLWELSDLMYIWK-QDSKLDSITENLESLEVWWCENLI----NLVPSSASFKNLTTLELWYCQRLMNLV  923 (1212)
Q Consensus       850 ~-~~l~~L~~L~l~~c~~l~~l~~-~~~~~~~~l~~L~~L~l~~c~~l~----~lp~~~~~l~~L~~L~l~~c~~l~~l~  923 (1212)
                      + ...++|++|++++|. +..... ..+..+..+++|++|++++|..-.    .++..+...++|+.|++++| .++...
T Consensus       150 L~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N-~i~~~g  227 (372)
T 3un9_A          150 LLHDQCQITTLRLSNNP-LTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYN-GAGDTA  227 (372)
T ss_dssp             HHSTTCCCCEEECCSSC-CHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSS-CCCHHH
T ss_pred             HHhcCCccceeeCCCCC-CChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCC-CCCHHH
Confidence            1 124678888888874 332110 002233556778888888775321    22333455667888888776 455432


Q ss_pred             chh---hhcccccccEEEecCcc
Q 000945          924 TSS---TAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       924 ~~~---~~~~l~~L~~L~i~~c~  943 (1212)
                      ...   .+...++|++|++++|.
T Consensus       228 ~~~l~~~L~~~~~L~~L~Ls~N~  250 (372)
T 3un9_A          228 ALALARAAREHPSLELLHLYFNE  250 (372)
T ss_dssp             HHHHHHHHHHCSSCCEEECTTSS
T ss_pred             HHHHHHHHHhCCCCCEEeccCCC
Confidence            212   22344677777777775

>1cpz_A Protein (COPZ); copper chaperone, metal transport, gene regulation; NMR {Enterococcus hirae} SCOP: d.58.17.1

Probab=97.91  E-value=2.2e-05  Score=63.62  Aligned_cols=61  Identities=15%  Similarity=0.233  Sum_probs=54.2

Q ss_pred             EEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEE
Q 000945         1120 VLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1120 ~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      .++|. |+|.+|+.++.+++.+++||..+.+|...++++|..+   +++..+.+.+++.|+.+++
T Consensus         3 ~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~~   67 (68)
T 1cpz_A            3 EFSVKGMSCNHCVARIEEAVGRISGVKKVKVQLKKEKAVVKFDEANVQATEICQAINELGYQAEV   67 (68)
T ss_dssp             EEEESCCCSSSHHHHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHTTSSCEEE
T ss_pred             EEEECCeeCHHHHHHHHHHHHcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCCccc
Confidence            46776 9999999999999999999999999999999999875   5788899999998887654

>1kvi_A Copper-transporting ATPase 1; menkes, Cu-protein, hydrolase; NMR {Homo sapiens} SCOP: d.58.17.1 PDB: 1kvj_A

Probab=97.91  E-value=1.8e-05  Score=66.56  Aligned_cols=66  Identities=12%  Similarity=0.109  Sum_probs=58.3

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      .+++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+   +++..+.+.+++.|+.+.+.
T Consensus         7 ~~~~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~   76 (79)
T 1kvi_A            7 VNSVTISVEGMTCNSCVWTIEQQIGKVNGVHHIKVSLEEKNATIIYDPKLQTPKTLQEAIDDMGFDAVIH   76 (79)
T ss_dssp             CEEEEEEECCCCSTTTHHHHHHHHHHSSSCCCEEEEGGGTEEEEEECTTTCCHHHHHHHHHHHCCCEEEC
T ss_pred             cEEEEEEECCccCHHHHHHHHHHHhcCCCeEEEEEEccCCEEEEEECCCCCCHHHHHHHHHHCCCceEec
Confidence            456788996 9999999999999999999999999999999999765   57788999999999877654

>1yjr_A Copper-transporting ATPase 1; metallochaperone, protein-protein interaction, copper(I), metal homeostasis, structural proteomics in europe, spine; NMR {Homo sapiens} PDB: 1yjt_A 1yju_A 1yjv_A

Probab=97.90  E-value=2.6e-05  Score=64.74  Aligned_cols=64  Identities=16%  Similarity=0.115  Sum_probs=55.8

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEE
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      +++.++|. |+|.+|+.++.+++.+++||..+.+|...++++|..+   +++..+.+.+.+.|+.+..
T Consensus         4 ~~~~~~v~gm~C~~c~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~~   71 (75)
T 1yjr_A            4 GVLELVVRGMTCASCVHKIESSLTKHRGILYCSVALATNKAHIKYDPEIIGPRDIIHTIESLGFEPSL   71 (75)
T ss_dssp             CCEEEEEETCCTTTHHHHHHHHHTTSTTEEEEEEETTTTEEEEEECTTTTHHHHHHHHHHHHHCEEEE
T ss_pred             eEEEEEECCcccHHHHHHHHHHHHcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCCcee
Confidence            35678887 9999999999999999999999999999999999876   4567788889998886654

>1yg0_A COP associated protein; open-faced beta-sandwich, missing C-terminal beta-sheet, Met transport; NMR {Helicobacter pylori}

Probab=97.86  E-value=2.9e-05  Score=62.45  Aligned_cols=59  Identities=19%  Similarity=0.113  Sum_probs=52.4

Q ss_pred             EEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe--cCHHHHHHHHHhhcCc
Q 000945         1119 AVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD--IDAVPVVRKLRKQLCA 1177 (1212)
Q Consensus      1119 ~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~--~d~~~~~~~l~k~~~~ 1177 (1212)
                      +.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+  .++..+.+.+++.|+.
T Consensus         3 ~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~i~~~i~~~G~~   64 (66)
T 1yg0_A            3 ATFQVPSITCNHCVDKIEKFVGEIEGVSFIDVSVEKKSVVVEFDAPATQDLIKEALLDAGQE   64 (66)
T ss_dssp             EEECCTTCSCSHHHHHHHHHHTTSSSEEEEEEETTTTEEEEEECTTCCHHHHHHHHHHHTCC
T ss_pred             EEEEECCcccHHHHHHHHHHHhcCCCceEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCC
Confidence            467776 9999999999999999999999999999999999866  5778889999988764

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=97.85  E-value=8.2e-05  Score=85.24  Aligned_cols=111  Identities=23%  Similarity=0.244  Sum_probs=80.5

Q ss_pred             ccccchHHHHHHHHHHhCC----CCce--EEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHH
Q 000945          149 EAFESRKSILNDALDALSN----PNVN--VIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIA  222 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~~----~~~~--vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il  222 (1212)
                      ..++||+++++.+..++..    ..-.  .+.|+|..|+||||||+.+.+....... -..+|+.++...+...+...++
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            4588999999999888863    2223  8999999999999999999997652211 3456777778788889999999


Q ss_pred             HHhcCccc--CCChhHHHHHHHHHHHc-CCcEE-EecCcccc
Q 000945          223 DQLGLYIC--EGSESERAMVLCGLLKK-GKKIL-VLDNIWTS  260 (1212)
Q Consensus       223 ~~l~~~~~--~~~~~~~~~~l~~~L~~-~kr~L-VLDDVw~~  260 (1212)
                      ..++....  ..+..+....+.+.+.. ++..+ ||||++..
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l  137 (389)
T 1fnn_A           96 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNL  137 (389)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGS
T ss_pred             HHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECcccc
Confidence            98865432  22344555666666653 24556 99999765

>1opz_A Potential copper-transporting ATPase; mutation, folding, abbab fold, hydrolase; NMR {Bacillus subtilis} SCOP: d.58.17.1 PDB: 1oq3_A 1oq6_A

Probab=97.85  E-value=3.2e-05  Score=64.34  Aligned_cols=64  Identities=11%  Similarity=0.134  Sum_probs=56.4

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATE 1179 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~ 1179 (1212)
                      ++++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|.-+   +++..+.+.+.+.|+.+.
T Consensus         5 ~~~~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~   72 (76)
T 1opz_A            5 QKEIAMQVSGMTCAACAARIEKGLKRMPGVTDANVNLATETVNVIYDPAETGTAAIQEKIEKLGYHVV   72 (76)
T ss_dssp             CEEEEEEEESCCSTTHHHHHHHHHHTSTTEEEEEEEGGGTEEEEEECTTTCCHHHHHHHHHHHTCEEE
T ss_pred             ceEEEEEECCcccHHHHHHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHCCCcee
Confidence            567789998 9999999999999999999999999999999999743   678889999999887653

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.83  E-value=0.00022  Score=81.64  Aligned_cols=33  Identities=15%  Similarity=0.173  Sum_probs=15.1

Q ss_pred             ccCCccEEeeccccCcccccchhhhcccccccEEEe
Q 000945          904 SFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRI  939 (1212)
Q Consensus       904 ~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i  939 (1212)
                      .+++|+.+.+.+  +++.++. ..+.++++|+.+.|
T Consensus       295 ~~~~L~~i~l~~--~i~~I~~-~aF~~c~~L~~i~l  327 (394)
T 4fs7_A          295 GCSSLTEVKLLD--SVKFIGE-EAFESCTSLVSIDL  327 (394)
T ss_dssp             TCTTCCEEEECT--TCCEECT-TTTTTCTTCCEECC
T ss_pred             cccccccccccc--ccceech-hhhcCCCCCCEEEe
Confidence            345555555543  3444432 22344455555555

>2kt2_A Mercuric reductase; nmera, MERA, HMA domain, mercuric resist metal-binding, oxidoreductase; NMR {Pseudomonas aeruginosa} PDB: 2kt3_A

Probab=97.83  E-value=3.2e-05  Score=62.96  Aligned_cols=60  Identities=12%  Similarity=0.036  Sum_probs=53.2

Q ss_pred             EEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe--cCHHHHHHHHHhhcCceE
Q 000945         1120 VLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD--IDAVPVVRKLRKQLCATE 1179 (1212)
Q Consensus      1120 ~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~--~d~~~~~~~l~k~~~~~~ 1179 (1212)
                      .++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+  .++.++.+.+++.|+.+.
T Consensus         3 ~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~i~~~i~~~Gy~~~   65 (69)
T 2kt2_A            3 HLKITGMTCDSCAAHVKEALEKVPGVQSALVSYPKGTAQLAIVPGTSPDALTAAVAGLGYKAT   65 (69)
T ss_dssp             CEEEESSCSTHHHHHHHHHHHHSTTEEEEEEETTTTEEEEEECTTSCHHHHHHHHHTTTSEEE
T ss_pred             EEEECCcccHHHHHHHHHHHHcCCCeeEEEEEccCCEEEEEECCCCCHHHHHHHHHHCCCceE
Confidence            46776 9999999999999999999999999999999999765  577889999999888654

>2ldi_A Zinc-transporting ATPase; metal homeostasis, metallochaperones, hydrolase; NMR {Synechocystis SP}

Probab=97.80  E-value=6.3e-05  Score=61.44  Aligned_cols=63  Identities=6%  Similarity=0.121  Sum_probs=54.9

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCce
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCAT 1178 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~ 1178 (1212)
                      ++++.++|. |+|.+|+.++.+++.+++||..+.+|...++++|..+   +++..+.+.+.+.|+.+
T Consensus         2 ~~~~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~   68 (71)
T 2ldi_A            2 LKTQQMQVGGMRCAACASSIERALERLKGVAEASVTVATGRLTVTYDPKQVSEITIQERIAALGYTL   68 (71)
T ss_dssp             CEEEEEEEETCTTSGGGHHHHTGGGGCSSEEEEEEETTTTEEEEEECTTTCCTHHHHHHHHTTTCEE
T ss_pred             cEEEEEEECCccCHHHHHHHHHHHhcCCCeeEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCCc
Confidence            345678888 9999999999999999999999999999999999754   56788899999888754

>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=97.80  E-value=1.3e-05  Score=77.83  Aligned_cols=62  Identities=6%  Similarity=0.198  Sum_probs=27.4

Q ss_pred             cccEEEEecCCCcccc-cCCccccCCccEEeeccccCcccccchhhhcc---cccccEEEecCcchh
Q 000945          883 NLESLEVWWCENLINL-VPSSASFKNLTTLELWYCQRLMNLVTSSTAKS---LVCLTKLRIDGCRML  945 (1212)
Q Consensus       883 ~L~~L~l~~c~~l~~l-p~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~---l~~L~~L~i~~c~~l  945 (1212)
                      .|++|++++|. ++.. -..+..+++|+.|++++|..+++-....+...   .++|+.|+|++|+++
T Consensus        62 ~L~~LDLs~~~-Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~I  127 (176)
T 3e4g_A           62 KIQAIDATDSC-IMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNV  127 (176)
T ss_dssp             CEEEEEEESCC-CCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTC
T ss_pred             eEeEEeCcCCC-ccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcC
Confidence            45555555554 2221 01123455555666666555554321111111   234555555555544

>2kyz_A Heavy metal binding protein; structural genomics, PSI-biology, protein structure initiative, joint for structural genomics, JCSG; NMR {Thermotoga maritima}

Probab=97.79  E-value=1.4e-05  Score=64.68  Aligned_cols=58  Identities=19%  Similarity=0.210  Sum_probs=51.8

Q ss_pred             EEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCce
Q 000945         1119 AVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCAT 1178 (1212)
Q Consensus      1119 ~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~ 1178 (1212)
                      +.++|. |+|.+|+.++.+++.++ ||..+.+|...++++|.++.+ .++.+.+++.|+.+
T Consensus         3 ~~~~v~gm~C~~C~~~i~~~l~~~-gv~~~~v~~~~~~~~v~~~~~-~~i~~~i~~~Gy~~   61 (67)
T 2kyz_A            3 YVLYVPDISCNHCKMRISKALEEL-GVKNYEVSVEEKKVVVETENL-DSVLKKLEEIDYPV   61 (67)
T ss_dssp             EEEECGGGGSHHHHHHHHHHHHHH-TCSEEEEETTTTEEEEECSCH-HHHHHHHHTTTCCC
T ss_pred             EEEEECCcCcHHHHHHHHHHHHHc-CCeEEEEECCCCEEEEEECCH-HHHHHHHHHcCCce
Confidence            568885 99999999999999999 999999999999999988765 78889999888754

>2kkh_A Putative heavy metal transporter; zinc transport, metal binding, metal selectivity, ferredoxin fold, ATP-binding, hydrolase; NMR {Arabidopsis thaliana}

Probab=97.75  E-value=9.3e-05  Score=64.77  Aligned_cols=66  Identities=17%  Similarity=0.188  Sum_probs=58.4

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      |.++.++|. |+|.+|+.++.+++.+++||..+.+|...++++|..+   +++..+...+.+.|+.+.+.
T Consensus        15 ~~~~~~~v~gm~C~~C~~~ie~~l~~~~GV~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~   84 (95)
T 2kkh_A           15 LQKSYFDVLGICCTSEVPIIENILKSLDGVKEYSVIVPSRTVIVVHDSLLISPFQIAKALNEARLEANVR   84 (95)
T ss_dssp             SEEEEEEETTCCTTTTHHHHHHHHHHSSSEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTCCEEES
T ss_pred             eEEEEEEECCcCCHHHHHHHHHHHhcCCCeeEEEEEccCCEEEEEECCCCCCHHHHHHHHHHcCCceEEe
Confidence            557789997 9999999999999999999999999999999999865   47788999999988876654

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.75  E-value=5.6e-06  Score=93.46  Aligned_cols=145  Identities=15%  Similarity=0.047  Sum_probs=91.3

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHH-----hhcCccceeEEEccceeEeccccchhh
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFL-----ERFHNLEKLELRWSSYKEIFSNEEIVE  848 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l-----~~l~~L~~L~l~c~~l~~~~~~~~~~~  848 (1212)
                      .++|++|++++|.+...... .....+++|+.|++++|.++......+     ...++|+.|+|+.|.++... ...+..
T Consensus       100 ~~~L~~L~Ls~n~l~~~~~~-~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~-~~~l~~  177 (372)
T 3un9_A          100 RHALDEVNLASCQLDPAGLR-TLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAG-VAVLME  177 (372)
T ss_dssp             SSCEEEEECTTCCCCHHHHH-HTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHH-HHHHHH
T ss_pred             CCCceEEEecCCCCCHHHHH-HHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHH-HHHHHH
Confidence            36888999988877543211 112346788999999988876554444     23578999999966664321 111122


Q ss_pred             ccccccccceEeeCCCccchhhhc-cCCCCccccCcccEEEEecCCCcc----cccCCccccCCccEEeeccccCcccc
Q 000945          849 HAEMLTQVKSLKLWELSDLMYIWK-QDSKLDSITENLESLEVWWCENLI----NLVPSSASFKNLTTLELWYCQRLMNL  922 (1212)
Q Consensus       849 ~~~~l~~L~~L~l~~c~~l~~l~~-~~~~~~~~l~~L~~L~l~~c~~l~----~lp~~~~~l~~L~~L~l~~c~~l~~l  922 (1212)
                      .+...++|++|++++|. +..... .....+...++|++|++++|..-.    .++..+...++|++|++++| .++..
T Consensus       178 ~L~~~~~L~~L~Ls~N~-l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N-~i~~~  254 (372)
T 3un9_A          178 GLAGNTSVTHLSLLHTG-LGDEGLELLAAQLDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLYFN-ELSSE  254 (372)
T ss_dssp             HHHTCSSCCEEECTTSS-CHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTS-SCCHH
T ss_pred             HHhcCCCcCEEeCCCCC-CCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCC-CCCHH
Confidence            33456889999999875 332110 002345667889999999985432    23333445689999999997 45543

>1jww_A Potential copper-transporting ATPase; beta-alpha-beta-BETA-alpha-beta, hydrolase; NMR {Bacillus subtilis} SCOP: d.58.17.1 PDB: 2voy_A 1kqk_A

Probab=97.74  E-value=7.4e-05  Score=62.87  Aligned_cols=66  Identities=14%  Similarity=0.090  Sum_probs=57.4

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      |.++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+   +++..+.+.+.+.|+.+.+.
T Consensus         2 m~~~~~~v~gm~C~~C~~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~~~   71 (80)
T 1jww_A            2 TEKAEFDIEGMTCAACANRIEKRLNKIEGVANAPVNFALETVTVEYNPKEASVSDLKEAVDKLGYKLKLK   71 (80)
T ss_dssp             CEEEEEEEESCCCHHHHHHHHHHHHTSTTEEECCCCSSSSEEEEEECTTTCCHHHHHHHHHHHTSEEEEC
T ss_pred             ceEEEEEECCccCHHHHHHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCeEEec
Confidence            456789998 9999999999999999999999999999999999754   57788999999988876553

>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=97.72  E-value=8.7e-05  Score=83.87  Aligned_cols=69  Identities=14%  Similarity=0.234  Sum_probs=51.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCC-----CCHHHHHHHH
Q 000945          147 GYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQT-----PDVKRIQGDI  221 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~-----~~~~~l~~~i  221 (1212)
                      ....++||+++.+.+.+ +..   .++.|+|++|+|||||++.+.+...  .   ..+|+.+...     .+...+...+
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~--~---~~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELN--L---PYIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHT--C---CEEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcC--C---CEEEEEchhhccccCCCHHHHHHHH
Confidence            44568999999999999 654   6999999999999999999998764  2   2578776542     3444555444


Q ss_pred             HHH
Q 000945          222 ADQ  224 (1212)
Q Consensus       222 l~~  224 (1212)
                      .+.
T Consensus        82 ~~~   84 (357)
T 2fna_A           82 QKE   84 (357)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.70  E-value=4.5e-05  Score=85.14  Aligned_cols=62  Identities=24%  Similarity=0.215  Sum_probs=30.2

Q ss_pred             ccccccceeeccccccc---eeccc--Ccc--cccCcCccEEEEecCCCccccCchhhhhccCCCcEEEecccc
Q 000945          615 VVFPNLETLELCAISTE---KIWCN--QLA--AVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCS  681 (1212)
Q Consensus       615 ~~~~~L~~L~l~~~~l~---~~~~~--~~~--~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~  681 (1212)
                      ..+++|+.|.|.+....   -.|..  .+.  ...+|+|+.|.|++|..+ .+++   + .+++|++|+|..|.
T Consensus       136 ~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l-~l~~---~-~~~~L~~L~L~~~~  204 (362)
T 2ra8_A          136 EKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNL-SIGK---K-PRPNLKSLEIISGG  204 (362)
T ss_dssp             HHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTC-BCCS---C-BCTTCSEEEEECSB
T ss_pred             hhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCc-eecc---c-cCCCCcEEEEecCC
Confidence            34678888887654211   12321  110  013566666666665332 2222   2 25666666665543

>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=97.70  E-value=2.2e-05  Score=76.34  Aligned_cols=40  Identities=20%  Similarity=0.198  Sum_probs=25.0

Q ss_pred             cccEEEEecCCCccccc-CCccccCCccEEeeccccCcccc
Q 000945          883 NLESLEVWWCENLINLV-PSSASFKNLTTLELWYCQRLMNL  922 (1212)
Q Consensus       883 ~L~~L~l~~c~~l~~lp-~~~~~l~~L~~L~l~~c~~l~~l  922 (1212)
                      +|++|++++|..+++-- ..+..+++|++|+|++|+.++..
T Consensus       115 ~L~~L~Ls~C~~ITD~Gl~~L~~~~~L~~L~L~~c~~Itd~  155 (176)
T 3e4g_A          115 SMLEMEIISCGNVTDKGIIALHHFRNLKYLFLSDLPGVKEK  155 (176)
T ss_dssp             HCCEEEEESCTTCCHHHHHHGGGCTTCCEEEEESCTTCCCH
T ss_pred             CCCEEEcCCCCcCCHHHHHHHhcCCCCCEEECCCCCCCCch
Confidence            56666666666664310 12345677888888888777763

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.64  E-value=0.00023  Score=76.95  Aligned_cols=110  Identities=9%  Similarity=0.004  Sum_probs=73.2

Q ss_pred             ccchHHHHHHHHHHhC----CCCceEEEEEecCCCchhHHHHHHHHHhhhcCC---CC--EEEEEEecCCCCHHHHHHHH
Q 000945          151 FESRKSILNDALDALS----NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKL---CD--EVVFVEVSQTPDVKRIQGDI  221 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~---F~--~~~wv~vs~~~~~~~l~~~i  221 (1212)
                      +.||+++.+.|...|.    ...-..+-|+|..|.|||++|++|.++......   ..  ..+.|......+...+...|
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I  101 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI  101 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH
Confidence            6799999999887765    456778899999999999999999998753211   11  24455555677888899999


Q ss_pred             HHHhcCcccC-CChhHHHHHHHHHH--HcCCcEE-EecCcccc
Q 000945          222 ADQLGLYICE-GSESERAMVLCGLL--KKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       222 l~~l~~~~~~-~~~~~~~~~l~~~L--~~~kr~L-VLDDVw~~  260 (1212)
                      ++++...... .........+.+.+  ..++.++ |||++..-
T Consensus       102 ~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l  144 (318)
T 3te6_A          102 WFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENL  144 (318)
T ss_dssp             HHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSS
T ss_pred             HHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHh
Confidence            9999654211 11222333333333  1236677 99988765

>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=97.63  E-value=4e-05  Score=86.24  Aligned_cols=94  Identities=14%  Similarity=0.174  Sum_probs=77.8

Q ss_pred             eeeccCC-ccccccHHHHhhcccccccccC-CCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhc
Q 000945          269 ILSLVDS-NIEQLPEEMAQLTQLRLFDLSG-CSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKL  346 (1212)
Q Consensus       269 ~L~ls~~-~i~~lp~~i~~L~~L~~L~Ls~-~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~  346 (1212)
                      .++.+++ .+..+|. |..+.+|++|+|++ | .+..+|.+.|..|.+|++|++++|.+.           ...+..|..
T Consensus        12 ~v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n-~l~~~~~~~~~~l~~L~~L~l~~N~l~-----------~~~~~~~~~   78 (347)
T 2ifg_A           12 GLRCTRDGALDSLHH-LPGAENLTELYIENQQ-HLQHLELRDLRGLGELRNLTIVKSGLR-----------FVAPDAFHF   78 (347)
T ss_dssp             CEECCSSCCCTTTTT-SCSCSCCSEEECCSCS-SCCEECGGGSCSCCCCSEEECCSSCCC-----------EECTTGGGS
T ss_pred             EEEcCCCCCCCccCC-CCCCCCeeEEEccCCC-CCCCcChhHhccccCCCEEECCCCccc-----------eeCHHHhcC
Confidence            4577887 8999999 99999999999996 7 899999887999999999999999886           334456889


Q ss_pred             CCCCCcceeeecccccCCCCc-ccccceEE
Q 000945          347 LSHLTTLEIQICDAMILPKGL-FSKKLERY  375 (1212)
Q Consensus       347 l~~L~~L~l~~~~~~~~p~~~-~~~~L~~l  375 (1212)
                      +.+|+.|++++|.+..+|... ....|+.+
T Consensus        79 l~~L~~L~l~~N~l~~~~~~~~~~~~L~~l  108 (347)
T 2ifg_A           79 TPRLSRLNLSFNALESLSWKTVQGLSLQEL  108 (347)
T ss_dssp             CSCCCEEECCSSCCSCCCSTTTCSCCCCEE
T ss_pred             CcCCCEEeCCCCccceeCHHHcccCCceEE
Confidence            999999999999999888765 22225544

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.60  E-value=0.00011  Score=81.99  Aligned_cols=56  Identities=21%  Similarity=0.213  Sum_probs=27.6

Q ss_pred             ccccccceeecccc-ccceecccCcccccCcCccEEEEecCCCccccCchhhh--hccCCCcEEEec
Q 000945          615 VVFPNLETLELCAI-STEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMI--RNFVQLEHLEIC  678 (1212)
Q Consensus       615 ~~~~~L~~L~l~~~-~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l--~~l~~L~~L~l~  678 (1212)
                      ..+|+|+.|.|+++ .+. +  ..   ..+++|++|+|..|. +..-.. ..+  ..+|+|++|+|+
T Consensus       169 ~~~P~L~~L~L~g~~~l~-l--~~---~~~~~L~~L~L~~~~-l~~~~l-~~l~~~~lp~L~~L~L~  227 (362)
T 2ra8_A          169 DAMPLLNNLKIKGTNNLS-I--GK---KPRPNLKSLEIISGG-LPDSVV-EDILGSDLPNLEKLVLY  227 (362)
T ss_dssp             HTCTTCCEEEEECCBTCB-C--CS---CBCTTCSEEEEECSB-CCHHHH-HHHHHSBCTTCCEEEEE
T ss_pred             hcCCCCcEEEEeCCCCce-e--cc---ccCCCCcEEEEecCC-CChHHH-HHHHHccCCCCcEEEEe
Confidence            44567777777666 221 0  11   125667777776553 221100 011  246667776665

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.55  E-value=0.00014  Score=73.64  Aligned_cols=48  Identities=19%  Similarity=0.227  Sum_probs=41.7

Q ss_pred             cccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          148 YEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...++||+++++.+.+++.......+-|+|..|+||||+|+.+.+...
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~   68 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            445789999999999999866667788999999999999999998754

>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=97.53  E-value=9.9e-05  Score=83.00  Aligned_cols=38  Identities=21%  Similarity=0.038  Sum_probs=18.6

Q ss_pred             ccccCcccEEEEecCCCcccccCCccccCCccEEeeccc
Q 000945          878 DSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYC  916 (1212)
Q Consensus       878 ~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c  916 (1212)
                      +..+++|+.|+|++| .++.+|+.......|+.|++.++
T Consensus        76 ~~~l~~L~~L~l~~N-~l~~~~~~~~~~~~L~~l~l~~N  113 (347)
T 2ifg_A           76 FHFTPRLSRLNLSFN-ALESLSWKTVQGLSLQELVLSGN  113 (347)
T ss_dssp             GGSCSCCCEEECCSS-CCSCCCSTTTCSCCCCEEECCSS
T ss_pred             hcCCcCCCEEeCCCC-ccceeCHHHcccCCceEEEeeCC
Confidence            344555555555553 34445544333223666666553

>1p6t_A Potential copper-transporting ATPase; COPA, P-type ATPase, water-soluble region, beta-alpha-beta- beta-alpha-beta fold; NMR {Bacillus subtilis} SCOP: d.58.17.1 d.58.17.1 PDB: 2rml_A

Probab=97.53  E-value=0.00011  Score=70.88  Aligned_cols=65  Identities=14%  Similarity=0.091  Sum_probs=58.3

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEE
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      +++.++|. |+|..|+.++.+++.+++||.++.++...++++|.-+   +++.++.+.+++.|+.+.+.
T Consensus        74 ~~~~~~v~gm~C~~C~~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~  142 (151)
T 1p6t_A           74 EKAEFDIEGMTCAACANRIEKRLNKIEGVANAPVNFALETVTVEYNPKEASVSDLKEAVDKLGYKLKLK  142 (151)
T ss_dssp             EEEEEEESSCCSSSHHHHHHHHHTTSSSEEECCEETTTTEEEEEECTTTCCHHHHHHHHHHHTCCEEES
T ss_pred             cccEEEecCCCCHHHHHHHHHHHhcCCCceEEEEEccCCEEEEEECCCCCCHHHHHHHHHHcCCCeEEc
Confidence            46789996 9999999999999999999999999999999999843   78899999999999887653

>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=97.50  E-value=0.00032  Score=72.99  Aligned_cols=50  Identities=14%  Similarity=0.161  Sum_probs=42.1

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++||+..++.+.+++.......+-|+|..|+||||+|+.+++...
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~   63 (226)
T 2chg_A           14 RTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF   63 (226)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHh
Confidence            44556889999999999998866555589999999999999999998753

>2ew9_A Copper-transporting ATPase 2; copper trafficking, ferrodoxin-like fold, structural genomics, structural proteomics in europe, spine, hydrolase; NMR {Homo sapiens}

Probab=97.49  E-value=0.00016  Score=69.58  Aligned_cols=64  Identities=13%  Similarity=0.112  Sum_probs=57.3

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEE
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      +++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+   +++.++.+.+.+.|+.+.+
T Consensus        80 ~~~~~~v~gm~C~~C~~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~  147 (149)
T 2ew9_A           80 GNIELTITGMTCASCVHNIESKLTRTNGITYASVALATSKALVKFDPEIIGPRDIIKIIEEIGFHASL  147 (149)
T ss_dssp             SEEEEEEESCCSHHHHHHHHHHHHHSSSCCEEEEETTTTEEEEECCTTTSCHHHHHHHHHHHTCEEEC
T ss_pred             ceeEEEEEeccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEECCCCCCHHHHHHHHHhCCCceEe
Confidence            45789997 9999999999999999999999999999999999765   5788999999999987653

>2rop_A Copper-transporting ATPase 2; wilson protein, mobility, protein-protein interaction, alternative splicing, ATP-binding, copper transport cytoplasm; NMR {Homo sapiens}

Probab=97.39  E-value=0.00038  Score=70.90  Aligned_cols=66  Identities=12%  Similarity=0.179  Sum_probs=58.8

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEEe
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELVS 1182 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~~ 1182 (1212)
                      +++.++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+   +++.++.+.+++.|+.+.++.
T Consensus       122 ~~~~l~v~Gm~C~~C~~~ie~~l~~~~GV~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~~  191 (202)
T 2rop_A          122 STTLIAIAGMTCASCVHSIEGMISQLEGVQQISVSLAEGTATVLYNPAVISPEELRAAIEDMGFEASVVS  191 (202)
T ss_dssp             EEEEEEESCCCSTHHHHHHHHHGGGSSSEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTSCEEEC-
T ss_pred             eEEEEEECCccCHHHHHHHHHHHHcCCCeEEEEEEccCCEEEEEECCCCCCHHHHHHHHHHcCCceEEcC
Confidence            56789997 9999999999999999999999999999999999754   578899999999998877653

>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=97.29  E-value=0.00061  Score=72.06  Aligned_cols=50  Identities=18%  Similarity=0.313  Sum_probs=41.4

Q ss_pred             CCcccccchHHHHHHHHHHhCCCC-ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPN-VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~-~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++||+..++.+..++.... ..++-|+|.+|+||||+|+.+++...
T Consensus        20 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~   70 (250)
T 1njg_A           20 QTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN   70 (250)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             ccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            345568999999999999887433 35789999999999999999998765

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.27  E-value=0.00065  Score=68.18  Aligned_cols=48  Identities=23%  Similarity=0.247  Sum_probs=41.6

Q ss_pred             cccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          148 YEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...++||+.+++.+.+.+.......+-|+|..|+||||+|+.+.+...
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~   68 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIV   68 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHH
T ss_pred             cchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            445889999999999999876666778999999999999999998754

>2ew9_A Copper-transporting ATPase 2; copper trafficking, ferrodoxin-like fold, structural genomics, structural proteomics in europe, spine, hydrolase; NMR {Homo sapiens}

Probab=97.24  E-value=0.00063  Score=65.36  Aligned_cols=66  Identities=18%  Similarity=0.198  Sum_probs=58.4

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      |+++.++|. |+|.+|+.++.+++.+++||.++.++...++++|..+   +++.++.+.+.+.|+.+.++
T Consensus         3 ~~~~~~~v~gm~C~~C~~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~~~   72 (149)
T 2ew9_A            3 PQKCFLQIKGMTCASCVSNIERNLQKEAGVLSVLVALMAGKAEIKYDPEVIQPLEIAQFIQDLGFEAAVM   72 (149)
T ss_dssp             CEEEEEEEECCCSSSHHHHHHHHHHTTSSCCCEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTCEEEEC
T ss_pred             cEEEEEEECCeecHHHHHHHHHHHhcCCCcEEEEEEecCCEEEEEEcCCCCCHHHHHHHHhcCCCceEee
Confidence            678899997 9999999999999999999999999999999998764   56788999999988876553

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.22  E-value=0.0008  Score=68.59  Aligned_cols=88  Identities=19%  Similarity=0.160  Sum_probs=52.4

Q ss_pred             HHHHHHHHHhCCC----CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC
Q 000945          156 SILNDALDALSNP----NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE  231 (1212)
Q Consensus       156 ~~~~~l~~~L~~~----~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~  231 (1212)
                      ..++.+.+++...    ....|-|+|..|+||||||+++++...  ......+|+.++      .+...+...+..    
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~--~~~~~~~~~~~~------~~~~~~~~~~~~----  103 (202)
T 2w58_A           36 KAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELA--KRNVSSLIVYVP------ELFRELKHSLQD----  103 (202)
T ss_dssp             HHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHH--TTTCCEEEEEHH------HHHHHHHHC-------
T ss_pred             HHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHH--HcCCeEEEEEhH------HHHHHHHHHhcc----
Confidence            3445555555421    116788999999999999999999876  334455666543      344444332211    


Q ss_pred             CChhHHHHHHHHHHHcCCcEEEecCcccc
Q 000945          232 GSESERAMVLCGLLKKGKKILVLDNIWTS  260 (1212)
Q Consensus       232 ~~~~~~~~~l~~~L~~~kr~LVLDDVw~~  260 (1212)
                      ...    ..+.+.+.. ..+|||||++..
T Consensus       104 ~~~----~~~~~~~~~-~~~lilDei~~~  127 (202)
T 2w58_A          104 QTM----NEKLDYIKK-VPVLMLDDLGAE  127 (202)
T ss_dssp             CCC----HHHHHHHHH-SSEEEEEEECCC
T ss_pred             chH----HHHHHHhcC-CCEEEEcCCCCC
Confidence            111    223445554 556699999764

>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=97.20  E-value=0.00065  Score=67.76  Aligned_cols=90  Identities=19%  Similarity=0.170  Sum_probs=53.7

Q ss_pred             hHHHHHHHHHHhCC---CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCccc
Q 000945          154 RKSILNDALDALSN---PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC  230 (1212)
Q Consensus       154 r~~~~~~l~~~L~~---~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~  230 (1212)
                      +...++.+.++..+   ..-..+.|+|..|.||||||+.+++.......+.. .++      +...+...+........ 
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~-~~~------~~~~~~~~~~~~~~~~~-   90 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRG-YFF------DTKDLIFRLKHLMDEGK-   90 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCC-CEE------EHHHHHHHHHHHHHHTC-
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeE-EEE------EHHHHHHHHHHHhcCch-
Confidence            34444445444432   23578999999999999999999998753333322 232      34445555444332211 


Q ss_pred             CCChhHHHHHHHHHHHcCCcEEEecCccc
Q 000945          231 EGSESERAMVLCGLLKKGKKILVLDNIWT  259 (1212)
Q Consensus       231 ~~~~~~~~~~l~~~L~~~kr~LVLDDVw~  259 (1212)
                         ..    .+.+.+.+ ..+|||||++.
T Consensus        91 ---~~----~~~~~~~~-~~llilDE~~~  111 (180)
T 3ec2_A           91 ---DT----KFLKTVLN-SPVLVLDDLGS  111 (180)
T ss_dssp             ---CS----HHHHHHHT-CSEEEEETCSS
T ss_pred             ---HH----HHHHHhcC-CCEEEEeCCCC
Confidence               11    34455554 77779999984

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.14  E-value=0.033  Score=63.30  Aligned_cols=31  Identities=13%  Similarity=0.241  Sum_probs=17.5

Q ss_pred             ccEEEEecCCCCCccCchhhhccCCCccEEEEcc
Q 000945          496 LKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVIN  529 (1212)
Q Consensus       496 L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~  529 (1212)
                      |+.+.|-.  .++.+.. ..+.++.+|+.+.+..
T Consensus        66 L~sI~iP~--svt~Ig~-~AF~~C~~L~~i~~~~   96 (394)
T 4gt6_A           66 LTSVQIPD--TVTEIGS-NAFYNCTSLKRVTIQD   96 (394)
T ss_dssp             CCEEEECT--TCCEECT-TTTTTCTTCCEEEEGG
T ss_pred             CEEEEECC--CeeEEhH-HHhhCCccCceEeecC
Confidence            66666643  4555533 3456666676666654

>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=97.01  E-value=0.00072  Score=74.96  Aligned_cols=50  Identities=18%  Similarity=0.233  Sum_probs=42.4

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +.....++|++..++.+.+++..+....+-|+|++|+||||+|+.+.+..
T Consensus        17 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           17 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            34456688999999999999886665558999999999999999999875

>2rop_A Copper-transporting ATPase 2; wilson protein, mobility, protein-protein interaction, alternative splicing, ATP-binding, copper transport cytoplasm; NMR {Homo sapiens}

Probab=96.64  E-value=0.0032  Score=63.97  Aligned_cols=60  Identities=18%  Similarity=0.208  Sum_probs=52.7

Q ss_pred             cceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhh
Q 000945         1115 TKQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQ 1174 (1212)
Q Consensus      1115 ~~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~ 1174 (1212)
                      .++++.++|. |+|.+|+.++.+++.+++||.++.++...++++|..+   +++..+.+.+++.
T Consensus        18 ~~~~~~l~v~Gm~C~~C~~~ie~~l~~~~GV~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~   81 (202)
T 2rop_A           18 HVVTLQLRIDGMHCKSCVLNIEENIGQLLGVQSIQVSLENKTAQVKYDPSCTSPVALQRAIEAL   81 (202)
T ss_dssp             --CEEEEEEESGGGSTHHHHHHHHTTSBTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHTTS
T ss_pred             ccEEEEEEECCeEcHHHHHHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            4567889998 9999999999999999999999999999999999865   5678888888886

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.62  E-value=0.028  Score=63.92  Aligned_cols=114  Identities=9%  Similarity=0.071  Sum_probs=67.3

Q ss_pred             ccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecC
Q 000945          813 SENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWC  892 (1212)
Q Consensus       813 ~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c  892 (1212)
                      +..+....|.++.+|+.+.+.. .+..+..     ..+..+++|+.+.+..  .+..++   ...+.++++|+.+.|.. 
T Consensus       253 v~~i~~~aF~~c~~L~~i~lp~-~~~~I~~-----~aF~~c~~L~~i~l~~--~i~~I~---~~aF~~c~~L~~i~lp~-  320 (394)
T 4gt6_A          253 VARIETHAFDSCAYLASVKMPD-SVVSIGT-----GAFMNCPALQDIEFSS--RITELP---ESVFAGCISLKSIDIPE-  320 (394)
T ss_dssp             EEEECTTTTTTCSSCCEEECCT-TCCEECT-----TTTTTCTTCCEEECCT--TCCEEC---TTTTTTCTTCCEEECCT-
T ss_pred             ceEcccceeeecccccEEeccc-ccceecC-----cccccccccccccCCC--cccccC---ceeecCCCCcCEEEeCC-
Confidence            3344455567777777776641 1222211     2234467777777653  344442   34556777888888764 


Q ss_pred             CCcccccCC-ccccCCccEEeeccccCcccccchhhhcccccccEEEecCc
Q 000945          893 ENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGC  942 (1212)
Q Consensus       893 ~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c  942 (1212)
                       .++.+... +..+++|+.+.|-.  +++.+.. ..+.++++|+.+++.+.
T Consensus       321 -~v~~I~~~aF~~C~~L~~i~ip~--sv~~I~~-~aF~~C~~L~~i~~~~~  367 (394)
T 4gt6_A          321 -GITQILDDAFAGCEQLERIAIPS--SVTKIPE-SAFSNCTALNNIEYSGS  367 (394)
T ss_dssp             -TCCEECTTTTTTCTTCCEEEECT--TCCBCCG-GGGTTCTTCCEEEESSC
T ss_pred             -cccEehHhHhhCCCCCCEEEECc--ccCEEhH-hHhhCCCCCCEEEECCc
Confidence             35566543 45677888888854  5666643 34567788888888764

>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=96.59  E-value=0.0016  Score=72.21  Aligned_cols=49  Identities=16%  Similarity=0.215  Sum_probs=41.7

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++|++..++.+.+++..+....+-|+|..|+||||+|+.+++..
T Consensus        22 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           22 QRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            3455688999999999998876666568999999999999999999875

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.58  E-value=0.0054  Score=66.31  Aligned_cols=51  Identities=25%  Similarity=0.264  Sum_probs=40.6

Q ss_pred             CCCcccccchHHHHHHHHHHhCC-------------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSN-------------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~-------------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ......++|.++.++.+.+.+..             ....-+-|+|..|+||||||+++.+...
T Consensus        13 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~   76 (285)
T 3h4m_A           13 NVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETN   76 (285)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTT
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            34566788999999888877631             3455688999999999999999998754

>1p6t_A Potential copper-transporting ATPase; COPA, P-type ATPase, water-soluble region, beta-alpha-beta- beta-alpha-beta fold; NMR {Bacillus subtilis} SCOP: d.58.17.1 d.58.17.1 PDB: 2rml_A

Probab=96.53  E-value=0.0047  Score=59.28  Aligned_cols=62  Identities=11%  Similarity=0.148  Sum_probs=53.3

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCc
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCA 1177 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~ 1177 (1212)
                      +++..++|. |+|.+|+.++.+++.+++||..+.++...++++|..+   +++..+.+.+++.++.
T Consensus         5 ~~~~~~~v~gm~C~~C~~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~   70 (151)
T 1p6t_A            5 QKEIAMQVSGMTCAACAARIEKGLKRMPGVTDANVNLATETVNVIYDPAETGTAAIQEKIEKLGYH   70 (151)
T ss_dssp             CEEEEEEEESCCSSHHHHHHHHHHTTSSSEEEEEEEGGGTEEEEEECTTTSCHHHHHHHHHHHTCE
T ss_pred             ceEEEEEECCCcCHHHHHHHHHHHhcCCCeeEEEEEccCCEEEEEEcCCcCCHHHHHHHHHHcCCc
Confidence            456778888 9999999999999999999999999999999888644   5778888888887763

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.28  E-value=0.0082  Score=65.81  Aligned_cols=46  Identities=17%  Similarity=0.164  Sum_probs=33.6

Q ss_pred             ccchHHHHHHHHHHhC---------------CCCceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          151 FESRKSILNDALDALS---------------NPNVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~---------------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      ++|.+..++.+.+++.               ......|-|+|..|+||||+|+.+.+....
T Consensus        33 i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~   93 (309)
T 3syl_A           33 LIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHR   93 (309)
T ss_dssp             SSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             ccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5666766666655432               234456889999999999999998887653

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.26  E-value=0.011  Score=67.70  Aligned_cols=51  Identities=25%  Similarity=0.363  Sum_probs=41.1

Q ss_pred             CCCcccccchHHHH---HHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSIL---NDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~---~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.....++|.+..+   ..+..++.......+-|||..|+||||+|+.+.+...
T Consensus        22 P~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~   75 (447)
T 3pvs_A           22 PENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYAN   75 (447)
T ss_dssp             CCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhC
Confidence            34456688888777   6677777666778899999999999999999998764

>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=96.23  E-value=0.22  Score=56.11  Aligned_cols=13  Identities=23%  Similarity=0.294  Sum_probs=6.4

Q ss_pred             hccCCCcEEEecc
Q 000945          667 RNFVQLEHLEICY  679 (1212)
Q Consensus       667 ~~l~~L~~L~l~~  679 (1212)
                      ....+|+.+.+..
T Consensus       155 ~~~~~l~~~~~~~  167 (379)
T 4h09_A          155 YKAENLEKIEVSS  167 (379)
T ss_dssp             TTCTTCCEEEECT
T ss_pred             ccccccccccccc
Confidence            3445555555543

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.11  E-value=0.033  Score=60.45  Aligned_cols=50  Identities=18%  Similarity=0.155  Sum_probs=39.5

Q ss_pred             CCcccccchHHHHHHHHHHhCC------------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSN------------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~------------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..++.+.+++..            .....|-|+|..|+||||+|+++.+...
T Consensus        18 ~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~   79 (297)
T 3b9p_A           18 VEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECS   79 (297)
T ss_dssp             CCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTT
T ss_pred             CCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhC
Confidence            3456688999999888877631            2346788999999999999999998653

>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=95.96  E-value=0.012  Score=67.50  Aligned_cols=89  Identities=19%  Similarity=0.268  Sum_probs=52.0

Q ss_pred             HHHHHHHHhCCCC-ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCE--EEEEEecCCCCHHHHHHHHHHHhcCcccCCC
Q 000945          157 ILNDALDALSNPN-VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDE--VVFVEVSQTPDVKRIQGDIADQLGLYICEGS  233 (1212)
Q Consensus       157 ~~~~l~~~L~~~~-~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~--~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~  233 (1212)
                      ....+........ ...+.|+|..|+||||||+++++...  ..|..  .+++..      ..+..++...+...     
T Consensus       116 a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~--~~~~~~~v~~v~~------~~~~~~~~~~~~~~-----  182 (440)
T 2z4s_A          116 AYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVV--QNEPDLRVMYITS------EKFLNDLVDSMKEG-----  182 (440)
T ss_dssp             HHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHH--HHCCSSCEEEEEH------HHHHHHHHHHHHTT-----
T ss_pred             HHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH--HhCCCCeEEEeeH------HHHHHHHHHHHHcc-----
Confidence            3344444443322 66789999999999999999999764  22321  233332      23444555544322     


Q ss_pred             hhHHHHHHHHHHHcCCcEEEecCccccc
Q 000945          234 ESERAMVLCGLLKKGKKILVLDNIWTSL  261 (1212)
Q Consensus       234 ~~~~~~~l~~~L~~~kr~LVLDDVw~~~  261 (1212)
                         ....+.+.+..+..+|++||++...
T Consensus       183 ---~~~~~~~~~~~~~~vL~IDEi~~l~  207 (440)
T 2z4s_A          183 ---KLNEFREKYRKKVDILLIDDVQFLI  207 (440)
T ss_dssp             ---CHHHHHHHHTTTCSEEEEECGGGGS
T ss_pred             ---cHHHHHHHhcCCCCEEEEeCccccc
Confidence               1223444554225677999997653

>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=95.94  E-value=0.01  Score=69.86  Aligned_cols=51  Identities=25%  Similarity=0.231  Sum_probs=42.5

Q ss_pred             cCCCcccccchHHHHHHHHHHhCC-----------------CCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          144 CSEGYEAFESRKSILNDALDALSN-----------------PNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~~-----------------~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+.....++|++..++.+.+++..                 ...+.+-|+|..|+||||+|+.+.+..
T Consensus        34 rP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l  101 (516)
T 1sxj_A           34 APTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL  101 (516)
T ss_dssp             CCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            344567789999999999999864                 134688999999999999999999876

>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=95.86  E-value=0.021  Score=60.71  Aligned_cols=48  Identities=23%  Similarity=0.186  Sum_probs=34.3

Q ss_pred             cccccchHHHHHHHHHHh---CC---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          148 YEAFESRKSILNDALDAL---SN---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L---~~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...++|.+..++.+.+++   ..         ....-|-|+|..|+||||+|+++.+...
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~   64 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQ   64 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            445677777776665543   21         1234577999999999999999999764

>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=95.86  E-value=0.0081  Score=63.14  Aligned_cols=171  Identities=14%  Similarity=0.091  Sum_probs=85.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCC--CCH--HHHHHHHHHHhcCcccCC-------------
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQT--PDV--KRIQGDIADQLGLYICEG-------------  232 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~--~~~--~~l~~~il~~l~~~~~~~-------------  232 (1212)
                      -.-|.|-+...-.|++|.+.|-+...  ..|..+-|-+....  |=+  ...... +....+.....             
T Consensus        24 w~kv~I~~g~ky~k~~ll~~i~~~~~--~~f~p~~~~~~~~~~~ffV~~~~~A~~-l~~~~g~i~~~~~~ki~~~v~~~~  100 (267)
T 3rw6_A           24 WFKITIPYGRKYDKAWLLSMIQSKCS--VPFTPIEFHYENTRAQFFVEDASTASA-LKAVNYKILDRENRRISIIINSSA  100 (267)
T ss_dssp             CEEEEETTGGGSCHHHHHHHHHHTCS--SCCCCEEEEEETTEEEEEESCHHHHHH-HHHTTSSCBCTTSCBCCCEEEECC
T ss_pred             eEEEEecCccccCHHHHHHHHHHhCC--CCcEeEEEEEeCCEEEEEeCChHHHHH-HHhcCcEEECCCCCEEEEEEecCC
Confidence            34566677667778888888866554  55766666543321  111  111112 12222211100             


Q ss_pred             --------ChhHHHHHHHHHHHcCCcEE------EecCcccccccccccee--eeccCCccccccHHH----Hhhccccc
Q 000945          233 --------SESERAMVLCGLLKKGKKIL------VLDNIWTSLDLDKKLEI--LSLVDSNIEQLPEEM----AQLTQLRL  292 (1212)
Q Consensus       233 --------~~~~~~~~l~~~L~~~kr~L------VLDDVw~~~~~~~~Lr~--L~ls~~~i~~lp~~i----~~L~~L~~  292 (1212)
                              -..+..+.|+..+.  +||=      =|+.+-...    .|+.  ++++.|....++..+    .++.+|+.
T Consensus       101 ~~~~~~~~l~~~~~~~Lk~~l~--~ryn~~~~~LdLs~l~~dp----~L~~~~l~l~~N~~~~~~~~l~i~~~~l~~L~~  174 (267)
T 3rw6_A          101 PPHTILNELKPEQVEQLKLIMS--KRYDGSQQALDLKGLRSDP----DLVAQNIDVVLNRRSCMAATLRIIEENIPELLS  174 (267)
T ss_dssp             CCHHHHTSCCHHHHHHHHHHHH--HTEETTTTEEECTTGGGCH----HHHHTTCCCCTTSHHHHHHHHHHHHHHCTTCCE
T ss_pred             CcccccccCCHHHHHHHHHHHH--hccchhccccCHHHcCCCc----chhhcCccccCCHHHHHHHHHHHHHhhCCCCCE
Confidence                    01123345555554  4543      333333332    2333  455556544443322    45667777


Q ss_pred             ccccCCCCCcccch--hHhhccccCceeecCCCcceeeeeccccCCCccchhhhhcCCCCCcceeeecccc
Q 000945          293 FDLSGCSKLKVIPP--NLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAM  361 (1212)
Q Consensus       293 L~Ls~~~~l~~lp~--~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~l~~L~~L~l~~~~~~  361 (1212)
                      |+|++| .|..++.  ..+..+.+|++|++++|.+.-          ...+..+..+ +|+.|.+..|.+.
T Consensus       175 L~Ls~N-~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~----------~~~l~~l~~l-~L~~L~L~~Npl~  233 (267)
T 3rw6_A          175 LNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGNELKS----------ERELDKIKGL-KLEELWLDGNSLC  233 (267)
T ss_dssp             EECTTS-CCCCCGGGTTHHHHSTTCCEEECTTSCCCS----------GGGGGGGTTS-CCSEEECTTSTTG
T ss_pred             EECCCC-CCCCCccchhHHhhCCCCCEEECCCCccCC----------chhhhhcccC-CcceEEccCCcCc
Confidence            777777 5665542  235677777777777777640          0112333333 6777777777654

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.85  E-value=0.028  Score=61.51  Aligned_cols=50  Identities=24%  Similarity=0.190  Sum_probs=37.8

Q ss_pred             CCCcccccchHHHHHHHHHHhC------------CCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          145 SEGYEAFESRKSILNDALDALS------------NPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~------------~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ......|.|.++.++.+.+.+.            ....+-|-++|..|+||||||+++.+..
T Consensus         8 ~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A            8 NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc
Confidence            3445667888888877776552            1123678899999999999999999975

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.85  E-value=0.014  Score=55.51  Aligned_cols=46  Identities=20%  Similarity=0.233  Sum_probs=31.7

Q ss_pred             HHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec
Q 000945          162 LDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS  209 (1212)
Q Consensus       162 ~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs  209 (1212)
                      +..+..-.-..++|+|..|.||||||+.+++..... .+. .+++...
T Consensus        28 ~~~l~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~-g~~-~~~~~~~   73 (149)
T 2kjq_A           28 VYVLRHKHGQFIYVWGEEGAGKSHLLQAWVAQALEA-GKN-AAYIDAA   73 (149)
T ss_dssp             HHHCCCCCCSEEEEESSSTTTTCHHHHHHHHHHHTT-TCC-EEEEETT
T ss_pred             HHHHHhcCCCEEEEECCCCCCHHHHHHHHHHHHHhc-CCc-EEEEcHH
Confidence            344433255689999999999999999999977532 222 4555443

>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=95.81  E-value=0.024  Score=61.51  Aligned_cols=51  Identities=18%  Similarity=0.231  Sum_probs=38.6

Q ss_pred             CCCcccccchHHHHHHHHHHhCC-------------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSN-------------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~-------------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ......+.|.+..++.+.+++..             .....|.|+|..|+||||||+++.+...
T Consensus        11 ~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~   74 (301)
T 3cf0_A           11 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ   74 (301)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhC
Confidence            34455678888877777665531             2456789999999999999999999764

>3j09_A COPA, copper-exporting P-type ATPase A; copper transporter, adenosine triphosph archaeal proteins, cation transport proteins; 10.00A {Archaeoglobus fulgidus}

Probab=95.77  E-value=0.015  Score=71.16  Aligned_cols=61  Identities=11%  Similarity=0.133  Sum_probs=55.6

Q ss_pred             EEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCce
Q 000945         1118 KAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCAT 1178 (1212)
Q Consensus      1118 ~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~ 1178 (1212)
                      ++.++|+ |+|.+|+.++.+++.+++||.++.++...++++|.-+   +++.++.+.+++.|+.+
T Consensus         3 ~~~l~V~GM~Ca~Ca~~Ie~~L~~~~GV~~v~Vnl~~~~~~V~~d~~~~~~~~i~~ai~~~Gy~~   67 (723)
T 3j09_A            3 ERTVRVTGMTCAMCVKSIETAVGSLEGVEEVRVNLATETAFIRFDEKRIDFETIKRVIEDLGYGV   67 (723)
T ss_dssp             CEEEEEETCCSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHHCCEE
T ss_pred             eEEEEeCCCCchHHHHHHHHHHhcCCCceEEEEEcCCCEEEEEeCCCcCCHHHHHHHHHhcCCcc
Confidence            4678898 9999999999999999999999999999999999754   78999999999988865

>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=95.76  E-value=0.031  Score=62.37  Aligned_cols=50  Identities=20%  Similarity=0.157  Sum_probs=39.1

Q ss_pred             CCcccccchHHHHHHHHHHhC------------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALS------------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~------------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..++.+.+++.            ......|-|+|..|+||||||+++.+...
T Consensus        81 ~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~  142 (357)
T 3d8b_A           81 VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSG  142 (357)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcC
Confidence            345568899988888887763            12356788999999999999999998653

>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=95.51  E-value=0.03  Score=61.70  Aligned_cols=89  Identities=22%  Similarity=0.188  Sum_probs=51.0

Q ss_pred             HHHHHHHHHhCCC--CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCC
Q 000945          156 SILNDALDALSNP--NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGS  233 (1212)
Q Consensus       156 ~~~~~l~~~L~~~--~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~  233 (1212)
                      .....+..+....  ....+-|+|..|+||||||+.+.+..... .+. .+++..      ..+..++...+...     
T Consensus        21 ~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~-~~~-~~~i~~------~~~~~~~~~~~~~~-----   87 (324)
T 1l8q_A           21 LAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR-GYR-VIYSSA------DDFAQAMVEHLKKG-----   87 (324)
T ss_dssp             HHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT-TCC-EEEEEH------HHHHHHHHHHHHHT-----
T ss_pred             HHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC-CCE-EEEEEH------HHHHHHHHHHHHcC-----
Confidence            3344444444432  34678899999999999999999976422 222 233332      23344444433211     


Q ss_pred             hhHHHHHHHHHHHcCCcEEEecCccccc
Q 000945          234 ESERAMVLCGLLKKGKKILVLDNIWTSL  261 (1212)
Q Consensus       234 ~~~~~~~l~~~L~~~kr~LVLDDVw~~~  261 (1212)
                         ....+...+.+ ..+|++||+....
T Consensus        88 ---~~~~~~~~~~~-~~vL~iDEi~~l~  111 (324)
T 1l8q_A           88 ---TINEFRNMYKS-VDLLLLDDVQFLS  111 (324)
T ss_dssp             ---CHHHHHHHHHT-CSEEEEECGGGGT
T ss_pred             ---cHHHHHHHhcC-CCEEEEcCccccc
Confidence               11223444553 6677999997653

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=95.37  E-value=0.01  Score=56.40  Aligned_cols=44  Identities=20%  Similarity=0.280  Sum_probs=33.3

Q ss_pred             cccchHHHHHHHHHHhC---CCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          150 AFESRKSILNDALDALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +++|+...++.+.+.+.   ..+.. |-|+|..|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~-vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIA-VWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSC-EEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCC-EEEECCCCCCHHHHHHHHHHhC
Confidence            46788888888877664   33344 5699999999999999999864

>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=95.34  E-value=0.068  Score=58.63  Aligned_cols=53  Identities=25%  Similarity=0.195  Sum_probs=41.0

Q ss_pred             ccCCCcccccchHHHHHHHHHHhC------------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          143 MCSEGYEAFESRKSILNDALDALS------------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       143 ~~~~~~~~i~gr~~~~~~l~~~L~------------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+......++|.+..++.+.+++.            .....-|-++|..|+|||+||+++.+...
T Consensus        12 ~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~   76 (322)
T 3eie_A           12 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN   76 (322)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHT
T ss_pred             CCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHC
Confidence            344556778899999988888772            11235688999999999999999998754

>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=95.33  E-value=0.034  Score=70.03  Aligned_cols=51  Identities=18%  Similarity=0.182  Sum_probs=42.6

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ......++||+++++.+++.+......-+-++|..|+||||+|+.+.+...
T Consensus       166 ~~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~  216 (854)
T 1qvr_A          166 EGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIV  216 (854)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHH
T ss_pred             cCCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHh
Confidence            344566899999999999998765555678999999999999999998763

>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=95.29  E-value=0.052  Score=62.41  Aligned_cols=51  Identities=24%  Similarity=0.166  Sum_probs=39.8

Q ss_pred             cCCCcccccchHHHHHHHHHHhC------------CCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          144 CSEGYEAFESRKSILNDALDALS------------NPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~------------~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +......|.|.+..++.+.+.+.            ....+-|-|+|..|+||||||+++.+..
T Consensus       129 ~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~  191 (444)
T 2zan_A          129 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA  191 (444)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            34455668899988888887763            1234678899999999999999999975

>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=95.23  E-value=0.025  Score=59.11  Aligned_cols=54  Identities=20%  Similarity=0.237  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecC
Q 000945          155 KSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQ  210 (1212)
Q Consensus       155 ~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~  210 (1212)
                      ...++.+..+........+-|+|..|+||||||+.+.+.....  .....|+.++.
T Consensus        37 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~--~~~~~~~~~~~   90 (242)
T 3bos_A           37 DELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL--ERRSFYIPLGI   90 (242)
T ss_dssp             HHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEGGG
T ss_pred             HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHHH
Confidence            3455555555555456788999999999999999999976532  33456666543

>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=95.20  E-value=0.43  Score=53.61  Aligned_cols=63  Identities=8%  Similarity=0.086  Sum_probs=37.1

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeec
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVG  688 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~  688 (1212)
                      ..+|+.+.|.. +++.+....|.  .+.+|+.+.|..  .++.+....+ .+. +|+.+.+-  .+++.|+.
T Consensus        45 ~~~i~~v~ip~-~vt~Ig~~aF~--~C~~L~~I~lp~--~v~~Ig~~aF-~~c-~l~~i~~~--~~l~~I~~  107 (379)
T 4h09_A           45 RDRISEVRVNS-GITSIGEANFN--SCYNMTKVTVAS--TVTSIGDGAF-ADT-KLQSYTGM--ERVKKFGD  107 (379)
T ss_dssp             GGGCSEEEECT-TEEEECTTTTT--TCTTCCEEEECT--TCCEECTTTT-TTC-CCCEEEEC--TTCCEECT
T ss_pred             ccCCEEEEeCC-CccChHHHHhh--CCCCCCEEEeCC--cceEechhhh-cCC-CCceEECC--ceeeEecc
Confidence            35677777654 34555555554  577888888864  4666655544 344 56666653  34666643

>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=95.18  E-value=0.073  Score=66.26  Aligned_cols=49  Identities=27%  Similarity=0.380  Sum_probs=41.9

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++||+.+++.+++.|......-+-|+|..|+||||+|+.+.+..
T Consensus       183 ~~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          183 GGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            3455689999999999999986555667899999999999999999875

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=95.15  E-value=0.012  Score=62.78  Aligned_cols=69  Identities=13%  Similarity=0.150  Sum_probs=44.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEe--cCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcC
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEV--SQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKG  248 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~v--s~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~  248 (1212)
                      +++-|+|++|+||||||..+.....     ..+.|+++  .+..+.               ...+.......+.+.+.+ 
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~~G-----~~VlyIs~~~eE~v~~---------------~~~~le~~l~~i~~~l~~-  182 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEALG-----GKDKYATVRFGEPLSG---------------YNTDFNVFVDDIARAMLQ-  182 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHHHH-----TTSCCEEEEBSCSSTT---------------CBCCHHHHHHHHHHHHHH-
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhCC-----CCEEEEEecchhhhhh---------------hhcCHHHHHHHHHHHHhh-
Confidence            5677999999999999999877511     23456666  332111               012344556667777776 


Q ss_pred             CcEEEecCcccc
Q 000945          249 KKILVLDNIWTS  260 (1212)
Q Consensus       249 kr~LVLDDVw~~  260 (1212)
                      .+++|+|++-..
T Consensus       183 ~~LLVIDsI~aL  194 (331)
T 2vhj_A          183 HRVIVIDSLKNV  194 (331)
T ss_dssp             CSEEEEECCTTT
T ss_pred             CCEEEEeccccc
Confidence            453399998754

>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=95.12  E-value=0.0055  Score=64.39  Aligned_cols=63  Identities=22%  Similarity=0.137  Sum_probs=39.5

Q ss_pred             ccCcccEEEEecCCCcc--cccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcch
Q 000945          880 ITENLESLEVWWCENLI--NLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRM  944 (1212)
Q Consensus       880 ~l~~L~~L~l~~c~~l~--~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~  944 (1212)
                      ++++|+.|++++|..-.  .+|..+..+++|+.|+|++ +.++.+.....+..+ +|++|++++++-
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~-N~i~~~~~l~~l~~l-~L~~L~L~~Npl  232 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSG-NELKSERELDKIKGL-KLEELWLDGNSL  232 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTT-SCCCSGGGGGGGTTS-CCSEEECTTSTT
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCC-CccCCchhhhhcccC-CcceEEccCCcC
Confidence            45667777777654322  3444455778888888887 467666322223333 788888888873

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=95.09  E-value=0.0059  Score=60.88  Aligned_cols=15  Identities=13%  Similarity=0.007  Sum_probs=9.1

Q ss_pred             cccccccEEEecCcc
Q 000945          929 KSLVCLTKLRIDGCR  943 (1212)
Q Consensus       929 ~~l~~L~~L~i~~c~  943 (1212)
                      ...++|++|++++|.
T Consensus       148 ~~n~~L~~L~L~~n~  162 (185)
T 1io0_A          148 EKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             HHCSSCCEEECCCSS
T ss_pred             HhCCCcCEEeccCCC
Confidence            334566777776665

>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=95.06  E-value=0.091  Score=57.75  Aligned_cols=51  Identities=18%  Similarity=0.074  Sum_probs=41.1

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.....++|++..++.+.+++..... .++-+.|..|+||||+|+++.+...
T Consensus        22 P~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~   73 (324)
T 3u61_B           22 PSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVN   73 (324)
T ss_dssp             CCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTT
T ss_pred             CCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            44566788999999999998875543 5677788899999999999988653

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=95.04  E-value=0.082  Score=59.74  Aligned_cols=52  Identities=19%  Similarity=0.200  Sum_probs=40.7

Q ss_pred             cCCCcccccchHHHHHHHHHHhC------------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          144 CSEGYEAFESRKSILNDALDALS------------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~------------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +......++|.+..++.+.+++.            .....-|-|+|..|+|||+||++|.+...
T Consensus       110 ~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~  173 (389)
T 3vfd_A          110 TAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESN  173 (389)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTT
T ss_pred             CCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhc
Confidence            34456678999999999888773            11245788999999999999999987643

>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=95.02  E-value=0.02  Score=62.94  Aligned_cols=49  Identities=14%  Similarity=0.186  Sum_probs=41.6

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++|++..++.+.+++..+....+-|+|..|+||||+|+.+.+..
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           14 RTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             SSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHH
T ss_pred             CCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHh
Confidence            3455688999999999998886665558999999999999999999875

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=95.01  E-value=0.02  Score=66.35  Aligned_cols=49  Identities=24%  Similarity=0.304  Sum_probs=41.0

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++||+.+++.++..+......-+-|+|..|+||||+|+.+....
T Consensus       177 ~~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          177 DSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             SCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            3455689999999999999875444556799999999999999999875

>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=95.01  E-value=0.079  Score=58.86  Aligned_cols=50  Identities=26%  Similarity=0.230  Sum_probs=37.5

Q ss_pred             CCcccccchHHHHHHHHHHhC------------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALS------------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~------------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....|+|.+..++.+.+.+.            ....+-|-|+|..|+||||||+++.+...
T Consensus        48 ~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~  109 (355)
T 2qp9_X           48 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN  109 (355)
T ss_dssp             CCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhC
Confidence            345567888888888877662            01223478999999999999999999764

>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=94.80  E-value=0.016  Score=64.78  Aligned_cols=50  Identities=14%  Similarity=0.183  Sum_probs=41.6

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +.....++|+++.++.+..++.......+-|+|..|+||||+|+.+.+..
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            44456688999999999999886655558999999999999999998874

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=94.65  E-value=0.032  Score=56.34  Aligned_cols=42  Identities=24%  Similarity=0.264  Sum_probs=32.9

Q ss_pred             hHHHHHHHHHHhCC---CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          154 RKSILNDALDALSN---PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       154 r~~~~~~l~~~L~~---~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |++.++.+.+.+..   ....+|+|.|..|.||||+|+.+.....
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45566677776653   3567999999999999999999988654

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.55  E-value=0.045  Score=59.39  Aligned_cols=91  Identities=21%  Similarity=0.259  Sum_probs=49.5

Q ss_pred             hHHHHHHHHHHhCC---CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCccc
Q 000945          154 RKSILNDALDALSN---PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC  230 (1212)
Q Consensus       154 r~~~~~~l~~~L~~---~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~  230 (1212)
                      +....+.+.+++..   ..-..+-|||..|+|||+||+++.+.......+. +.++.++      .+..++...+.    
T Consensus       133 ~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~-v~~~~~~------~l~~~l~~~~~----  201 (308)
T 2qgz_A          133 RMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVS-TTLLHFP------SFAIDVKNAIS----  201 (308)
T ss_dssp             HHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCC-EEEEEHH------HHHHHHHCCCC----
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCc-EEEEEHH------HHHHHHHHHhc----
Confidence            33344444455542   1246788999999999999999999765223333 4455443      23333322111    


Q ss_pred             CCChhHHHHHHHHHHHcCCcEEEecCcccc
Q 000945          231 EGSESERAMVLCGLLKKGKKILVLDNIWTS  260 (1212)
Q Consensus       231 ~~~~~~~~~~l~~~L~~~kr~LVLDDVw~~  260 (1212)
                      ...    ...+...+.+ -.+|||||+...
T Consensus       202 ~~~----~~~~~~~~~~-~~lLiiDdig~~  226 (308)
T 2qgz_A          202 NGS----VKEEIDAVKN-VPVLILDDIGAE  226 (308)
T ss_dssp             --------CCTTHHHHT-SSEEEEETCCC-
T ss_pred             cch----HHHHHHHhcC-CCEEEEcCCCCC
Confidence            111    1112334553 566799999543

>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=94.50  E-value=0.11  Score=55.45  Aligned_cols=46  Identities=20%  Similarity=0.142  Sum_probs=32.4

Q ss_pred             cccchHHHHHHHHH-------HhC---CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          150 AFESRKSILNDALD-------ALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~-------~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +++|....++.++.       .+.   .....-+-|+|..|+||||+|+++.+...
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            35555555555444       332   34556788999999999999999999743

>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=94.50  E-value=0.026  Score=63.10  Aligned_cols=49  Identities=16%  Similarity=0.168  Sum_probs=39.9

Q ss_pred             CCcccccchHHHHHHHHHHh-CCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDAL-SNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L-~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++|++..++.+.+++ ..+....+.|+|..|+||||+|+.+.+..
T Consensus        11 ~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           11 KSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            34556789999999998888 65554459999999999999999998853

>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=94.48  E-value=0.024  Score=62.44  Aligned_cols=49  Identities=20%  Similarity=0.282  Sum_probs=38.8

Q ss_pred             CcccccchHHHHHHHHHHhC-----CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALS-----NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~-----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....++|++..++.+..++.     ......|-|+|..|+||||+|+++.+...
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~   63 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG   63 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHT
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhC
Confidence            34568899988888877764     22345688999999999999999998664

>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=94.47  E-value=0.17  Score=52.74  Aligned_cols=91  Identities=12%  Similarity=0.126  Sum_probs=54.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcC----CCCEEEEEEecCCCCHHHHHHHHHHHhcCcc----------cCCCh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK----LCDEVVFVEVSQTPDVKRIQGDIADQLGLYI----------CEGSE  234 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~----------~~~~~  234 (1212)
                      .-.++.|+|..|.||||||+.+........    .-..++|+.....++..++. ++++.++...          ...+.
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~  101 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNT  101 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCH
Confidence            346899999999999999999987533211    23578888777766665543 3444454321          11122


Q ss_pred             hH---HHHHHHHHHHcCCcEE-EecCcccc
Q 000945          235 SE---RAMVLCGLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       235 ~~---~~~~l~~~L~~~kr~L-VLDDVw~~  260 (1212)
                      .+   ....+.+.+...+--+ |+|.+...
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~lliiD~~~~~  131 (243)
T 1n0w_A          102 DHQTQLLYQASAMMVESRYALLIVDSATAL  131 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSSGG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEeCchHH
Confidence            22   2333555554323334 99988755

>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=94.38  E-value=0.14  Score=55.03  Aligned_cols=28  Identities=29%  Similarity=0.190  Sum_probs=24.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      .-.+|+|+|.+|+||||++..+......
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~  131 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISML  131 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4569999999999999999999876653

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=94.32  E-value=0.036  Score=61.51  Aligned_cols=50  Identities=28%  Similarity=0.472  Sum_probs=40.1

Q ss_pred             CCcccccchHHHHHHHHHHhC-----CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALS-----NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~-----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|++..++.+..++.     ......|-|+|..|+||||+|+++.+...
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~   80 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMS   80 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhC
Confidence            356678999999988888775     23445688999999999999999987653

>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=94.17  E-value=0.091  Score=53.85  Aligned_cols=46  Identities=22%  Similarity=0.137  Sum_probs=34.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQG  219 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~  219 (1212)
                      .-.++.|+|.+|.||||||+.+.. ..    =..++|+.....++..++.+
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-~~----~~~v~~i~~~~~~~~~~~~~   64 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-LS----GKKVAYVDTEGGFSPERLVQ   64 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-HH----CSEEEEEESSCCCCHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-Hc----CCcEEEEECCCCCCHHHHHH
Confidence            346899999999999999999987 21    24678887766667666543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=94.15  E-value=0.022  Score=56.66  Aligned_cols=86  Identities=13%  Similarity=0.139  Sum_probs=50.3

Q ss_pred             cceeeeccCCcccc-----ccHHHHhhcccccccccCCCCCcc-----cchhHhhccccCceeec--CCCcceeeeeccc
Q 000945          266 KLEILSLVDSNIEQ-----LPEEMAQLTQLRLFDLSGCSKLKV-----IPPNLLSGLSRLEDLYM--GNTSVKWEFEGLN  333 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~-----lp~~i~~L~~L~~L~Ls~~~~l~~-----lp~~~i~~L~~L~~L~l--~~~~~~w~~~~~~  333 (1212)
                      .|++|++++|.|..     +...+.....|++|+|++| .+..     +... +.....|++|++  ++|.+.-...   
T Consensus        66 ~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N-~i~~~g~~~l~~~-L~~n~~L~~L~L~~~~N~i~~~g~---  140 (185)
T 1io0_A           66 YVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN-FISGSGILALVEA-LQSNTSLIELRIDNQSQPLGNNVE---  140 (185)
T ss_dssp             SCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCHHHHHHHHHG-GGGCSSCCEEECCCCSSCCCHHHH---
T ss_pred             CcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCC-cCCHHHHHHHHHH-HHhCCCceEEEecCCCCCCCHHHH---
Confidence            57777777776652     3445555567777777777 5543     2222 455667777777  6666541110   


Q ss_pred             cCCCccchhhhhcCCCCCcceeeeccc
Q 000945          334 VGRSNASLQELKLLSHLTTLEIQICDA  360 (1212)
Q Consensus       334 ~~~~~~~~~~L~~l~~L~~L~l~~~~~  360 (1212)
                          ......+.....|+.|++++|.+
T Consensus       141 ----~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          141 ----MEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             ----HHHHHHHHHCSSCCEEECCCSSH
T ss_pred             ----HHHHHHHHhCCCcCEEeccCCCC
Confidence                12334455556677777776654

>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=94.09  E-value=0.049  Score=61.35  Aligned_cols=48  Identities=19%  Similarity=0.322  Sum_probs=39.8

Q ss_pred             cccccchHHHHHHHHHHhCCCC-ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          148 YEAFESRKSILNDALDALSNPN-VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~~~L~~~~-~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...++|++..++.+..++..+. -..+-|+|..|+||||+|+.+.+...
T Consensus        15 ~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~   63 (373)
T 1jr3_A           15 FADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN   63 (373)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHS
T ss_pred             hhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4458899999999998887443 35678999999999999999988764

>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=94.02  E-value=0.045  Score=60.67  Aligned_cols=51  Identities=12%  Similarity=0.159  Sum_probs=41.5

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.....++|.+..++.+..++..+.+.-+.++|..|+||||+|+.+.+...
T Consensus        21 p~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~   71 (340)
T 1sxj_C           21 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY   71 (340)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHc
Confidence            445566789888888888888766655589999999999999999988753

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=93.95  E-value=0.059  Score=54.74  Aligned_cols=39  Identities=26%  Similarity=0.427  Sum_probs=30.9

Q ss_pred             HHHHHHHHhCC--CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          157 ILNDALDALSN--PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       157 ~~~~l~~~L~~--~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+.|.+.+..  ..-.+|+|+|..|.|||||++.+..-..
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            44566666552  4568999999999999999999988765

>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=93.92  E-value=0.17  Score=55.51  Aligned_cols=85  Identities=21%  Similarity=0.333  Sum_probs=54.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCccc------CCChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC------EGSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~------~~~~~~~~~~l~  242 (1212)
                      .-.++.|+|..|+||||||..+........  ..++|+.....++..     .++.++....      ..+..+....+.
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~~~g--g~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~  132 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQKMG--GVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVD  132 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHH
Confidence            346999999999999999999988755222  346788777667654     4555554422      133444445555


Q ss_pred             HHHHcC-CcEEEecCcccc
Q 000945          243 GLLKKG-KKILVLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~~-kr~LVLDDVw~~  260 (1212)
                      ..++.+ -.++|+|.+-..
T Consensus       133 ~l~~~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          133 ELVRSGVVDLIVVDSVAAL  151 (356)
T ss_dssp             HHHHTSCCSEEEEECTTTC
T ss_pred             HHhhhcCCCeEEehHhhhh
Confidence            444432 344499987544

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=93.84  E-value=3.2  Score=46.93  Aligned_cols=28  Identities=29%  Similarity=0.264  Sum_probs=24.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      ..++|.|+|.||+||||+|-.+-.....
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~  126 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLRE  126 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4679999999999999999998876653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=93.84  E-value=0.075  Score=58.05  Aligned_cols=45  Identities=22%  Similarity=0.280  Sum_probs=35.1

Q ss_pred             ccchHHHHHHHHHHhCCC---------CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          151 FESRKSILNDALDALSNP---------NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~~~---------~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++|.+..++.+...+...         ....+.|+|..|+||||+|+.+.+...
T Consensus        19 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~   72 (311)
T 4fcw_A           19 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF   72 (311)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHc
Confidence            567787777777666421         245899999999999999999999764

>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=93.82  E-value=0.028  Score=55.39  Aligned_cols=20  Identities=40%  Similarity=0.702  Sum_probs=18.9

Q ss_pred             eEEEEEecCCCchhHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIV  190 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~v  190 (1212)
                      .+|.|.|+.|.||||+|+.+
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            37999999999999999999

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=93.72  E-value=0.068  Score=57.96  Aligned_cols=41  Identities=24%  Similarity=0.314  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHhC----CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          155 KSILNDALDALS----NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       155 ~~~~~~l~~~L~----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.-++.+++.+.    .+....|.|+|+.|.||||+|+.+.....
T Consensus         5 ~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A            5 HKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             HHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            344555555543    45677799999999999999999988765

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=93.56  E-value=0.056  Score=57.12  Aligned_cols=50  Identities=22%  Similarity=0.234  Sum_probs=34.9

Q ss_pred             CCcccccchHHHHHHHHHH---hCC---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDA---LSN---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~---L~~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..++.+.++   +..         ....-|.|+|..|.||||||+++.+...
T Consensus         9 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~   70 (257)
T 1lv7_A            9 TTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK   70 (257)
T ss_dssp             CCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC
Confidence            3455677777777665543   321         1123478999999999999999998764

>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=93.54  E-value=0.04  Score=60.75  Aligned_cols=50  Identities=26%  Similarity=0.374  Sum_probs=36.4

Q ss_pred             CCcccccchHHHHHHHHHHhC-----CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALS-----NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~-----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.+..++.+-..+.     ......+.|+|..|+||||||+.+.+...
T Consensus        22 ~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~   76 (334)
T 1in4_A           22 KSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ   76 (334)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             ccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            345556787766666544443     22446799999999999999999999764

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=93.43  E-value=0.075  Score=56.50  Aligned_cols=48  Identities=27%  Similarity=0.297  Sum_probs=32.9

Q ss_pred             CcccccchHHHHHHHHHHhC----C----------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALS----N----------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~----~----------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....|.|.++.++.+.+.+.    .          -... +.++|..|.||||||+.+.+...
T Consensus         8 ~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~G-vlL~Gp~GtGKTtLakala~~~~   69 (274)
T 2x8a_A            8 TWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAG-VLLAGPPGCGKTLLAKAVANESG   69 (274)
T ss_dssp             ----CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSE-EEEESSTTSCHHHHHHHHHHHTT
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCe-EEEECCCCCcHHHHHHHHHHHcC
Confidence            34456777777777665443    1          1122 99999999999999999999765

>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=93.38  E-value=0.043  Score=53.77  Aligned_cols=25  Identities=28%  Similarity=0.114  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+.|+||||+|+.+.....
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            4799999999999999999987653

>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=93.36  E-value=4.1  Score=43.36  Aligned_cols=26  Identities=46%  Similarity=0.469  Sum_probs=23.1

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+|+|+|.+|+||||++..+.....
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~  123 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYK  123 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            56999999999999999999887665

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=93.32  E-value=0.024  Score=53.60  Aligned_cols=44  Identities=11%  Similarity=0.083  Sum_probs=31.3

Q ss_pred             cccchHHHHHHHHHHhC---CCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          150 AFESRKSILNDALDALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .++|++..++.+.+.+.   ..+.. |-|+|..|+|||++|+.+++..
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~-vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSP-VFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSC-EEEEEETTCCHHHHHGGGCCTT
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCc-EEEECCCCccHHHHHHHHHHhC
Confidence            46677777777777654   33333 5699999999999999998743

>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=93.30  E-value=0.29  Score=53.84  Aligned_cols=91  Identities=19%  Similarity=0.225  Sum_probs=56.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcC----CCCEEEEEEecCCCCHHHHHHHHHHHhcCccc----------CCCh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK----LCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC----------EGSE  234 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~----------~~~~  234 (1212)
                      .-.++-|+|..|+||||||..+........    .=..++|+.....|+..++.. ++..++.+..          ..+.
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~~  199 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYTS  199 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCST
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCCH
Confidence            456899999999999999999887643211    235788998888888777654 4455544321          1112


Q ss_pred             h---HHHHHHHHHHHc--CCcEE-EecCcccc
Q 000945          235 S---ERAMVLCGLLKK--GKKIL-VLDNIWTS  260 (1212)
Q Consensus       235 ~---~~~~~l~~~L~~--~kr~L-VLDDVw~~  260 (1212)
                      .   +....+.+.+..  .+-=+ |+|.+-..
T Consensus       200 e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~l  231 (343)
T 1v5w_A          200 EHQMELLDYVAAKFHEEAGIFKLLIIDSIMAL  231 (343)
T ss_dssp             THHHHHHHHHHHHHHHSCSSEEEEEEETSGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCccEEEEechHHH
Confidence            2   233344555543  23335 99987644

>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=93.27  E-value=0.043  Score=54.92  Aligned_cols=24  Identities=33%  Similarity=0.416  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -.+|+|+|+.|.|||||++.+...
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999764

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=93.26  E-value=0.07  Score=59.97  Aligned_cols=48  Identities=15%  Similarity=0.203  Sum_probs=37.2

Q ss_pred             cccccchHHHHHH---HHHHhCCCCc--eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          148 YEAFESRKSILND---ALDALSNPNV--NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       148 ~~~i~gr~~~~~~---l~~~L~~~~~--~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...++|++..++.   +.+.+.....  ..+-|+|..|+||||+|+.+.+...
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~   95 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALG   95 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5568898887665   4555544433  5889999999999999999999875

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=93.22  E-value=0.071  Score=66.25  Aligned_cols=49  Identities=24%  Similarity=0.304  Sum_probs=41.3

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++||+.+++.++..+......-+-++|..|+||||+|+.+.+..
T Consensus       177 ~~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          177 DSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             SCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            3456789999999999999875444557799999999999999999875

>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=93.19  E-value=0.23  Score=54.24  Aligned_cols=91  Identities=23%  Similarity=0.224  Sum_probs=56.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCC----CCEEEEEEecCCCCHHHHHHHHHHHhcCccc----------CCCh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKL----CDEVVFVEVSQTPDVKRIQGDIADQLGLYIC----------EGSE  234 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~----F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~----------~~~~  234 (1212)
                      .-.++-|+|..|+||||||..+.........    =..++|+.....|+..++.+ +++.++.+..          ..+.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~  184 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINT  184 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCH
Confidence            3468999999999999999998765432110    24788998888888777653 4555544321          1122


Q ss_pred             h---HHHHHHHHHHHc-CCcEE-EecCcccc
Q 000945          235 S---ERAMVLCGLLKK-GKKIL-VLDNIWTS  260 (1212)
Q Consensus       235 ~---~~~~~l~~~L~~-~kr~L-VLDDVw~~  260 (1212)
                      .   +....+...++. .+--+ |+|.+-..
T Consensus       185 ~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l  215 (324)
T 2z43_A          185 DHQIAIVDDLQELVSKDPSIKLIVVDSVTSH  215 (324)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEETTTTHH
T ss_pred             HHHHHHHHHHHHHHHhccCCCEEEEeCcHHH
Confidence            2   234455555543 23344 99987544

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=93.17  E-value=0.048  Score=54.94  Aligned_cols=27  Identities=37%  Similarity=0.336  Sum_probs=23.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+|.|+|+.|.||||+|+.+.....
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            456899999999999999999987653

>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=93.12  E-value=0.31  Score=54.86  Aligned_cols=101  Identities=19%  Similarity=0.270  Sum_probs=65.5

Q ss_pred             HHHHHhCC-CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCc------c--
Q 000945          160 DALDALSN-PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLY------I--  229 (1212)
Q Consensus       160 ~l~~~L~~-~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~------~--  229 (1212)
                      ++++.+.- ..=..++|+|..|+|||||++.+-+... +.+-+.++++-|.+..+ +..+.+++.+.=..+      .  
T Consensus       142 r~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~-~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtv  220 (482)
T 2ck3_D          142 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA-KAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVA  220 (482)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTT-TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEE
T ss_pred             EEEecccccccCCeeeeecCCCCChHHHHHHHHHhhH-hhCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEE
Confidence            45666652 2345789999999999999999988653 24567888888888765 567777777642221      0  


Q ss_pred             --cCCChh---------HHHHHHHHHHHc--CCcEE-EecCccccc
Q 000945          230 --CEGSES---------ERAMVLCGLLKK--GKKIL-VLDNIWTSL  261 (1212)
Q Consensus       230 --~~~~~~---------~~~~~l~~~L~~--~kr~L-VLDDVw~~~  261 (1212)
                        ....++         ...-.+-++++.  |+.+| ++||+-.-.
T Consensus       221 vV~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR~A  266 (482)
T 2ck3_D          221 LVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFT  266 (482)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHH
Confidence              011111         123334555554  79999 999986543

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=93.07  E-value=0.05  Score=53.76  Aligned_cols=24  Identities=17%  Similarity=0.411  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|+|+|+.|+|||||++.+....
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            589999999999999999998854

>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=93.04  E-value=0.19  Score=58.09  Aligned_cols=48  Identities=25%  Similarity=0.315  Sum_probs=37.7

Q ss_pred             CcccccchHHHHHHHHHHhC-------------CCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          147 GYEAFESRKSILNDALDALS-------------NPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~-------------~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ....+.|.+..++.+.+++.             -....-|-|+|..|+|||++|+++.+..
T Consensus       202 ~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~  262 (489)
T 3hu3_A          202 GYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  262 (489)
T ss_dssp             CGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             CHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh
Confidence            44568899988888877664             1233458899999999999999998865

>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=92.91  E-value=3.9  Score=46.00  Aligned_cols=27  Identities=22%  Similarity=0.289  Sum_probs=23.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...||.|+|.+|+||||++..+.....
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~  125 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQ  125 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHH
Confidence            468999999999999999999887665

>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=92.87  E-value=0.058  Score=53.18  Aligned_cols=25  Identities=20%  Similarity=0.195  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+.|.||||+|+.+-....
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            4789999999999999999988653

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.86  E-value=0.087  Score=54.32  Aligned_cols=38  Identities=24%  Similarity=0.252  Sum_probs=28.9

Q ss_pred             HHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          158 LNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       158 ~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+.+-+.+......+|.|+|.+|+|||||+..+.....
T Consensus        26 a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           26 ADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             HHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            34444444445678999999999999999999887653

>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=92.80  E-value=0.06  Score=57.19  Aligned_cols=46  Identities=17%  Similarity=0.299  Sum_probs=32.2

Q ss_pred             ccccchHHHHHHHHHHhC---CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          149 EAFESRKSILNDALDALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..++|++..+..+.+.+.   ... .-|-|+|..|+|||++|+.+++...
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~-~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLD-KPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSC-SCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCC-CCEEEECCCCCcHHHHHHHHHHhcC
Confidence            446788777777766553   333 4566999999999999999998643

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=92.76  E-value=0.049  Score=53.42  Aligned_cols=25  Identities=32%  Similarity=0.341  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|+|+|+.|.||||+|+.+.....
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            4699999999999999999988654

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=92.72  E-value=0.07  Score=54.81  Aligned_cols=43  Identities=21%  Similarity=0.269  Sum_probs=31.8

Q ss_pred             chHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          153 SRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       153 gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +..+..+.+.+.+......+|.|+|.+|+|||||+..+.....
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           13 ENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             HHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             hcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            3344455555554445788999999999999999999887653

>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=92.66  E-value=0.14  Score=53.86  Aligned_cols=23  Identities=43%  Similarity=0.570  Sum_probs=21.3

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.|+|..|+||||||+.+.+...
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~~   74 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEAR   74 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            89999999999999999998764

>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=92.55  E-value=0.078  Score=51.06  Aligned_cols=27  Identities=33%  Similarity=0.283  Sum_probs=23.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+.+|+|+|..|.|||||+..+....+
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~   29 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAV   29 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhH
Confidence            467999999999999999999998765

>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=92.53  E-value=0.28  Score=55.40  Aligned_cols=100  Identities=19%  Similarity=0.260  Sum_probs=65.3

Q ss_pred             HHHHhC-CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCc--------c-
Q 000945          161 ALDALS-NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLY--------I-  229 (1212)
Q Consensus       161 l~~~L~-~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~--------~-  229 (1212)
                      +++.|. =..-..++|+|-.|+|||||++.+-+... +.+-+.++++-|.+..+ +..+.+++.+.=..+        . 
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 VVNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIA-KAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVA  233 (498)
T ss_dssp             THHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTT-TTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEE
T ss_pred             EeeeecccccCCeEEeecCCCCCchHHHHHHHHHHH-hhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceE
Confidence            455554 12345689999999999999999988753 14568899998888775 567777776531111        0 


Q ss_pred             --cC-CCh--------hHHHHHHHHHHHc--CCcEE-EecCccccc
Q 000945          230 --CE-GSE--------SERAMVLCGLLKK--GKKIL-VLDNIWTSL  261 (1212)
Q Consensus       230 --~~-~~~--------~~~~~~l~~~L~~--~kr~L-VLDDVw~~~  261 (1212)
                        .. .++        -...-.+-+++++  |+.+| ++||+-.-.
T Consensus       234 vV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR~A  279 (498)
T 1fx0_B          234 LVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRFV  279 (498)
T ss_dssp             EEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHHHH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHH
Confidence              00 111        1123445566665  79999 999987553

>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=92.48  E-value=0.074  Score=52.22  Aligned_cols=25  Identities=32%  Similarity=0.386  Sum_probs=22.3

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+|+|+|+.|.||||+|+.+....
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            4689999999999999999998754

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=92.46  E-value=0.069  Score=52.44  Aligned_cols=24  Identities=38%  Similarity=0.441  Sum_probs=22.0

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .++|+|..|.|||||++.+.....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999998765

>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=92.44  E-value=0.071  Score=53.75  Aligned_cols=28  Identities=36%  Similarity=0.303  Sum_probs=24.6

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..-.+|.|+|+.|.||||+|+.+.....
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            3567999999999999999999988765

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=92.37  E-value=0.074  Score=52.82  Aligned_cols=25  Identities=32%  Similarity=0.356  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...|.|+|+.|+||||+|+.+-...
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999998765

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=92.36  E-value=0.64  Score=49.33  Aligned_cols=84  Identities=12%  Similarity=0.095  Sum_probs=52.4

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC------CChhHHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE------GSESERAMVLCGLL  245 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~------~~~~~~~~~l~~~L  245 (1212)
                      ++-|+|..|+||||||-.+.........=..++||..-..++..+     ++.++.+.+.      .+.++....+.+.+
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~r-----a~~lGvd~d~llv~~~~~~E~~~l~i~~~l  104 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAY-----LRSMGVDPERVIHTPVQSLEQLRIDMVNQL  104 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHH-----HHHTTCCGGGEEEEECSBHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHH-----HHHhCCCHHHeEEEcCCCHHHHHHHHHHHH
Confidence            689999999999999877765544211124678888877777643     6777765432      23333313344444


Q ss_pred             ---HcCCcEE-EecCcccc
Q 000945          246 ---KKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       246 ---~~~kr~L-VLDDVw~~  260 (1212)
                         +.++--+ |+|-|-..
T Consensus       105 ~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HTCCTTCCEEEEEECSTTC
T ss_pred             HHhhccCceEEEEeccccc
Confidence               3334455 99988655

>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=92.35  E-value=0.084  Score=57.58  Aligned_cols=46  Identities=24%  Similarity=0.206  Sum_probs=35.4

Q ss_pred             cccchHHHHHHHHHHhCC--------------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          150 AFESRKSILNDALDALSN--------------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~~--------------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .++|++..++.+...+..              ....-+-|+|..|+||||+|+.+.+...
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            367888888888766642              1234567999999999999999998763

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=92.35  E-value=0.075  Score=48.97  Aligned_cols=54  Identities=22%  Similarity=0.415  Sum_probs=46.3

Q ss_pred             eeeccCCccc--cccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcc
Q 000945          269 ILSLVDSNIE--QLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSV  325 (1212)
Q Consensus       269 ~L~ls~~~i~--~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  325 (1212)
                      +++.+++.++  .+|..+.  .+|++|+|++| .|..||.++|..+.+|+.|++.+|..
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFP--VDTTELVLTGN-NLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCC--TTCSEEECTTS-CCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             EEEeCCCCCccccCCCCCC--cCCCEEECCCC-cCCccChhhhhhccccCEEEecCCCe
Confidence            5677888888  8886543  36899999999 89999999999999999999999865

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=92.33  E-value=0.075  Score=52.47  Aligned_cols=22  Identities=32%  Similarity=0.362  Sum_probs=20.4

Q ss_pred             eEEEEEecCCCchhHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      .+|.|.|+.|.||||+|+.+..
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            4789999999999999999987

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=92.32  E-value=0.074  Score=53.60  Aligned_cols=26  Identities=31%  Similarity=0.365  Sum_probs=23.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+|+|+|+.|.||||+|+.+....
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            45789999999999999999998765

>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=92.30  E-value=0.052  Score=57.78  Aligned_cols=23  Identities=48%  Similarity=0.479  Sum_probs=21.0

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |-|+|..|+||||||+++.+...
T Consensus        47 vll~G~~GtGKT~la~~la~~~~   69 (268)
T 2r62_A           47 VLLVGPPGTGKTLLAKAVAGEAH   69 (268)
T ss_dssp             CCCBCSSCSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHHHHhC
Confidence            66999999999999999999765

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=92.22  E-value=0.064  Score=54.20  Aligned_cols=25  Identities=20%  Similarity=0.357  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..+|.|.|+.|.||||+|+.+....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998865

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=92.21  E-value=0.36  Score=53.10  Aligned_cols=85  Identities=22%  Similarity=0.277  Sum_probs=52.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC------CChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE------GSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~------~~~~~~~~~l~  242 (1212)
                      .-.++.|+|..|+||||||..+.......  =..++|+.....++..     .++.++.....      .+..+....++
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~~--g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~  132 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQAA--GGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIAD  132 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            35689999999999999999987655422  2457888887777654     24455543221      23333333333


Q ss_pred             HHHHcC-CcEEEecCcccc
Q 000945          243 GLLKKG-KKILVLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~~-kr~LVLDDVw~~  260 (1212)
                      ...... -+++|+|.+-..
T Consensus       133 ~l~~~~~~~lIVIDsl~~l  151 (349)
T 2zr9_A          133 MLVRSGALDIIVIDSVAAL  151 (349)
T ss_dssp             HHHTTTCCSEEEEECGGGC
T ss_pred             HHHhcCCCCEEEEcChHhh
Confidence            333222 345599987644

>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=92.21  E-value=0.079  Score=52.82  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=20.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      .+|+|+|+.|.|||||++.+..
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            4789999999999999999975

>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=92.19  E-value=0.077  Score=53.70  Aligned_cols=22  Identities=41%  Similarity=0.511  Sum_probs=20.4

Q ss_pred             eEEEEEecCCCchhHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      .+|+|.|+.|.||||+|+.+..
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            4799999999999999999977

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=92.18  E-value=0.062  Score=52.50  Aligned_cols=23  Identities=39%  Similarity=0.567  Sum_probs=20.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      -.+++|+|..|.|||||++.++.
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CEEEEEECCCCCCHHHHHHHHcc
Confidence            46899999999999999997553

>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=92.17  E-value=0.49  Score=51.65  Aligned_cols=58  Identities=21%  Similarity=0.314  Sum_probs=41.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcC---------CC-----CEEEEEEecCCCCHHHHHHHHHHHhcC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK---------LC-----DEVVFVEVSQTPDVKRIQGDIADQLGL  227 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~---------~F-----~~~~wv~vs~~~~~~~l~~~il~~l~~  227 (1212)
                      .-.++-|+|..|+||||||..+.-......         ..     ..++|+.....|+..++.+ +++.++.
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~  168 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGI  168 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCC
Confidence            346899999999999999998876532211         11     4678888888888887764 4555544

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=92.16  E-value=0.081  Score=51.52  Aligned_cols=27  Identities=30%  Similarity=0.374  Sum_probs=22.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+|+|.|+.|.||||+|+.+-....
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            457899999999999999999988654

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=92.14  E-value=0.076  Score=53.77  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|+|+|..|.|||||++.+....
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            589999999999999999998753

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=92.08  E-value=0.37  Score=53.03  Aligned_cols=85  Identities=20%  Similarity=0.269  Sum_probs=51.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC------CChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE------GSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~------~~~~~~~~~l~  242 (1212)
                      .-.++-|.|.+|+||||||..+.......  =..++|+.....++...     +..++.+...      .+..+....++
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~--g~~vlyid~E~s~~~~~-----a~~~g~~~~~l~i~~~~~~e~~~~~~~  134 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  134 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEeCCCCccHHH-----HHHcCCChhheeeeCCCCHHHHHHHHH
Confidence            34689999999999999998887665422  23688888877777542     4455443211      12233333333


Q ss_pred             HHHHc-CCcEEEecCcccc
Q 000945          243 GLLKK-GKKILVLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~-~kr~LVLDDVw~~  260 (1212)
                      ...+. +-+++|+|.+-..
T Consensus       135 ~l~~~~~~~lVVIDsl~~l  153 (356)
T 1u94_A          135 ALARSGAVDVIVVDSVAAL  153 (356)
T ss_dssp             HHHHHTCCSEEEEECGGGC
T ss_pred             HHHhccCCCEEEEcCHHHh
Confidence            32222 2345599987543

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=92.07  E-value=0.092  Score=52.52  Aligned_cols=25  Identities=24%  Similarity=0.274  Sum_probs=22.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+.|+||||+|+.+.....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4789999999999999999988754

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=92.07  E-value=0.077  Score=57.45  Aligned_cols=25  Identities=32%  Similarity=0.494  Sum_probs=21.1

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHH
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      ++.+||+|.|=|||||||.|-.+--
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~   70 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSA   70 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHH
Confidence            3679999999999999999976644

>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=92.04  E-value=0.071  Score=52.64  Aligned_cols=25  Identities=40%  Similarity=0.470  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..+|.|+|+.|.||||+|+.+....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            3568899999999999999998765

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=92.00  E-value=0.084  Score=53.38  Aligned_cols=24  Identities=25%  Similarity=0.343  Sum_probs=21.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|.|.|+.|.||||+|+.+.....
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            689999999999999999988664

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=91.95  E-value=0.089  Score=53.56  Aligned_cols=27  Identities=37%  Similarity=0.375  Sum_probs=23.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|+|+|..|.|||||++.+..-..
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            456899999999999999999988644

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=91.93  E-value=0.2  Score=53.57  Aligned_cols=50  Identities=22%  Similarity=0.295  Sum_probs=33.6

Q ss_pred             CCCcccccchHHHHHHHHHHhC---C----------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALS---N----------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~---~----------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ......++|.++.++++.+...   .          -... |.|+|..|.||||||+.+.+...
T Consensus        36 ~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~g-vll~Gp~GtGKTtl~~~i~~~~~   98 (278)
T 1iy2_A           36 KVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKG-VLLVGPPGVGKTHLARAVAGEAR   98 (278)
T ss_dssp             CCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCE-EEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCe-EEEECCCcChHHHHHHHHHHHcC
Confidence            3445566777666555443321   1          0122 89999999999999999998764

>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=91.90  E-value=0.093  Score=53.22  Aligned_cols=25  Identities=40%  Similarity=0.535  Sum_probs=22.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ...+|+|+|+.|.||||+|+.+...
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            4578999999999999999998763

>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=91.88  E-value=0.17  Score=54.01  Aligned_cols=28  Identities=18%  Similarity=0.147  Sum_probs=24.5

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....+|+|+|..|.||||||+.+.....
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4567999999999999999999887655

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=91.87  E-value=0.38  Score=53.82  Aligned_cols=58  Identities=19%  Similarity=0.221  Sum_probs=39.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcC----CCCEEEEEEecCCCCHHHHHHHHHHHhcC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK----LCDEVVFVEVSQTPDVKRIQGDIADQLGL  227 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~----~F~~~~wv~vs~~~~~~~l~~~il~~l~~  227 (1212)
                      .-.++.|+|..|+|||||+..+.-......    .-..++|+.....++..++.. +++.++.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~~-~a~~~gl  238 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVS-IAQRFGL  238 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHH-HHHHTTC
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHHH-HHHHcCC
Confidence            346899999999999999997653322111    235688888777777666543 5666654

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=91.82  E-value=0.1  Score=51.80  Aligned_cols=27  Identities=37%  Similarity=0.342  Sum_probs=23.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|.|+|+.|.||||+|+.+.....
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~   38 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQ   38 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            446899999999999999999998765

>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=91.80  E-value=0.33  Score=54.84  Aligned_cols=89  Identities=20%  Similarity=0.296  Sum_probs=53.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCc-------ccCCChhH------
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLY-------ICEGSESE------  236 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~-------~~~~~~~~------  236 (1212)
                      ..++|+|..|+||||||+.+-...... +-+.++++-+.+... +..+.+++.+.=..+       .-.+.-..      
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~-~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~  230 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQE-HGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVAL  230 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHH-TCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhc-cCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHH
Confidence            368999999999999999998876532 335667777776653 445555554320000       00011100      


Q ss_pred             HHHHHHHHHH--cCCcEE-EecCcccc
Q 000945          237 RAMVLCGLLK--KGKKIL-VLDNIWTS  260 (1212)
Q Consensus       237 ~~~~l~~~L~--~~kr~L-VLDDVw~~  260 (1212)
                      ..-.+.+++.  +||++| ++||+-.-
T Consensus       231 ~~ltiAEyFrd~~G~~VLl~~D~itR~  257 (473)
T 1sky_E          231 TGLTMAEYFRDEQGQDGLLFIDNIFRF  257 (473)
T ss_dssp             HHHHHHHHHHHHSCCEEEEEEECTHHH
T ss_pred             HHHHHHHHHHHhcCCcEEEEeccHHHH
Confidence            1123445554  379999 99998644

>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=91.79  E-value=0.63  Score=52.41  Aligned_cols=27  Identities=41%  Similarity=0.375  Sum_probs=23.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+|.++|.+|+||||++..+.....
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~  122 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYK  122 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            367999999999999999999887665

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=91.73  E-value=0.09  Score=53.30  Aligned_cols=25  Identities=36%  Similarity=0.488  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+|+|+|+.|.||||+++.+....
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            3589999999999999999998754

>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=91.68  E-value=0.094  Score=54.08  Aligned_cols=24  Identities=38%  Similarity=0.401  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|+|+|+.|.||||+|+.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998754

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=91.67  E-value=0.96  Score=50.00  Aligned_cols=25  Identities=32%  Similarity=0.414  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ++.+|+|+|..|+|||||.+.+.+.
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~  202 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGL  202 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCC
Confidence            5778999999999999999998764

>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=91.63  E-value=0.1  Score=52.65  Aligned_cols=26  Identities=31%  Similarity=0.390  Sum_probs=22.9

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHH
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ....+|+|.|+.|.||||+|+.+-..
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            35678999999999999999999774

>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=91.62  E-value=0.099  Score=52.16  Aligned_cols=25  Identities=24%  Similarity=0.506  Sum_probs=22.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+.|+||||+|+.+.....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4799999999999999999988654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=91.53  E-value=0.086  Score=53.30  Aligned_cols=26  Identities=35%  Similarity=0.594  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+|.|+|+.|+||||+++.+-...
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            34679999999999999999998764

>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=91.52  E-value=0.11  Score=49.64  Aligned_cols=26  Identities=31%  Similarity=0.293  Sum_probs=23.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|.-|.|||||++.+..-.
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            45689999999999999999998854

>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=91.52  E-value=0.088  Score=53.33  Aligned_cols=22  Identities=41%  Similarity=0.548  Sum_probs=20.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      .+|+|.|+.|.||||+++.+-.
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            4799999999999999999955

>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=91.45  E-value=0.1  Score=52.94  Aligned_cols=26  Identities=35%  Similarity=0.479  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+|+|+|+.|+|||||++.+....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998754

>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=91.43  E-value=0.11  Score=51.48  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ..+|.|.|+.|.||||+|+.+-..
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            457999999999999999999875

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=91.40  E-value=0.087  Score=52.91  Aligned_cols=24  Identities=38%  Similarity=0.537  Sum_probs=21.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+++|+|..|.|||||++.+....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998754

>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=91.40  E-value=0.098  Score=56.59  Aligned_cols=27  Identities=26%  Similarity=0.350  Sum_probs=24.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|||+|..|.|||||++.+..-..
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            567999999999999999999998765

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=91.37  E-value=0.094  Score=51.48  Aligned_cols=25  Identities=32%  Similarity=0.399  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+.|.||||+|+.+-....
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            3689999999999999999987654

>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=91.30  E-value=0.12  Score=51.58  Aligned_cols=25  Identities=28%  Similarity=0.262  Sum_probs=22.2

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+|.|.|+.|.||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999998765

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=91.23  E-value=0.13  Score=51.80  Aligned_cols=26  Identities=31%  Similarity=0.278  Sum_probs=23.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...+|+|.|+.|.||||+|+.+....
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999998754

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=91.20  E-value=0.13  Score=54.03  Aligned_cols=25  Identities=20%  Similarity=0.105  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|+|+.|.||||||+.+.....
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            5789999999999999999987653

>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=91.11  E-value=0.11  Score=57.68  Aligned_cols=51  Identities=16%  Similarity=0.161  Sum_probs=35.7

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+...++|.+..++.+..........-|-|+|..|+||||+|+.+.+...
T Consensus        20 ~~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           20 VFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            334556888887666544443332233478999999999999999998653

>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=91.04  E-value=0.12  Score=52.41  Aligned_cols=26  Identities=23%  Similarity=0.313  Sum_probs=23.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
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            34689999999999999999998865

>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=91.02  E-value=0.12  Score=54.06  Aligned_cols=27  Identities=19%  Similarity=0.142  Sum_probs=23.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+|+|+|+.|.|||||++.+.....
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            356999999999999999999997543

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=91.01  E-value=0.6  Score=51.54  Aligned_cols=84  Identities=23%  Similarity=0.284  Sum_probs=51.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCccc------CCChhHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYIC------EGSESERAMVLCG  243 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~------~~~~~~~~~~l~~  243 (1212)
                      -.++-|.|.+|+||||||..+-......  =..++|+.....++...     ++.++.+..      ..+..+....+++
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 GRITEIYGPESGGKTTLALAIVAQAQKA--GGTCAFIDAEHALDPVY-----ARALGVNTDELLVSQPDNGEQALEIMEL  146 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHHHC--CCeEEEEECCCChhHHH-----HHHcCCCHHHceeecCCcHHHHHHHHHH
Confidence            4578889999999999998877654422  24688998887776542     445554322      1233344444443


Q ss_pred             HHHcC-CcEEEecCcccc
Q 000945          244 LLKKG-KKILVLDNIWTS  260 (1212)
Q Consensus       244 ~L~~~-kr~LVLDDVw~~  260 (1212)
                      .++.+ -.++|+|.+-..
T Consensus       147 l~~~~~~~lVVIDsl~~l  164 (366)
T 1xp8_A          147 LVRSGAIDVVVVDSVAAL  164 (366)
T ss_dssp             HHTTTCCSEEEEECTTTC
T ss_pred             HHhcCCCCEEEEeChHHh
Confidence            33322 344599987543

>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=90.98  E-value=0.13  Score=50.95  Aligned_cols=26  Identities=19%  Similarity=0.441  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-++|.|+|..|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            45689999999999999999998754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=90.93  E-value=0.13  Score=49.99  Aligned_cols=24  Identities=25%  Similarity=0.254  Sum_probs=21.4

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|.|.|+.|.||||+|+.+.....
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            589999999999999999988653

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=90.93  E-value=0.13  Score=51.37  Aligned_cols=24  Identities=25%  Similarity=0.170  Sum_probs=21.6

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|.|.|+.|.||||+|+.+....
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999988754

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=90.93  E-value=0.14  Score=55.40  Aligned_cols=44  Identities=14%  Similarity=0.263  Sum_probs=33.9

Q ss_pred             cccchHHHHHHHHHHhC---CCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          150 AFESRKSILNDALDALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +++|+...+..+.+.+.   ..+. -|-|+|..|+|||++|+.+++..
T Consensus         3 ~iig~s~~~~~~~~~~~~~a~~~~-~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVAPSDA-TVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHCSTTS-CEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CcEECCHHHHHHHHHHHHHhCCCC-cEEEECCCCchHHHHHHHHHHhC
Confidence            46788777777777664   3333 45699999999999999999864

>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=90.91  E-value=0.1  Score=51.71  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=21.4

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|.|.|+.|.||||+|+.+-....
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999987654

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=90.90  E-value=0.13  Score=51.44  Aligned_cols=26  Identities=27%  Similarity=0.305  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...+|.|.|+.|.||||+|+.+....
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999998754

>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=90.90  E-value=0.14  Score=50.83  Aligned_cols=25  Identities=36%  Similarity=0.510  Sum_probs=22.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .-.+|+|.|+.|.||||+|+.+-..
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            4578999999999999999998775

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=90.90  E-value=0.11  Score=54.55  Aligned_cols=27  Identities=33%  Similarity=0.329  Sum_probs=23.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|+|+|+.|.||||+++.+.....
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            446999999999999999999997654

>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=90.90  E-value=0.28  Score=53.40  Aligned_cols=53  Identities=17%  Similarity=0.105  Sum_probs=36.4

Q ss_pred             HHHHHhC-CCCceEEEEEecCCCchhHHHHHHHHHhhhc-CCCCEEEEEEecCCCC
Q 000945          160 DALDALS-NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL-KLCDEVVFVEVSQTPD  213 (1212)
Q Consensus       160 ~l~~~L~-~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~-~~F~~~~wv~vs~~~~  213 (1212)
                      ++++.+. -..-..++|+|..|+|||||++.+-+....+ ..++ ++++-|.+...
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~-~I~~lIGER~~  217 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCV-LMVLLIDERPE  217 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCHH
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCChH
Confidence            4566655 2345689999999999999999998765432 2333 34567776653

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=90.80  E-value=0.082  Score=51.37  Aligned_cols=27  Identities=22%  Similarity=0.319  Sum_probs=23.1

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      ..+|+|+|..|.|||||++.+..-...
T Consensus         2 ~~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            2 SLILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             -CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            368999999999999999999886653

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.80  E-value=0.24  Score=55.71  Aligned_cols=52  Identities=21%  Similarity=0.247  Sum_probs=40.7

Q ss_pred             cCCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          144 CSEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |......|.|-++.++.|.+.+.    .         ...+=|-++|++|.|||+||++|.+...
T Consensus       176 p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~  240 (434)
T 4b4t_M          176 PTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTN  240 (434)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhC
Confidence            45566778899998888876643    1         2345678999999999999999999876

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=90.79  E-value=0.14  Score=50.88  Aligned_cols=24  Identities=25%  Similarity=0.229  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|.|.|+.|.||||+|+.+....
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998754

>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=90.78  E-value=0.14  Score=53.75  Aligned_cols=27  Identities=19%  Similarity=0.252  Sum_probs=23.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+|+|.|+.|.||||+|+.+-....
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            567899999999999999999987543

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=90.77  E-value=0.12  Score=51.17  Aligned_cols=25  Identities=36%  Similarity=0.317  Sum_probs=22.4

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+++|+|..|+|||||++.+.....
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            3689999999999999999998765

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=90.74  E-value=0.14  Score=51.42  Aligned_cols=25  Identities=24%  Similarity=0.220  Sum_probs=22.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|+|.|+.|.||||+|+.+.....
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            5899999999999999999988653

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=90.70  E-value=0.11  Score=53.07  Aligned_cols=25  Identities=32%  Similarity=0.606  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+++|+|..|.|||||++.+..-.
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4579999999999999999998854

>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=90.66  E-value=0.15  Score=50.86  Aligned_cols=25  Identities=28%  Similarity=0.214  Sum_probs=22.2

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..+|.|.|+.|.||||+|+.+....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998754

>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=90.59  E-value=0.12  Score=50.50  Aligned_cols=25  Identities=24%  Similarity=0.246  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+.|.||||+|+.+-....
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            4689999999999999999988653

>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=90.53  E-value=0.15  Score=51.42  Aligned_cols=25  Identities=28%  Similarity=0.131  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+.|.||||+|+.+.....
T Consensus        21 ~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           21 MRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999987653

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.51  E-value=0.25  Score=55.51  Aligned_cols=52  Identities=23%  Similarity=0.188  Sum_probs=39.9

Q ss_pred             cCCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          144 CSEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |......|.|-++.++.|.+.+.    .         ...+=|-++|++|.|||+||++|-+...
T Consensus       167 p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~  231 (428)
T 4b4t_K          167 PDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTK  231 (428)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHT
T ss_pred             CCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            44556678888888888776553    1         1344578999999999999999999875

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=90.50  E-value=0.14  Score=53.55  Aligned_cols=26  Identities=23%  Similarity=0.308  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+|||.|..|.||||||+.+....
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            45689999999999999999998753

>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=90.50  E-value=0.16  Score=53.54  Aligned_cols=25  Identities=36%  Similarity=0.481  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..+|.|.|+.|.||||+|+.+....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998864

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=90.41  E-value=0.15  Score=50.93  Aligned_cols=24  Identities=42%  Similarity=0.567  Sum_probs=21.7

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|+|.|+.|.||||+|+.+.+...
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            689999999999999999988653

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.39  E-value=0.31  Score=54.90  Aligned_cols=52  Identities=21%  Similarity=0.216  Sum_probs=39.4

Q ss_pred             cCCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          144 CSEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |......|.|-++.++.|.+.+.    .         ...+=|-++|+.|.|||+||++|.+...
T Consensus       176 p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~  240 (437)
T 4b4t_L          176 GEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIG  240 (437)
T ss_dssp             CSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            34456677888888877766543    1         2345678999999999999999999876

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=90.28  E-value=0.17  Score=54.52  Aligned_cols=28  Identities=25%  Similarity=0.282  Sum_probs=24.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      .-.+|+|+|.+|+||||+++.+..-...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~  128 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQN  128 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4579999999999999999999887653

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=90.28  E-value=0.13  Score=50.97  Aligned_cols=25  Identities=28%  Similarity=0.319  Sum_probs=18.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+.|.||||+|+.+.....
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5799999999999999999987644

>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=90.21  E-value=0.16  Score=51.81  Aligned_cols=27  Identities=15%  Similarity=0.229  Sum_probs=23.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|+|||||++.+.....
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            346899999999999999999998654

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=90.18  E-value=0.26  Score=53.19  Aligned_cols=27  Identities=22%  Similarity=0.364  Sum_probs=23.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+|||.|..|.||||+|+.+..-..
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            456999999999999999999977554

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.15  E-value=0.27  Score=55.22  Aligned_cols=51  Identities=22%  Similarity=0.218  Sum_probs=39.1

Q ss_pred             CCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ......|.|.++.++.|.+.+.    .         ...+=|-++|..|.|||+||++|.+...
T Consensus       205 ~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~  268 (467)
T 4b4t_H          205 DVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTD  268 (467)
T ss_dssp             SCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHT
T ss_pred             CCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccC
Confidence            3445568888888888776543    1         2455677999999999999999999876

>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=90.13  E-value=0.26  Score=55.04  Aligned_cols=45  Identities=22%  Similarity=0.092  Sum_probs=34.7

Q ss_pred             ccchHHHHHHHHHHhC-------------C--CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          151 FESRKSILNDALDALS-------------N--PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~-------------~--~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++|.+..++.+...+.             .  .....|-++|..|+||||+|+++.+...
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            5788888888777662             1  1235688999999999999999998763

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=90.13  E-value=0.17  Score=51.41  Aligned_cols=25  Identities=24%  Similarity=0.365  Sum_probs=22.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|+.|.||||+|+.+.....
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~   29 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIE   29 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            5799999999999999999998765

>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=90.10  E-value=0.19  Score=48.84  Aligned_cols=26  Identities=27%  Similarity=0.388  Sum_probs=23.3

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.+++|+|..|.|||||++.+.....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~   31 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALC   31 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcc
Confidence            57899999999999999999998654

>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=90.09  E-value=0.5  Score=48.56  Aligned_cols=48  Identities=23%  Similarity=0.275  Sum_probs=33.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcC----CCCEEEEEEecCCCCHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK----LCDEVVFVEVSQTPDVKR  216 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~----~F~~~~wv~vs~~~~~~~  216 (1212)
                      .-.+++|+|..|.|||||++.+........    .-...+|+.-...+...+
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~   75 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER   75 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHH
Confidence            346899999999999999999987543211    234577776555444433

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=90.03  E-value=0.19  Score=53.98  Aligned_cols=26  Identities=27%  Similarity=0.457  Sum_probs=23.1

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+-++|..|+|||+||++|.+...
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~l~   61 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRKMG   61 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45788999999999999999999874

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.00  E-value=0.26  Score=54.56  Aligned_cols=53  Identities=19%  Similarity=0.266  Sum_probs=39.7

Q ss_pred             ccCCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          143 MCSEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       143 ~~~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|......|.|.++.+++|.+.+.    .         ...+=|-++|++|.|||+||++|.+...
T Consensus       142 ~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~  207 (405)
T 4b4t_J          142 VPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTD  207 (405)
T ss_dssp             SCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHT
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhC
Confidence            345566778888888877766543    1         1234577999999999999999999876

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=90.00  E-value=0.14  Score=53.31  Aligned_cols=26  Identities=35%  Similarity=0.372  Sum_probs=22.8

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+|+|+||.|.||||+++.+.....
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            35799999999999999999988654

>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=89.98  E-value=0.18  Score=49.65  Aligned_cols=26  Identities=31%  Similarity=0.263  Sum_probs=22.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+|+|.|+.|.||||+|+.+.....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            35789999999999999999988654

>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=89.92  E-value=0.26  Score=55.37  Aligned_cols=24  Identities=33%  Similarity=0.331  Sum_probs=21.4

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..|-++|..|+||||+|+.+.+..
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            457899999999999999999865

>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=89.86  E-value=0.29  Score=54.30  Aligned_cols=38  Identities=24%  Similarity=0.334  Sum_probs=29.8

Q ss_pred             HHHHHHHhC--CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          158 LNDALDALS--NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       158 ~~~l~~~L~--~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+++.+.  .....+|+|+|.+|+|||||+..+.....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~  104 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLI  104 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            445555554  45788999999999999999999876643

>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=89.83  E-value=0.18  Score=53.82  Aligned_cols=23  Identities=35%  Similarity=0.671  Sum_probs=21.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVF  191 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vy  191 (1212)
                      ...+|+|.|+.|.||||+|+.+-
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            46789999999999999999997

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=89.64  E-value=0.18  Score=54.15  Aligned_cols=43  Identities=26%  Similarity=0.224  Sum_probs=30.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDV  214 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~  214 (1212)
                      .-.+++|+|..|+||||+++.+..-....   ...+++.-.+.+..
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~~~---~g~V~l~g~d~~r~  141 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLKNE---GTKVLMAAGDTFRA  141 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHHHT---TCCEEEECCCCSCH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHHc---CCeEEEEeecccch
Confidence            34699999999999999999999876532   34444443444554

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=89.63  E-value=0.16  Score=55.91  Aligned_cols=44  Identities=20%  Similarity=0.207  Sum_probs=35.4

Q ss_pred             cccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          150 AFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .++|+++.++.+...+...  .-+-++|..|+||||||+.+.+...
T Consensus        28 ~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~~   71 (331)
T 2r44_A           28 VVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTMD   71 (331)
T ss_dssp             TCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHTT
T ss_pred             ceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHhC
Confidence            4678888888887777643  3577899999999999999988653

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=89.62  E-value=0.17  Score=51.01  Aligned_cols=24  Identities=33%  Similarity=0.213  Sum_probs=21.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -.+++|+|..|.|||||++.+..-
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            458999999999999999999876

>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=89.56  E-value=0.2  Score=50.79  Aligned_cols=27  Identities=37%  Similarity=0.230  Sum_probs=23.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|.|.|+.|.||||+|+.+.....
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            446899999999999999999988654

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=89.46  E-value=0.2  Score=51.52  Aligned_cols=25  Identities=20%  Similarity=0.174  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...|.|.|+.|.||||+|+.+....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999998754

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.45  E-value=0.36  Score=53.61  Aligned_cols=52  Identities=27%  Similarity=0.318  Sum_probs=39.7

Q ss_pred             cCCCcccccchHHHHHHHHHHhC----C---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          144 CSEGYEAFESRKSILNDALDALS----N---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       144 ~~~~~~~i~gr~~~~~~l~~~L~----~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +......|.|.++.+++|.+.+.    .         ...+=|-++|+.|.|||+||++|-+...
T Consensus       177 p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~  241 (437)
T 4b4t_I          177 PTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTS  241 (437)
T ss_dssp             CCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHT
T ss_pred             CCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhC
Confidence            45556677888888877766543    1         2345688999999999999999999876

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=89.45  E-value=0.21  Score=50.80  Aligned_cols=32  Identities=25%  Similarity=0.245  Sum_probs=26.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCE
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDE  202 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~  202 (1212)
                      -.+|.|.|+.|.||||+|+.+...... .+++.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~-~~~~~   41 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKN-NNVEV   41 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHH-TTCCE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH-cCCcE
Confidence            358999999999999999999887553 35665

>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=89.42  E-value=0.12  Score=52.56  Aligned_cols=24  Identities=29%  Similarity=0.430  Sum_probs=21.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|+|+|..|.||||+|+.+.....
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            789999999999999999988764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=89.41  E-value=0.19  Score=51.89  Aligned_cols=25  Identities=20%  Similarity=0.263  Sum_probs=22.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      . .+++|+|..|.|||||.+.+..-.
T Consensus        24 ~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           24 R-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             S-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             C-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            5 799999999999999999998754

>3bpd_A Uncharacterized protein; heptamer, Mg+2 ION, PSI-2, NYSGXRC, structural genom protein structure initiative; 2.80A {Archaeoglobus fulgidus dsm 4304} SCOP: d.58.61.1

Probab=89.40  E-value=1.7  Score=36.01  Aligned_cols=61  Identities=15%  Similarity=0.138  Sum_probs=46.8

Q ss_pred             ceEEEEEEEecchhHHHHHHhHhccCCCeeEEEE-----eCCCC--eEEEEEe-cCHHHHHHHHHhhcC
Q 000945         1116 KQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILF-----DPKDK--KMIVIGD-IDAVPVVRKLRKQLC 1176 (1212)
Q Consensus      1116 ~~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~-----d~~~~--~~~v~g~-~d~~~~~~~l~k~~~ 1176 (1212)
                      .+++||-|--.-+--.-...+.+++++||+.|.+     |.+..  |+||.|+ +|-.++.+++.+.|+
T Consensus         6 iRRlVLDVlKPh~P~ivdlA~~l~~~~gV~gVnItV~EvD~eTe~lkItIEG~dIdfd~I~~~IE~~Gg   74 (100)
T 3bpd_A            6 LRRLVLDVLKPHEPKTIVFALKLSELENVDGVNIHLSEIDQATENIKITILGNNLDYEQIKGVIEDMGG   74 (100)
T ss_dssp             EEEEEEEEEEESCSCHHHHHHHHHTSTTEEEEEEEEEEECSSEEEEEEEEEEEEECHHHHHHHHHTTTC
T ss_pred             ceEEEEEecCCCCCCHHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEecCCCHHHHHHHHHHcCC
Confidence            4577777775444445667778899999988765     33333  7999999 999999999999887

>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=89.40  E-value=0.17  Score=51.67  Aligned_cols=22  Identities=32%  Similarity=0.369  Sum_probs=20.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      .+|+|.|+.|.||||+|+.+-.
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999965

>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=89.40  E-value=0.17  Score=49.82  Aligned_cols=23  Identities=39%  Similarity=0.527  Sum_probs=20.3

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|.|+|+.|+|||||++.+..+.
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            47799999999999999998764

>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=89.33  E-value=0.21  Score=50.83  Aligned_cols=32  Identities=19%  Similarity=0.093  Sum_probs=25.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCE
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDE  202 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~  202 (1212)
                      -.+|.|.|+.|.||||+|+.+...... ..++.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~-~~~~v   40 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCA-AGHRA   40 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHH-TTCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH-cCCcE
Confidence            358999999999999999999987642 34555

>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=89.32  E-value=0.41  Score=54.78  Aligned_cols=49  Identities=24%  Similarity=0.337  Sum_probs=34.5

Q ss_pred             CcccccchHHHHHHHHHHh---CCC---------CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDAL---SNP---------NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L---~~~---------~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....+.|.++.++++.+..   ...         -.+-|-|+|..|.||||||++|.+...
T Consensus        14 ~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~   74 (476)
T 2ce7_A           14 TFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEAN   74 (476)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            3455777777766655443   221         123377999999999999999999764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=89.30  E-value=0.19  Score=51.53  Aligned_cols=25  Identities=28%  Similarity=0.357  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+++|+|..|.|||||++.+..-.
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3589999999999999999998744

>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=89.27  E-value=0.2  Score=54.36  Aligned_cols=27  Identities=22%  Similarity=0.305  Sum_probs=23.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|||.|..|.|||||++.+..-..
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            457999999999999999999988643

>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=89.21  E-value=0.18  Score=51.97  Aligned_cols=26  Identities=23%  Similarity=0.376  Sum_probs=22.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
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            34689999999999999999998744

>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=89.20  E-value=1.5  Score=49.18  Aligned_cols=27  Identities=41%  Similarity=0.364  Sum_probs=23.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+|.|+|.+|+||||++..+.....
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~  123 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK  123 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            356899999999999999999988765

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=89.19  E-value=0.35  Score=51.62  Aligned_cols=26  Identities=31%  Similarity=0.420  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+|-|.|+.|.||||+|+.+....
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            35689999999999999999998754

>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=89.12  E-value=0.22  Score=51.00  Aligned_cols=25  Identities=28%  Similarity=0.145  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..|.|.|+.|.||||+|+.+.....
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5789999999999999999987653

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=89.04  E-value=0.23  Score=53.76  Aligned_cols=24  Identities=29%  Similarity=0.207  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|+|.|+.|+||||||+.+....
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            489999999999999999998754

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=89.04  E-value=0.46  Score=51.60  Aligned_cols=28  Identities=32%  Similarity=0.307  Sum_probs=24.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      .-.+|+|+|..|+||||+++.+..-.+.
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4679999999999999999999887653

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=89.00  E-value=0.22  Score=50.71  Aligned_cols=23  Identities=39%  Similarity=0.413  Sum_probs=20.5

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|.|.|+.|.||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999997754

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=88.95  E-value=0.72  Score=45.96  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=22.2

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKK  196 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v  196 (1212)
                      .|.|-|.-|.||||.++.+++..+-
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~   26 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEK   26 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3789999999999999999998763

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=88.92  E-value=0.19  Score=58.05  Aligned_cols=44  Identities=20%  Similarity=0.209  Sum_probs=35.2

Q ss_pred             cccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          150 AFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .++|++..++.+...+..+  .-|-|+|..|+|||+||+++.+...
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            3778888888877766532  3567999999999999999998653

>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=88.87  E-value=1.4  Score=47.32  Aligned_cols=89  Identities=13%  Similarity=0.013  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhh-c-CCCCEEEEEEecC-CCCHHHHHHHHHHHhcCcccC
Q 000945          155 KSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKK-L-KLCDEVVFVEVSQ-TPDVKRIQGDIADQLGLYICE  231 (1212)
Q Consensus       155 ~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v-~-~~F~~~~wv~vs~-~~~~~~l~~~il~~l~~~~~~  231 (1212)
                      ++.++.+.+.+..+.....-++|..|.||||+|+.+-+.... . .+.|. .++..+. ..++..+ +++++.+..... 
T Consensus         3 ~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~i-r~li~~~~~~p~-   79 (305)
T 2gno_A            3 KDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFLNYSPE-   79 (305)
T ss_dssp             -CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHHTSCCS-
T ss_pred             HHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHHH-HHHHHHHhhccc-
Confidence            444566666666556778889999999999999999774211 1 24444 3343332 3343333 345554432211 


Q ss_pred             CChhHHHHHHHHHHHcCCcEEEecCcccc
Q 000945          232 GSESERAMVLCGLLKKGKKILVLDNIWTS  260 (1212)
Q Consensus       232 ~~~~~~~~~l~~~L~~~kr~LVLDDVw~~  260 (1212)
                                    ..++|++|+|++..-
T Consensus        80 --------------~~~~kvviIdead~l   94 (305)
T 2gno_A           80 --------------LYTRKYVIVHDCERM   94 (305)
T ss_dssp             --------------SSSSEEEEETTGGGB
T ss_pred             --------------cCCceEEEeccHHHh
Confidence                          113566699988754

>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=88.83  E-value=0.2  Score=51.73  Aligned_cols=26  Identities=19%  Similarity=0.376  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
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            34589999999999999999998754

>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=88.80  E-value=0.7  Score=51.69  Aligned_cols=99  Identities=18%  Similarity=0.223  Sum_probs=61.4

Q ss_pred             HHHHHhCC-CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCC----EEEEEEecCCCC-HHHHHHHHHHHhcCc-----
Q 000945          160 DALDALSN-PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCD----EVVFVEVSQTPD-VKRIQGDIADQLGLY-----  228 (1212)
Q Consensus       160 ~l~~~L~~-~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~----~~~wv~vs~~~~-~~~l~~~il~~l~~~-----  228 (1212)
                      +.++.+.. ..=..++|.|..|+|||||+..|-+....  +-+    .++++-+-+..+ +..+.+++.+.=..+     
T Consensus       140 raID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~--~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV  217 (465)
T 3vr4_D          140 SAIDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQATV--LDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMF  217 (465)
T ss_dssp             HHHHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHCBC--SSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEE
T ss_pred             eEEecccccccCCEEEEeCCCCcChHHHHHHHHHHHHh--ccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEE
Confidence            45565551 22334789999999999999999987663  335    777888877654 556666655431111     


Q ss_pred             --ccCCChh------HHHHHHHHHHHc--CCcEE-EecCcccc
Q 000945          229 --ICEGSES------ERAMVLCGLLKK--GKKIL-VLDNIWTS  260 (1212)
Q Consensus       229 --~~~~~~~------~~~~~l~~~L~~--~kr~L-VLDDVw~~  260 (1212)
                        ...+...      ...-.+-++++.  |+.+| ++||+-.-
T Consensus       218 ~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl~~DslTr~  260 (465)
T 3vr4_D          218 MNLANDPAIERIATPRMALTAAEYLAYEKGMHVLVIMTDMTNY  260 (465)
T ss_dssp             EEETTSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEECHHHH
T ss_pred             EECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHHH
Confidence              0011111      122345666763  79999 99998753

>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=88.78  E-value=0.24  Score=49.33  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=21.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.|+|+|..|+|||||.+.+.+..
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            4578999999999999999988753

>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=88.78  E-value=0.24  Score=50.57  Aligned_cols=26  Identities=19%  Similarity=0.277  Sum_probs=22.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+|+|.|+.|.||||+|+.+.....
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            35899999999999999999987653

>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=88.70  E-value=0.24  Score=50.46  Aligned_cols=23  Identities=30%  Similarity=0.348  Sum_probs=20.2

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|+|.|+.|.||||+|+.+....
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            48899999999999999997654

>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=88.65  E-value=0.38  Score=55.43  Aligned_cols=48  Identities=17%  Similarity=0.173  Sum_probs=35.5

Q ss_pred             cccccchHHHHHHHH---HHhCCC--CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          148 YEAFESRKSILNDAL---DALSNP--NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       148 ~~~i~gr~~~~~~l~---~~L~~~--~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+++|.++.++.+.   +++..+  ..+-+-++|..|+||||+|+++.+...
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            356788888877544   444332  224678999999999999999999764

>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=88.60  E-value=1.5  Score=48.01  Aligned_cols=41  Identities=10%  Similarity=0.097  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          155 KSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       155 ~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+..+.+.+.+..+.+ +.+-++|..|+||||+|+.+-+...
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~   49 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLL   49 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHh
Confidence            4556667777665554 4688999999999999999988653

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=88.55  E-value=0.15  Score=52.72  Aligned_cols=25  Identities=32%  Similarity=0.360  Sum_probs=16.4

Q ss_pred             ceEEEEEecCCCchhHHHHHHH-HHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVF-YQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vy-n~~  194 (1212)
                      -.+|+|+|..|.|||||++.+. ...
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            3589999999999999999998 643

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=88.55  E-value=2.9  Score=47.78  Aligned_cols=87  Identities=14%  Similarity=0.161  Sum_probs=55.4

Q ss_pred             hHHHHHHHHHHHHHHHHHhHhhhHHHHhhcccccCCCCChhHHHHHHHHHHHHHHHHHHHhhcCCcceeccccCCCcccc
Q 000945           63 EQSVEKWLISANTTVVEAGKLIEDEEKEKKKCLKGLCPNLMNRYQLSKKAAWEVKAIAGLLEEGKFDEVSFCTKPEGILL  142 (1212)
Q Consensus        63 ~~~v~~Wl~~lk~~~~~aed~ld~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~l~~i~~~~~~~~~~~~~~~~~~~~  142 (1212)
                      ...++.|..++.++.-.+|-.+|--+ . .        ....+..+..++.++.++++.+....                
T Consensus       162 ~~~~~~~r~~l~~~~a~iEa~iDf~e-d-~--------~~~~~~~~~~~i~~l~~~l~~~~~~~----------------  215 (462)
T 3geh_A          162 AHPIRQLRANCLDILAEIEARIDFEE-D-L--------PPLDDEAIISDIENIAAEISQLLATK----------------  215 (462)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTSSS-S-S--------CCCCTTTHHHHHHHHHHHHHHHTTTH----------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccccc-c-C--------ChhhHHHHHHHHHHHHHHHHHHHHHh----------------
Confidence            56788999999988877777776211 0 0        01122345667777777777664430                


Q ss_pred             ccCCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          143 MCSEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       143 ~~~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                                  .  ....++    ..+ .|+|+|..|+|||||...+.+..
T Consensus       216 ------------~--~~~~~r----~~~-kV~ivG~~nvGKSSLln~L~~~~  248 (462)
T 3geh_A          216 ------------D--KGELLR----TGL-KVAIVGRPNVGKSSLLNAWSQSD  248 (462)
T ss_dssp             ------------H--HHHHHH----HCE-EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ------------h--hhhhhc----CCC-EEEEEcCCCCCHHHHHHHHhCCC
Confidence                        0  011121    133 38999999999999999988764

>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=88.55  E-value=0.25  Score=49.92  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=21.6

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|+|.|+.|.||||+|+.+.....
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            899999999999999999987543

>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=88.54  E-value=0.21  Score=52.69  Aligned_cols=25  Identities=28%  Similarity=0.250  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+++|+|..|.|||||++.+..-.
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            4689999999999999999998744

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=88.48  E-value=0.48  Score=54.64  Aligned_cols=49  Identities=27%  Similarity=0.363  Sum_probs=33.8

Q ss_pred             CcccccchHHHHHHHHHH---hCCC---------CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDA---LSNP---------NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~---L~~~---------~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....+.|.++.++++.+.   +.+.         --+=|.|+|..|.||||||++|.+...
T Consensus        29 ~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~   89 (499)
T 2dhr_A           29 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   89 (499)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             CHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            445567777766555443   3221         012388999999999999999998764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=88.43  E-value=0.22  Score=52.35  Aligned_cols=35  Identities=26%  Similarity=0.458  Sum_probs=26.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .-.+++|+|..|.|||||++.+..-..   -....+++
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~~---p~~G~i~~   65 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLEK---PSEGAIIV   65 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC---CSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC---CCCcEEEE
Confidence            346899999999999999999987543   22345544

>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=88.43  E-value=0.25  Score=49.80  Aligned_cols=24  Identities=29%  Similarity=0.278  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|.|.|+.|.||||+|+.+-...
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            579999999999999999998754

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=88.39  E-value=0.25  Score=54.26  Aligned_cols=42  Identities=26%  Similarity=0.222  Sum_probs=30.4

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDV  214 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~  214 (1212)
                      -.+|+|+|..|+||||+++.+..-....   ...+.+.-.+.|+.
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l~~~---~G~V~l~g~D~~r~  198 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRLKNE---GTKVLMAAGDTFRA  198 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHHT---TCCEEEECCCCSCH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhcccc---CCEEEEeccccccc
Confidence            4699999999999999999999876532   23444433444554

>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=88.36  E-value=0.24  Score=51.72  Aligned_cols=24  Identities=42%  Similarity=0.484  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -.+++|+|..|.|||||++.+..-
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999984

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=88.22  E-value=0.34  Score=50.74  Aligned_cols=26  Identities=35%  Similarity=0.328  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...+|.|+|+.|.||||+|+.+....
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35689999999999999999998754

>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=88.21  E-value=0.24  Score=50.93  Aligned_cols=25  Identities=24%  Similarity=0.440  Sum_probs=22.2

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+++|+|..|.|||||++.+..-.
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999998754

>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=88.18  E-value=0.26  Score=52.07  Aligned_cols=27  Identities=26%  Similarity=0.236  Sum_probs=23.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...++.+.|.||+||||++..+.....
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            467888999999999999999876554

>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=88.15  E-value=0.2  Score=50.61  Aligned_cols=25  Identities=44%  Similarity=0.522  Sum_probs=21.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+++|+|..|.|||||++.+..-.
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            3579999999999999999998754

>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=88.10  E-value=0.24  Score=51.30  Aligned_cols=25  Identities=28%  Similarity=0.320  Sum_probs=22.2

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+++|+|..|.|||||.+.+..-.
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999998754

>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=88.09  E-value=0.24  Score=51.96  Aligned_cols=26  Identities=23%  Similarity=0.325  Sum_probs=22.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
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            44689999999999999999998754

>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=88.06  E-value=0.25  Score=52.06  Aligned_cols=25  Identities=28%  Similarity=0.331  Sum_probs=22.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .-.+++|+|..|.|||||++.+..-
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            3468999999999999999999984

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=88.05  E-value=0.29  Score=55.63  Aligned_cols=43  Identities=26%  Similarity=0.271  Sum_probs=30.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDV  214 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~  214 (1212)
                      .-.+|+|+|..|+|||||++.+..-.+..   ...+++.-.+.++.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~---~G~V~l~g~D~~r~  334 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ---GKSVMLAAGDTFRA  334 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT---TCCEEEECCCTTCH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc---CCeEEEecCcccch
Confidence            35699999999999999999998876532   34455543444543

>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=88.05  E-value=0.24  Score=52.12  Aligned_cols=26  Identities=23%  Similarity=0.395  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
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            34689999999999999999998744

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=87.94  E-value=12  Score=41.12  Aligned_cols=26  Identities=23%  Similarity=0.347  Sum_probs=22.5

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHH
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .....|+|+|..|+|||||...+.+.
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            35678999999999999999998764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=87.92  E-value=0.28  Score=50.26  Aligned_cols=26  Identities=15%  Similarity=0.147  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...|.|.|+.|.||||+|+.+.....
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            35689999999999999999988654

>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=87.90  E-value=0.26  Score=51.14  Aligned_cols=26  Identities=23%  Similarity=0.299  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
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            34689999999999999999998744

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=87.86  E-value=0.25  Score=51.78  Aligned_cols=26  Identities=31%  Similarity=0.331  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+++|+|..|.|||||.+.+..-..
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~~   58 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFLK   58 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            45899999999999999999987543

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=87.77  E-value=0.26  Score=51.27  Aligned_cols=34  Identities=32%  Similarity=0.426  Sum_probs=25.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      -.+++|+|..|.|||||++.+..-..   .....+++
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~~---p~~G~I~i   68 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFYI---PENGQVLI   68 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC---CSEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC---CCCcEEEE
Confidence            45899999999999999999987543   22445554

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=87.76  E-value=0.31  Score=49.66  Aligned_cols=24  Identities=25%  Similarity=0.256  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..|.|.|+.|.||||+|+.+....
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998765

>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=87.73  E-value=0.3  Score=52.50  Aligned_cols=27  Identities=30%  Similarity=0.213  Sum_probs=23.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+|.|+|.+|+||||++..+.....
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~  129 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFV  129 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHH
Confidence            457999999999999999999988765

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=87.71  E-value=0.3  Score=49.98  Aligned_cols=23  Identities=30%  Similarity=0.280  Sum_probs=20.7

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|.|.|+.|.||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998754

>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=87.68  E-value=0.26  Score=51.43  Aligned_cols=26  Identities=35%  Similarity=0.483  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||.+.+..-.
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            34589999999999999999998754

>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=87.65  E-value=0.32  Score=49.45  Aligned_cols=23  Identities=30%  Similarity=0.226  Sum_probs=20.6

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|.|.|+.|.||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998755

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=87.62  E-value=1.6  Score=47.53  Aligned_cols=51  Identities=12%  Similarity=0.007  Sum_probs=35.3

Q ss_pred             HHHHHhCC-CCceEEEEEecCCCchhHHHHHHHHHhhhc-CCCCEEEEEEecCC
Q 000945          160 DALDALSN-PNVNVIGLCGLGGIGKTTLAKIVFYQAKKL-KLCDEVVFVEVSQT  211 (1212)
Q Consensus       160 ~l~~~L~~-~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~-~~F~~~~wv~vs~~  211 (1212)
                      .+++.+.- ..-..++|+|..|+|||||++.|-+....+ ..+. ++++-|.+.
T Consensus       164 raID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~-~V~~lIGER  216 (427)
T 3l0o_A          164 RLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTI-RIILLIDER  216 (427)
T ss_dssp             HHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSE-EEEEECSCC
T ss_pred             hhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeE-EEEEEeccC
Confidence            56777762 344578999999999999999999876532 2233 245655544

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=87.60  E-value=0.27  Score=51.63  Aligned_cols=26  Identities=31%  Similarity=0.452  Sum_probs=22.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
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            34589999999999999999998743

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=87.55  E-value=0.34  Score=46.33  Aligned_cols=23  Identities=17%  Similarity=0.356  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ..|.|+|.+|+|||||++.+.+.
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            46899999999999999998864

>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=87.55  E-value=0.28  Score=47.33  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=20.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ..|+|+|.+|+|||||.+.+.+.
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999998753

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=87.53  E-value=0.3  Score=58.63  Aligned_cols=49  Identities=14%  Similarity=0.102  Sum_probs=38.8

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.....++|.+..++.+...+..+  ..+.|+|..|+||||||+.+.+-..
T Consensus        37 p~~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           37 EKLIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             SSHHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             ccccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCC
Confidence            344567889888777776666544  5889999999999999999998654

>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=87.51  E-value=0.3  Score=52.40  Aligned_cols=26  Identities=27%  Similarity=0.431  Sum_probs=21.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .++|+|.|-||+||||+|-.+-.-..
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La   27 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALA   27 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHH
Confidence            47899999999999999988776443

>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=87.50  E-value=0.29  Score=52.47  Aligned_cols=27  Identities=41%  Similarity=0.364  Sum_probs=23.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+|+|+|.+|+||||++..+..-..
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~  123 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK  123 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            346999999999999999999988765

>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=87.50  E-value=0.28  Score=51.05  Aligned_cols=26  Identities=27%  Similarity=0.327  Sum_probs=22.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+++|+|..|.|||||++.+..-..
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~~   51 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMTS   51 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            35899999999999999999987543

>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=87.43  E-value=0.31  Score=48.86  Aligned_cols=24  Identities=25%  Similarity=0.300  Sum_probs=21.3

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .-.|+|+|..|+|||||.+.+...
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            346899999999999999999875

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=87.43  E-value=0.28  Score=51.87  Aligned_cols=35  Identities=26%  Similarity=0.300  Sum_probs=26.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .-.+++|+|..|.|||||++.+..-..   -....+++
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~~---p~~G~I~~   78 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLYQ---PTGGKVLL   78 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC---CSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC---CCCCEEEE
Confidence            346899999999999999999987543   22445554

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=87.39  E-value=0.31  Score=51.41  Aligned_cols=24  Identities=33%  Similarity=0.528  Sum_probs=21.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .++|+|..|.|||||.+.+++-..
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            589999999999999999999764

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=87.37  E-value=0.3  Score=51.77  Aligned_cols=25  Identities=28%  Similarity=0.458  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++|+|.|-||+||||+|-.+-.-..
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la   26 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLH   26 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHH
Confidence            6889999999999999988876554

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=87.28  E-value=0.29  Score=53.06  Aligned_cols=27  Identities=30%  Similarity=0.346  Sum_probs=23.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...+|+|+|.+|+||||++..+..-..
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~  130 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYA  130 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            457999999999999999999887665

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=87.23  E-value=0.29  Score=51.62  Aligned_cols=26  Identities=31%  Similarity=0.300  Sum_probs=22.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34589999999999999999998744

>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=87.22  E-value=0.31  Score=52.09  Aligned_cols=26  Identities=19%  Similarity=0.266  Sum_probs=23.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            45789999999999999999998855

>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=87.17  E-value=0.48  Score=55.77  Aligned_cols=45  Identities=24%  Similarity=0.330  Sum_probs=33.3

Q ss_pred             ccchHHHHHHHHHHhC------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          151 FESRKSILNDALDALS------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++|.++.++.+.+.+.      +..-.++.++|..|+||||||+.+.+...
T Consensus        83 i~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~  133 (543)
T 3m6a_A           83 HHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLG  133 (543)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHT
T ss_pred             hccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5666666665544332      23456899999999999999999998764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=87.10  E-value=0.29  Score=51.83  Aligned_cols=27  Identities=37%  Similarity=0.354  Sum_probs=23.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||++.+..-..
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~~   72 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYEP   72 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            345899999999999999999987543

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=87.08  E-value=0.29  Score=51.03  Aligned_cols=25  Identities=24%  Similarity=0.448  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+++|+|..|.|||||.+.+..-.
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999998754

>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=87.04  E-value=0.35  Score=50.29  Aligned_cols=26  Identities=19%  Similarity=0.004  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...+|.|.|+.|.||||+|+.+-+..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998754

>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=87.03  E-value=0.34  Score=46.57  Aligned_cols=23  Identities=26%  Similarity=0.505  Sum_probs=20.3

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|.|+|.+|+|||||++.+.+..
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            48899999999999999998753

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=87.02  E-value=0.41  Score=48.39  Aligned_cols=27  Identities=26%  Similarity=0.234  Sum_probs=24.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+||-|.|+.|.||||.|+.+..+..
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            568999999999999999999988654

>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=86.99  E-value=0.59  Score=47.91  Aligned_cols=32  Identities=31%  Similarity=0.284  Sum_probs=26.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCE
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDE  202 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~  202 (1212)
                      .-.+|.|.|+.|.||||+++.+.+....  .++.
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            3468999999999999999999998763  4554

>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=86.83  E-value=0.74  Score=50.68  Aligned_cols=49  Identities=22%  Similarity=0.242  Sum_probs=34.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCC----CEEEEEEecCCCCHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLC----DEVVFVEVSQTPDVKRI  217 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F----~~~~wv~vs~~~~~~~l  217 (1212)
                      .-.++.|+|..|.|||||++.+..........    ..++|+.-...+...++
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i  182 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI  182 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH
Confidence            45799999999999999999998765211111    24588877666654443

>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=86.79  E-value=0.3  Score=48.23  Aligned_cols=21  Identities=33%  Similarity=0.417  Sum_probs=19.1

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      -|.|+|.+|+|||||++.+.+
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            488999999999999999876

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=86.75  E-value=0.38  Score=51.63  Aligned_cols=24  Identities=33%  Similarity=0.221  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|.|+|+.|+||||||+.+....
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            479999999999999999998754

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=86.68  E-value=0.34  Score=48.33  Aligned_cols=25  Identities=32%  Similarity=0.239  Sum_probs=21.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .--|.|+|.+|+|||||++.+.+..
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhc
Confidence            3458899999999999998887753

>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=86.66  E-value=0.34  Score=48.01  Aligned_cols=24  Identities=25%  Similarity=0.465  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.|.|+|.+|+|||||+..+.+..
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            358899999999999999998753

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=86.63  E-value=0.38  Score=50.48  Aligned_cols=27  Identities=22%  Similarity=0.262  Sum_probs=23.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||++.+..-..
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCC
Confidence            457999999999999999999987654

>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=86.61  E-value=0.38  Score=49.66  Aligned_cols=26  Identities=27%  Similarity=0.024  Sum_probs=22.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...|.|.|+.|.||||+|+.+.....
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            35789999999999999999988654

>2x3d_A SSO6206; unknown function; 2.70A {Sulfolobus solfataricus}

Probab=86.38  E-value=3  Score=34.35  Aligned_cols=60  Identities=18%  Similarity=0.262  Sum_probs=43.7

Q ss_pred             eEEEEEEEec-chhHHHHHHhHhccCCCeeEEEE-----eCCCC--eEEEEEe-cCHHHHHHHHHhhcC
Q 000945         1117 QKAVLKLEIH-GEKARQKAFSIVSKFTGVLSILF-----DPKDK--KMIVIGD-IDAVPVVRKLRKQLC 1176 (1212)
Q Consensus      1117 ~~~~~~v~~~-c~~c~~~~~~~~~~~~gv~~~~~-----d~~~~--~~~v~g~-~d~~~~~~~l~k~~~ 1176 (1212)
                      +++||-|--. -+--.-..-+.+++++||+.|.+     |.+..  ++||.|+ +|-.++.+++.+.|+
T Consensus         5 rRlVLDVlKP~h~P~ivd~A~~l~~~~gV~gVnItv~EvD~eTe~lkItIEG~~idfd~I~~~IE~~Gg   73 (96)
T 2x3d_A            5 RRLVLDVLKPIRGTSIVDLAERISKLDGVEGVNISVTDMDVETMGLMIIIEGTSLNFDDIRKMLEEEGC   73 (96)
T ss_dssp             EEEEEEEEEESSSSCHHHHHHHHHTSTTEEEEEEEEEEECSSEEEEEEEEEESSCCHHHHHHHHHHTTC
T ss_pred             EEEEEEcccCCCCCCHHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEecCCCHHHHHHHHHHcCC
Confidence            4566766533 23334456677899999988765     33333  7999999 999999999999887

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=86.29  E-value=0.4  Score=49.57  Aligned_cols=26  Identities=31%  Similarity=0.341  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...+|+|.|+.|.||||+++.+....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999998754

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=86.20  E-value=0.57  Score=46.00  Aligned_cols=26  Identities=38%  Similarity=0.316  Sum_probs=22.1

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHH
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .....|.|+|.+|+|||||.+.+.+.
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            45567999999999999999988753

>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=86.17  E-value=0.38  Score=46.34  Aligned_cols=23  Identities=17%  Similarity=0.280  Sum_probs=20.4

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -.|.|+|.+|+|||||++.+.+.
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            45889999999999999998874

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=86.13  E-value=0.28  Score=50.58  Aligned_cols=25  Identities=24%  Similarity=0.040  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .-.+|+|.|.-|.||||+++.+...
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            4568999999999999999998774

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=86.07  E-value=0.29  Score=52.36  Aligned_cols=26  Identities=19%  Similarity=0.248  Sum_probs=19.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...+|+|.|..|.||||+|+.+-+..
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998753

>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=85.99  E-value=2.2  Score=53.46  Aligned_cols=45  Identities=22%  Similarity=0.291  Sum_probs=35.6

Q ss_pred             cccchHHHHHHHHHHhCC---------CCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          150 AFESRKSILNDALDALSN---------PNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .++|.+..++.+...+..         .....+-|+|..|+|||++|+.+.+..
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            478888888887766541         123578899999999999999999875

>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=85.99  E-value=0.42  Score=53.87  Aligned_cols=45  Identities=24%  Similarity=0.216  Sum_probs=33.4

Q ss_pred             ccchHHHHHHHHHHhCC--------------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          151 FESRKSILNDALDALSN--------------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~~--------------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |+|.++.++.+...+..              ...+-|-++|+.|+||||+|+.+.....
T Consensus        17 IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~   75 (444)
T 1g41_A           17 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (444)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcC
Confidence            66777777776555421              1234588999999999999999998764

>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=85.95  E-value=0.4  Score=53.13  Aligned_cols=27  Identities=30%  Similarity=0.212  Sum_probs=23.5

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..-.+|+|+|..|.|||||++.+....
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            345699999999999999999999753

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=85.87  E-value=0.37  Score=47.67  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ..|+|+|..|+|||||.+.+.+.
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            46899999999999999999864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=85.82  E-value=0.38  Score=50.41  Aligned_cols=23  Identities=30%  Similarity=0.332  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .+++|+|..|.|||||.+.+..-
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            48999999999999999999864

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=85.68  E-value=0.4  Score=51.08  Aligned_cols=26  Identities=23%  Similarity=0.427  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34689999999999999999998754

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=85.52  E-value=0.29  Score=52.47  Aligned_cols=25  Identities=28%  Similarity=0.529  Sum_probs=22.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .-.+++|+|..|.|||||++.+..-
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcC
Confidence            4568999999999999999998764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=85.49  E-value=0.38  Score=47.48  Aligned_cols=26  Identities=19%  Similarity=0.327  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..-+-|+|.+|.||||+|.++.+..+
T Consensus        58 kn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           58 KNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34689999999999999999988753

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=85.46  E-value=0.46  Score=46.76  Aligned_cols=23  Identities=17%  Similarity=0.541  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .+.+|+|..|.|||||+++|+--
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~   49 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFV   49 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999999864

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=85.41  E-value=0.66  Score=46.34  Aligned_cols=32  Identities=28%  Similarity=0.327  Sum_probs=23.9

Q ss_pred             HHHHhC-CCCceEEEEEecCCCchhHHHHHHHH
Q 000945          161 ALDALS-NPNVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       161 l~~~L~-~~~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      +++.+. ......|+|+|.+|+|||||.+.+.+
T Consensus        15 ~l~~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           15 VLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             HHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             HHHHhhccCCCcEEEEECCCCCCHHHHHHHHhc
Confidence            455543 33445689999999999999998764

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=85.34  E-value=0.41  Score=49.37  Aligned_cols=26  Identities=27%  Similarity=0.248  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+++|+|..|.|||||++.+.....
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~   48 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGL   48 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            36899999999999999999986554

>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=85.29  E-value=0.45  Score=45.77  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=20.0

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|..|+|||||.+.+.+.
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            5899999999999999998874

>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=85.27  E-value=0.41  Score=51.00  Aligned_cols=27  Identities=33%  Similarity=0.282  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.++.|+|..|.||||||..+.....
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            346899999999999999999887544

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=85.24  E-value=4.3  Score=43.80  Aligned_cols=52  Identities=15%  Similarity=0.051  Sum_probs=36.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQ  224 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~  224 (1212)
                      .-.++-|.|.+|+||||+|..+......+.  ..++|++.  +-....+...++..
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~sl--E~s~~~l~~R~~~~  118 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSL--EMGKKENIKRLIVT  118 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEES--SSCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEEC--CCCHHHHHHHHHHH
Confidence            346888999999999999998876554332  55666543  45666777666654

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=85.08  E-value=0.48  Score=46.69  Aligned_cols=23  Identities=26%  Similarity=0.232  Sum_probs=20.4

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      --|.|+|.+|+|||||++.+.+.
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999998774

>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=85.05  E-value=0.5  Score=47.54  Aligned_cols=36  Identities=17%  Similarity=0.034  Sum_probs=21.1

Q ss_pred             HHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHH
Q 000945          158 LNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       158 ~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .+.+-++......-.|.|+|..|+|||||...+.+.
T Consensus        18 ~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           18 GSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             ------------CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             hhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhC
Confidence            333434444445567899999999999999888764

>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=85.01  E-value=1.3  Score=45.26  Aligned_cols=36  Identities=25%  Similarity=0.338  Sum_probs=28.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      -..|.|.|..|.||||+++.+...... ..+......
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~-~~~~~~~~~   62 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQ-NGIDHITRT   62 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHH-TTCCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh-cCCCeeeee
Confidence            358999999999999999999988763 456634433

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=85.01  E-value=0.54  Score=48.76  Aligned_cols=24  Identities=21%  Similarity=0.296  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ..|.|.|.-|.||||+|+.+....
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHc
Confidence            579999999999999999999865

>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=85.01  E-value=0.47  Score=45.62  Aligned_cols=24  Identities=29%  Similarity=0.620  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-|.|+|..|+|||||.+.+.+..
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            458899999999999999988753

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=85.00  E-value=0.5  Score=46.94  Aligned_cols=25  Identities=24%  Similarity=0.242  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ....|.|+|.+|+|||||...+.+.
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            4557899999999999999998874

---

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	1212
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-09
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	7e-06

>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 = 58.3 bits (140), Expect = 1e-09
 Identities = 21/135 (15%), Positives = 46/135 (34%), Gaps = 13/135 (9%)

Query: 152 ESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL--KLCDEVVFVEVS 209
           E     +   LD + + +   + L G  G GK+ +A     ++ +L     D +V+++ S
Sbjct: 26  EYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDS 85

Query: 210 QTPDVKRIQGDIADQLGLYICEGSES-----------ERAMVLCGLLKKGKKILVLDNIW 258
            T             L L   +   +            + M+   L+ +   + V D++ 
Sbjct: 86  GTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVV 145

Query: 259 TSLDLDKKLEILSLV 273
               +    E+    
Sbjct: 146 QEETIRWAQELRLRC 160

>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 = 47.0 bits (110), Expect = 7e-06
 Identities = 42/293 (14%), Positives = 89/293 (30%), Gaps = 47/293 (16%)

Query: 258 WTSLDL--------------DKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKV 303
           W +LDL               + +       S ++Q   E     +++  DLS       
Sbjct: 2   WQTLDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVS 61

Query: 304 IPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMIL 363
               +LS  S+L++L +    +           S+  +  L   S+L  L +  C     
Sbjct: 62  TLHGILSQCSKLQNLSLEGLRL-----------SDPIVNTLAKNSNLVRLNLSGCS-GFS 109

Query: 364 PKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVP 423
              L +      ++   +        +    + +   +  + ++ +              
Sbjct: 110 EFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLS------------- 156

Query: 424 GIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKI 483
           G +  L   D+   ++     V  +     ++ +  +  +     L+ L L     +   
Sbjct: 157 GYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPE 216

Query: 484 CLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEI 536
            L +L       LK ++V        +        LP LQ    INC +   I
Sbjct: 217 TLLELG--EIPTLKTLQVFGIVPDGTL--QLLKEALPHLQ----INCSHFTTI 261

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	1212
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.75
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.7
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.69
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.51
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.48
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.47
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.46
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.38
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.37
d1fe0a_	66	ATX1 metallochaperone protein (ATOX1) {Human (Homo	99.36
d1cc8a_	72	ATX1 metallochaperone protein (ATOX1) {Baker's yea	99.34
d1qupa2	72	Copper chaperone for superoxide dismutase, N-termi	99.34
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.33
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.31
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.3
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.24
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.19
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.18
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.16
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.16
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.11
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.11
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.09
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.09
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.08
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.06
d2ggpb1	72	Copper transporter domain ccc2a {Baker's yeast (Sa	98.95
d1sb6a_	64	Copper chaperone {Synechocystis sp. pcc 6803, Scat	98.94
d2aw0a_	72	Menkes copper-transporting ATPase {Human (Homo sap	98.94
d1osda_	72	Mercuric ion binding protein MerP {Ralstonia metal	98.89
d2qifa1	69	Copper chaperone {Bacillus subtilis, CopZ [TaxId:	98.88
d1cpza_	68	Copper chaperone {Enterococcus hirae [TaxId: 1354]	98.82
d1kvja_	79	Menkes copper-transporting ATPase {Human (Homo sap	98.78
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.74
d1q8la_	84	Menkes copper-transporting ATPase {Human (Homo sap	98.73
d1p6ta1	72	Potential copper-translocating P-type ATPase CopA	98.7
d1p6ta2	79	Potential copper-translocating P-type ATPase CopA	98.67
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.65
d1mwza_	73	Metal ion-transporting ATPase ZntA, N-terminal dom	98.62
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.58
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.58
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.57
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.5
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.48
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.45
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.4
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.31
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.87
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.85
d2ifga3	156	High affinity nerve growth factor receptor, N-term	97.81
d2ifga3	156	High affinity nerve growth factor receptor, N-term	97.76
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.63
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.3
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.24
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.24
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.19
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.16
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.14
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.11
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.41
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.3
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.29
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.17
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.16
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.12
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.08
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.92
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	95.88
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	95.7
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	95.44
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	95.3
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	95.28
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	95.27
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	95.26
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.03
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	94.92
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	94.89
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	94.82
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	94.81
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	94.71
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	94.67
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	94.63
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	94.5
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	94.32
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	94.27
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	94.09
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	94.03
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	93.94
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	93.92
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	93.72
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	93.71
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	93.59
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.59
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	93.5
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	93.49
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	93.41
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	93.38
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	93.32
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	93.28
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	93.25
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	93.15
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	93.01
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	92.97
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	92.72
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	92.65
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	92.6
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.52
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	92.39
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	92.3
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	92.06
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	92.05
d1ls1a2	207	GTPase domain of the signal sequence recognition p	92.04
d2qy9a2	211	GTPase domain of the signal recognition particle r	91.93
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	91.64
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	91.6
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	91.57
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	91.51
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	91.3
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	91.28
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	91.13
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	91.12
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	91.1
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	91.07
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	91.01
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	90.94
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	90.93
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	90.89
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	90.89
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	90.78
d1g2912	240	Maltose transport protein MalK, N-terminal domain	90.72
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	90.66
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	90.54
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	90.51
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	90.31
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	90.25
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	90.24
d1okkd2	207	GTPase domain of the signal recognition particle r	90.2
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	90.15
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	90.1
d2awna2	232	Maltose transport protein MalK, N-terminal domain	90.09
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	90.05
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	90.02
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	89.93
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	89.93
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	89.9
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	89.77
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	89.76
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	89.69
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	89.54
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	89.54
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	89.35
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	89.35
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	89.32
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	89.32
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	89.31
d1xpua3	289	Transcription termination factor Rho, ATPase domai	89.06
d1vmaa2	213	GTPase domain of the signal recognition particle r	88.91
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	88.86
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	88.68
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	88.4
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	88.26
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	88.19
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	88.17
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	88.05
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	88.04
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	87.97
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	87.71
d3bpda1	91	Uncharacterized protein AF1549 {Archaeoglobus fulg	87.68
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	87.63
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	87.62
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	87.62
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	87.52
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	87.35
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	87.13
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	87.11
d1j8yf2	211	GTPase domain of the signal sequence recognition p	87.04
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	86.91
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	86.82
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	86.75
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	86.69
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	86.54
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	86.38
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	86.33
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	86.19
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	86.17
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	86.04
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	86.01
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	85.94
d2raqa1	93	Uncharacterized protein MTH889 {Methanobacterium t	85.9
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	85.9
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	85.72
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	85.71
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	85.7
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	85.66
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	85.63
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	85.52
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	85.42
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	85.41
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	85.29
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	85.22
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	85.17
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	85.08
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	85.06
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	84.57
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	84.55
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	84.35
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	84.31
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	84.16
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	84.04
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	83.97
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	83.86
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	83.84
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	83.73
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	83.68
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	83.68
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	83.62
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	83.53
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	83.49
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	83.48
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	83.36
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	83.29
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	83.18
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	82.71
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	82.71
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	82.65
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	82.55
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	82.25
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	82.11
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	82.1
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	82.05
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	82.04
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	82.01
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	81.96
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	81.8
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	81.68
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	81.63
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	81.57
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	81.52
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	81.51
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	81.46
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	81.34
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	81.33
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	81.32
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	81.22
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	80.96
d2fh5b1	207	Signal recognition particle receptor beta-subunit	80.95
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	80.94
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	80.87
d1nrjb_	209	Signal recognition particle receptor beta-subunit	80.67
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	80.6
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	80.59
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	80.57
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	80.43
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	80.28
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	80.26
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	80.03

>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=99.75  E-value=1.1e-18  Score=186.38  Aligned_cols=117  Identities=16%  Similarity=0.118  Sum_probs=91.2

Q ss_pred             CcccccchHHHHHHHHHHhC---CCCceEEEEEecCCCchhHHHHHHHHHhh--hcCCCCEEEEEEecCCCCHHHHHHHH
Q 000945          147 GYEAFESRKSILNDALDALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQAK--KLKLCDEVVFVEVSQTPDVKRIQGDI  221 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~~--v~~~F~~~~wv~vs~~~~~~~l~~~i  221 (1212)
                      ....++||+.++++|+++|.   +.+..+|+||||||+||||||+++||+..  ++.+|++++||+|++.++...+...+
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~   97 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFT   97 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHH
Confidence            34457899999999999985   56789999999999999999999999854  67889999999999999988887776


Q ss_pred             HHHh---cCccc--------CCChhHHHHHHHHHHHcCCcEE-EecCcccccccc
Q 000945          222 ADQL---GLYIC--------EGSESERAMVLCGLLKKGKKIL-VLDNIWTSLDLD  264 (1212)
Q Consensus       222 l~~l---~~~~~--------~~~~~~~~~~l~~~L~~~kr~L-VLDDVw~~~~~~  264 (1212)
                      ...+   +....        ..........+.+.+.. ||+| ||||||+..+|+
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~-kr~LlVLDDv~~~~~~~  151 (277)
T d2a5yb3          98 DILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDR-PNTLFVFDDVVQEETIR  151 (277)
T ss_dssp             HHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTS-TTEEEEEEEECCHHHHH
T ss_pred             HHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhcc-CCeeEecchhhHHhhhh
Confidence            5433   22110        11122344556677775 9999 999999988765

>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=99.70  E-value=1e-15  Score=174.51  Aligned_cols=144  Identities=20%  Similarity=0.231  Sum_probs=85.0

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|+.|++++|.+.++.    +...+++|+.|+++++.+..+++  +..++.++.+++..+.++.+..       +..+
T Consensus       240 l~~L~~L~l~~n~l~~~~----~~~~~~~L~~L~l~~~~l~~~~~--~~~~~~l~~l~~~~n~l~~~~~-------~~~~  306 (384)
T d2omza2         240 LTNLTDLDLANNQISNLA----PLSGLTKLTELKLGANQISNISP--LAGLTALTNLELNENQLEDISP-------ISNL  306 (384)
T ss_dssp             CTTCSEEECCSSCCCCCG----GGTTCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCSCCGG-------GGGC
T ss_pred             ccccchhccccCccCCCC----cccccccCCEeeccCcccCCCCc--cccccccccccccccccccccc-------cchh
Confidence            455666666665555543    23345566666666655555543  4556666666666555544322       2235


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++++.|+++++ ++..+     ..+..+++|++|++++| .++.++ .+..+++|++|++++| .++.+++   +.++++
T Consensus       307 ~~l~~L~ls~n-~l~~l-----~~l~~l~~L~~L~L~~n-~l~~l~-~l~~l~~L~~L~l~~N-~l~~l~~---l~~l~~  374 (384)
T d2omza2         307 KNLTYLTLYFN-NISDI-----SPVSSLTKLQRLFFANN-KVSDVS-SLANLTNINWLSAGHN-QISDLTP---LANLTR  374 (384)
T ss_dssp             TTCSEEECCSS-CCSCC-----GGGGGCTTCCEEECCSS-CCCCCG-GGGGCTTCCEEECCSS-CCCBCGG---GTTCTT
T ss_pred             cccCeEECCCC-CCCCC-----cccccCCCCCEEECCCC-CCCCCh-hHcCCCCCCEEECCCC-cCCCChh---hccCCC
Confidence            66777777665 23333     12556677777777776 455554 3566777777777764 5666642   466777


Q ss_pred             ccEEEecCc
Q 000945          934 LTKLRIDGC  942 (1212)
Q Consensus       934 L~~L~i~~c  942 (1212)
                      |+.|+|+++
T Consensus       375 L~~L~L~~N  383 (384)
T d2omza2         375 ITQLGLNDQ  383 (384)
T ss_dssp             CSEEECCCE
T ss_pred             CCEeeCCCC
Confidence            777777664

>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=99.69  E-value=4.5e-16  Score=177.56  Aligned_cols=90  Identities=22%  Similarity=0.278  Sum_probs=74.7

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK  345 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~  345 (1212)
                      .++.|+++++.|..++ .++.|.+|++|++++| .+..+|.  ++++.+|++|++++|.+.             .+..+.
T Consensus        45 ~l~~L~l~~~~I~~l~-gl~~L~nL~~L~Ls~N-~l~~l~~--l~~L~~L~~L~L~~n~i~-------------~i~~l~  107 (384)
T d2omza2          45 QVTTLQADRLGIKSID-GVEYLNNLTQINFSNN-QLTDITP--LKNLTKLVDILMNNNQIA-------------DITPLA  107 (384)
T ss_dssp             TCCEEECCSSCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCC-------------CCGGGT
T ss_pred             CCCEEECCCCCCCCcc-ccccCCCCCEEeCcCC-cCCCCcc--ccCCcccccccccccccc-------------cccccc
Confidence            6999999999999884 7899999999999999 8999986  899999999999999875             234578


Q ss_pred             cCCCCCcceeeecccccCCCCcccccc
Q 000945          346 LLSHLTTLEIQICDAMILPKGLFSKKL  372 (1212)
Q Consensus       346 ~l~~L~~L~l~~~~~~~~p~~~~~~~L  372 (1212)
                      .+.+|+.+++..+....++........
T Consensus       108 ~l~~L~~L~~~~~~~~~~~~~~~~~~~  134 (384)
T d2omza2         108 NLTNLTGLTLFNNQITDIDPLKNLTNL  134 (384)
T ss_dssp             TCTTCCEEECCSSCCCCCGGGTTCTTC
T ss_pred             ccccccccccccccccccccccccccc
Confidence            889999999988776665554433333

>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=99.51  E-value=1.5e-13  Score=150.20  Aligned_cols=241  Identities=17%  Similarity=0.190  Sum_probs=135.9

Q ss_pred             ceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhc
Q 000945          267 LEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKL  346 (1212)
Q Consensus       267 Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~  346 (1212)
                      .+.++-++.+++++|..+.  .++++|++++| .+..+|++.|.++.+|++|++++|.+.           ...+..+.+
T Consensus        12 ~~~~~C~~~~L~~lP~~l~--~~l~~L~Ls~N-~i~~l~~~~f~~l~~L~~L~l~~n~~~-----------~i~~~~f~~   77 (305)
T d1xkua_          12 LRVVQCSDLGLEKVPKDLP--PDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNKIS-----------KISPGAFAP   77 (305)
T ss_dssp             TTEEECTTSCCCSCCCSCC--TTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSCCC-----------CBCTTTTTT
T ss_pred             CCEEEecCCCCCccCCCCC--CCCCEEECcCC-cCCCcChhHhhcccccccccccccccc-----------ccchhhhhC
Confidence            3456666777888887663  57888888888 788888766888888888888888765           223455777


Q ss_pred             CCCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCCcc
Q 000945          347 LSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGIK  426 (1212)
Q Consensus       347 l~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~~~  426 (1212)
                      +.+|++|++.+|.+..+|.... ..+..+.......                  ..+.............+.........
T Consensus        78 l~~L~~L~l~~n~l~~l~~~~~-~~l~~L~~~~n~l------------------~~l~~~~~~~~~~~~~l~~~~n~~~~  138 (305)
T d1xkua_          78 LVKLERLYLSKNQLKELPEKMP-KTLQELRVHENEI------------------TKVRKSVFNGLNQMIVVELGTNPLKS  138 (305)
T ss_dssp             CTTCCEEECCSSCCSBCCSSCC-TTCCEEECCSSCC------------------CBBCHHHHTTCTTCCEEECCSSCCCG
T ss_pred             CCccCEecccCCccCcCccchh-hhhhhhhccccch------------------hhhhhhhhhccccccccccccccccc
Confidence            8888888888888777776542 2333332110000                  00000011111122222222211111


Q ss_pred             cccccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCCC
Q 000945          427 NVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDK  506 (1212)
Q Consensus       427 ~~~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~  506 (1212)
                      .......+..+++|+.+++.++. +..++.       ..+++|+.|++.++.....   .+..+..++++++|+++++ .
T Consensus       139 ~~~~~~~~~~l~~L~~l~l~~n~-l~~l~~-------~~~~~L~~L~l~~n~~~~~---~~~~~~~~~~l~~L~~s~n-~  206 (305)
T d1xkua_         139 SGIENGAFQGMKKLSYIRIADTN-ITTIPQ-------GLPPSLTELHLDGNKITKV---DAASLKGLNNLAKLGLSFN-S  206 (305)
T ss_dssp             GGBCTTGGGGCTTCCEEECCSSC-CCSCCS-------SCCTTCSEEECTTSCCCEE---CTGGGTTCTTCCEEECCSS-C
T ss_pred             cCCCccccccccccCccccccCC-ccccCc-------ccCCccCEEECCCCcCCCC---ChhHhhccccccccccccc-c
Confidence            11111112356677777777663 222221       2356777777766543221   2344556667777777764 5


Q ss_pred             CCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccC
Q 000945          507 LKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFL  566 (1212)
Q Consensus       507 l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  566 (1212)
                      +..+++ ..+.++++|++|++++|. ++.+|.            .+..+++|+.|+++++
T Consensus       207 l~~~~~-~~~~~l~~L~~L~L~~N~-L~~lp~------------~l~~l~~L~~L~Ls~N  252 (305)
T d1xkua_         207 ISAVDN-GSLANTPHLRELHLNNNK-LVKVPG------------GLADHKYIQVVYLHNN  252 (305)
T ss_dssp             CCEECT-TTGGGSTTCCEEECCSSC-CSSCCT------------TTTTCSSCCEEECCSS
T ss_pred             cccccc-ccccccccceeeeccccc-cccccc------------ccccccCCCEEECCCC
Confidence            666644 455667777777777764 666654            4556666666666664

>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=99.48  E-value=5e-13  Score=145.94  Aligned_cols=249  Identities=15%  Similarity=0.132  Sum_probs=129.3

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++|++|+|++|.++.+....|.  .+++|+.|++++|. +..+++.. +.++++|++|++++|. ++.++.        
T Consensus        30 ~~~l~~L~Ls~N~i~~l~~~~f~--~l~~L~~L~l~~n~-~~~i~~~~-f~~l~~L~~L~l~~n~-l~~l~~--------   96 (305)
T d1xkua_          30 PPDTALLDLQNNKITEIKDGDFK--NLKNLHTLILINNK-ISKISPGA-FAPLVKLERLYLSKNQ-LKELPE--------   96 (305)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTT--TCTTCCEEECCSSC-CCCBCTTT-TTTCTTCCEEECCSSC-CSBCCS--------
T ss_pred             CCCCCEEECcCCcCCCcChhHhh--cccccccccccccc-ccccchhh-hhCCCccCEecccCCc-cCcCcc--------
Confidence            36788888888877777655544  57888888888864 44554433 4778888888888875 666632        


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeeeccc
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVTSK  776 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  776 (1212)
                        ..++.|..|.+.+.. +..+.... ....+.+..+.+..++...... ....+                    ..+++
T Consensus        97 --~~~~~l~~L~~~~n~-l~~l~~~~-~~~~~~~~~l~~~~n~~~~~~~-~~~~~--------------------~~l~~  151 (305)
T d1xkua_          97 --KMPKTLQELRVHENE-ITKVRKSV-FNGLNQMIVVELGTNPLKSSGI-ENGAF--------------------QGMKK  151 (305)
T ss_dssp             --SCCTTCCEEECCSSC-CCBBCHHH-HTTCTTCCEEECCSSCCCGGGB-CTTGG--------------------GGCTT
T ss_pred             --chhhhhhhhhccccc-hhhhhhhh-hhccccccccccccccccccCC-Ccccc--------------------ccccc
Confidence              124566666665532 12211100 0123334444444432211110 00000                    11445


Q ss_pred             ceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccccc
Q 000945          777 LEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQV  856 (1212)
Q Consensus       777 L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L  856 (1212)
                      |+.++++++.+..+..     ..+++|+.|+++++.....+...+..++.++.|+++.+.+.+++               
T Consensus       152 L~~l~l~~n~l~~l~~-----~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~---------------  211 (305)
T d1xkua_         152 LSYIRIADTNITTIPQ-----GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVD---------------  211 (305)
T ss_dssp             CCEEECCSSCCCSCCS-----SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEEC---------------
T ss_pred             cCccccccCCccccCc-----ccCCccCEEECCCCcCCCCChhHhhccccccccccccccccccc---------------
Confidence            5566665555544321     12445555555554444444444455555555555433444332               


Q ss_pred             ceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchh-----hhccc
Q 000945          857 KSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSS-----TAKSL  931 (1212)
Q Consensus       857 ~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~-----~~~~l  931 (1212)
                                        +..+..+++|++|++++| .++++|..+..+++|+.|++++| +|+.++...     ....+
T Consensus       212 ------------------~~~~~~l~~L~~L~L~~N-~L~~lp~~l~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~  271 (305)
T d1xkua_         212 ------------------NGSLANTPHLRELHLNNN-KLVKVPGGLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKK  271 (305)
T ss_dssp             ------------------TTTGGGSTTCCEEECCSS-CCSSCCTTTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTS
T ss_pred             ------------------cccccccccceeeecccc-cccccccccccccCCCEEECCCC-ccCccChhhccCcchhccc
Confidence                              233445555666666655 45555555555666666666663 455553221     22344


Q ss_pred             ccccEEEecCcc
Q 000945          932 VCLTKLRIDGCR  943 (1212)
Q Consensus       932 ~~L~~L~i~~c~  943 (1212)
                      .+|+.|++++++
T Consensus       272 ~~L~~L~L~~N~  283 (305)
T d1xkua_         272 ASYSGVSLFSNP  283 (305)
T ss_dssp             CCCSEEECCSSS
T ss_pred             CCCCEEECCCCc
Confidence            566777777665

>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=99.47  E-value=7e-14  Score=153.45  Aligned_cols=253  Identities=15%  Similarity=0.085  Sum_probs=143.3

Q ss_pred             cccceeeccccccce---ecccCcccccCcCccEEEEecCCCcc-ccCchhhhhccCCCcEEEeccccccceeecccccc
Q 000945          618 PNLETLELCAISTEK---IWCNQLAAVYSQNLTRLIVHGCEKLK-YLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGE  693 (1212)
Q Consensus       618 ~~L~~L~l~~~~l~~---~~~~~~~~~~l~~L~~L~L~~c~~l~-~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~  693 (1212)
                      ..+..|+++++++..   ++...   ..+++|++|+|++|+++. .+|+.  ++++++|++|+|++|. +..+...    
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~~~~~~----  119 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSL---ANLPYLNFLYIGGINNLVGPIPPA--IAKLTQLHYLYITHTN-VSGAIPD----  119 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGG---GGCTTCSEEEEEEETTEESCCCGG--GGGCTTCSEEEEEEEC-CEEECCG----
T ss_pred             EEEEEEECCCCCCCCCCCCChHH---hcCccccccccccccccccccccc--cccccccchhhhcccc-ccccccc----
Confidence            357888888885542   32221   368888888888877766 45554  6888888888888886 4443221    


Q ss_pred             cccccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecCCCcccccccccchhhccCCCCCCccccceeeeeee
Q 000945          694 EATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKV  773 (1212)
Q Consensus       694 ~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~  773 (1212)
                         ....+++|+.+.+..+.....++..  ...+                                              
T Consensus       120 ---~~~~~~~L~~l~l~~N~~~~~~p~~--l~~l----------------------------------------------  148 (313)
T d1ogqa_         120 ---FLSQIKTLVTLDFSYNALSGTLPPS--ISSL----------------------------------------------  148 (313)
T ss_dssp             ---GGGGCTTCCEEECCSSEEESCCCGG--GGGC----------------------------------------------
T ss_pred             ---cccchhhhcccccccccccccCchh--hccC----------------------------------------------
Confidence               1223455555555554333222211  1123                                              


Q ss_pred             cccceeeeeccccccccccccCcccccccc-eEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNL-KNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEM  852 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L-~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~  852 (1212)
                       ++|+.+++++|.+.+..+  .....+.++ +.+++++|.+...++..+..+..+ .+++..+......+     ..+..
T Consensus       149 -~~L~~l~l~~n~l~~~ip--~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~-~l~l~~~~~~~~~~-----~~~~~  219 (313)
T d1ogqa_         149 -PNLVGITFDGNRISGAIP--DSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLA-FVDLSRNMLEGDAS-----VLFGS  219 (313)
T ss_dssp             -TTCCEEECCSSCCEEECC--GGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCS-EEECCSSEEEECCG-----GGCCT
T ss_pred             -cccceeeccccccccccc--cccccccccccccccccccccccccccccccccc-cccccccccccccc-----ccccc
Confidence             445555555554443322  111223332 455555555554444434444332 45555333333222     12233


Q ss_pred             ccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcc-cccchhhhccc
Q 000945          853 LTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLM-NLVTSSTAKSL  931 (1212)
Q Consensus       853 l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~-~l~~~~~~~~l  931 (1212)
                      +++|+.|++.++.--..     +..+..+++|+.|++++|...+.+|..++.+++|++|++++| +++ .+|.   ...+
T Consensus       220 ~~~l~~l~~~~~~l~~~-----~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N-~l~g~iP~---~~~L  290 (313)
T d1ogqa_         220 DKNTQKIHLAKNSLAFD-----LGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFN-NLCGEIPQ---GGNL  290 (313)
T ss_dssp             TSCCSEEECCSSEECCB-----GGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSS-EEEEECCC---STTG
T ss_pred             ccccccccccccccccc-----ccccccccccccccCccCeecccCChHHhCCCCCCEEECcCC-cccccCCC---cccC
Confidence            67777777777542222     234566778888888887766678888888888888888885 555 5552   2567


Q ss_pred             ccccEEEecCcchhhHhh
Q 000945          932 VCLTKLRIDGCRMLTEII  949 (1212)
Q Consensus       932 ~~L~~L~i~~c~~l~~~~  949 (1212)
                      ++|+.+++++++.+...|
T Consensus       291 ~~L~~l~l~~N~~l~g~p  308 (313)
T d1ogqa_         291 QRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             GGSCGGGTCSSSEEESTT
T ss_pred             CCCCHHHhCCCccccCCC
Confidence            778888888777555443

>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=99.46  E-value=1.6e-12  Score=145.67  Aligned_cols=38  Identities=16%  Similarity=0.177  Sum_probs=28.1

Q ss_pred             CCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhhc
Q 000945          494 YKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFT  538 (1212)
Q Consensus       494 ~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~  538 (1212)
                      .+|++|+|+++ .++.+|  .   .+++|++|+++++ .++++|.
T Consensus        38 ~~l~~LdLs~~-~L~~lp--~---~~~~L~~L~Ls~N-~l~~lp~   75 (353)
T d1jl5a_          38 RQAHELELNNL-GLSSLP--E---LPPHLESLVASCN-SLTELPE   75 (353)
T ss_dssp             HTCSEEECTTS-CCSCCC--S---CCTTCSEEECCSS-CCSSCCC
T ss_pred             cCCCEEEeCCC-CCCCCC--C---CCCCCCEEECCCC-CCccccc
Confidence            46889999884 688876  2   3578899998865 4777765

>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=99.38  E-value=9.2e-12  Score=139.21  Aligned_cols=57  Identities=21%  Similarity=0.141  Sum_probs=40.0

Q ss_pred             cccceeecccccccceeecccCCccccCCccEEEEecCCCCCccCchhhhccCCCccEEEEccCcCcchhh
Q 000945          467 LLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCDKLKNIFSFSFVRGLPQLQTLNVINCKNMKEIF  537 (1212)
Q Consensus       467 ~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~  537 (1212)
                      .+++.|+|+++ .++.+   |.   .+++|++|++++ +.++.+|.     .+.+|+.|+++++. +..++
T Consensus        38 ~~l~~LdLs~~-~L~~l---p~---~~~~L~~L~Ls~-N~l~~lp~-----~~~~L~~L~l~~n~-l~~l~   94 (353)
T d1jl5a_          38 RQAHELELNNL-GLSSL---PE---LPPHLESLVASC-NSLTELPE-----LPQSLKSLLVDNNN-LKALS   94 (353)
T ss_dssp             HTCSEEECTTS-CCSCC---CS---CCTTCSEEECCS-SCCSSCCC-----CCTTCCEEECCSSC-CSCCC
T ss_pred             cCCCEEEeCCC-CCCCC---CC---CCCCCCEEECCC-CCCccccc-----chhhhhhhhhhhcc-cchhh
Confidence            46889999887 34443   43   357899999986 68888873     24688999998864 44443

>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=99.37  E-value=1.4e-12  Score=142.75  Aligned_cols=227  Identities=11%  Similarity=-0.002  Sum_probs=172.1

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeec-CCcc-ccchHHHhhcCccceeEEEccceeEeccccchhhcccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVN-DESE-NFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEM  852 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~-~~~~-~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~  852 (1212)
                      .+++.|+++++++.+..+-+.....+++|++|+|++ |.+. .+|.. +.++++|++|+|+.|.+..+++.     .+..
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~~~~~~-----~~~~  123 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPD-----FLSQ  123 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCG-----GGGG
T ss_pred             EEEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccc-cccccccchhhhccccccccccc-----cccc
Confidence            368999999998887543334567899999999997 6555 78887 89999999999997788776642     3445


Q ss_pred             ccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCc-cEEeeccccCcccccchhhhccc
Q 000945          853 LTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNL-TTLELWYCQRLMNLVTSSTAKSL  931 (1212)
Q Consensus       853 l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L-~~L~l~~c~~l~~l~~~~~~~~l  931 (1212)
                      +..|+.++++++.....+    |..+..++.|+.+++++|...+.+|..+..+..+ +.++++++ +++..++ ..+..+
T Consensus       124 ~~~L~~l~l~~N~~~~~~----p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n-~l~~~~~-~~~~~l  197 (313)
T d1ogqa_         124 IKTLVTLDFSYNALSGTL----PPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRN-RLTGKIP-PTFANL  197 (313)
T ss_dssp             CTTCCEEECCSSEEESCC----CGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSS-EEEEECC-GGGGGC
T ss_pred             hhhhcccccccccccccC----chhhccCcccceeeccccccccccccccccccccccccccccc-ccccccc-cccccc
Confidence            789999999987655544    6788999999999999998888899888888776 77777764 6665543 333444


Q ss_pred             ccccEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCCcC
Q 000945          932 VCLTKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLS 1011 (1212)
Q Consensus       932 ~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~~~ 1011 (1212)
                      . +..+++..+.....++.       ....+++|+.|++.++.- ...+....  .+++|++|++++|.-...+|.++..
T Consensus       198 ~-~~~l~l~~~~~~~~~~~-------~~~~~~~l~~l~~~~~~l-~~~~~~~~--~~~~L~~L~Ls~N~l~g~iP~~l~~  266 (313)
T d1ogqa_         198 N-LAFVDLSRNMLEGDASV-------LFGSDKNTQKIHLAKNSL-AFDLGKVG--LSKNLNGLDLRNNRIYGTLPQGLTQ  266 (313)
T ss_dssp             C-CSEEECCSSEEEECCGG-------GCCTTSCCSEEECCSSEE-CCBGGGCC--CCTTCCEEECCSSCCEECCCGGGGG
T ss_pred             c-ccccccccccccccccc-------cccccccccccccccccc-cccccccc--cccccccccCccCeecccCChHHhC
Confidence            3 44688887775555542       234578899999888853 33333333  3589999999998766689999999


Q ss_pred             CCccceEEeccCc
Q 000945         1012 TPRLREVRQNWGL 1024 (1212)
Q Consensus      1012 ~~~L~~l~~~~~~ 1024 (1212)
                      +++|+++++++|.
T Consensus       267 L~~L~~L~Ls~N~  279 (313)
T d1ogqa_         267 LKFLHSLNVSFNN  279 (313)
T ss_dssp             CTTCCEEECCSSE
T ss_pred             CCCCCEEECcCCc
Confidence            9999999998764

>d1fe0a_ d.58.17.1 (A:) ATX1 metallochaperone protein (ATOX1) {Human (Homo sapiens), HAH1 [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: ATX1 metallochaperone protein (ATOX1)
species: Human (Homo sapiens), HAH1 [TaxId: 9606]

Probab=99.36  E-value=7.4e-13  Score=103.53  Aligned_cols=65  Identities=14%  Similarity=0.211  Sum_probs=61.6

Q ss_pred             EEEEEEEecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEEec
Q 000945         1118 KAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELVSI 1183 (1212)
Q Consensus      1118 ~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~~~ 1183 (1212)
                      +.+++|+|+|++|+.+|.++|.+++|| +|.+|...++++|.|++++.+++++|++.|+.|+++.+
T Consensus         2 k~ef~V~M~C~~C~~~I~~aL~~~~gv-~v~v~~~~~~v~V~~~~~~~~i~~~I~~~Gy~a~lig~   66 (66)
T d1fe0a_           2 KHEFSVDMTCGGCAEAVSRVLNKLGGV-KYDIDLPNKKVCIESEHSMDTLLATLKKTGKTVSYLGL   66 (66)
T ss_dssp             EEEEEECCCSHHHHHHHHHHHHHHCSE-EEEEETTTTEEEEEESSCHHHHHHHHHTTTSCEEEEEC
T ss_pred             CEEEEEccCchHHHHHHHHHHhcCCCc-EEEEEcCCCEEEEEeeCCHHHHHHHHHHhCCeEEEeeC
Confidence            568999999999999999999999998 59999999999999999999999999999999999853

>d1cc8a_ d.58.17.1 (A:) ATX1 metallochaperone protein (ATOX1) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: ATX1 metallochaperone protein (ATOX1)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.34  E-value=1.5e-12  Score=103.88  Aligned_cols=65  Identities=9%  Similarity=0.057  Sum_probs=61.5

Q ss_pred             cceEEEEEEEecchhHHHHHHhHhccC-CCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceE
Q 000945         1115 TKQKAVLKLEIHGEKARQKAFSIVSKF-TGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATE 1179 (1212)
Q Consensus      1115 ~~~~~~~~v~~~c~~c~~~~~~~~~~~-~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~ 1179 (1212)
                      .+++..++|+|||++|+.+|.++|.++ +||.+|.+|...++++|.|++||.++.++|+|.|+.|.
T Consensus         2 ~~kt~~f~V~MtC~~C~~~Ie~~L~~l~~gV~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~G~~~~   67 (72)
T d1cc8a_           2 EIKHYQFNVVMTCSGCSGAVNKVLTKLEPDVSKIDISLEKQLVDVYTTLPYDFILEKIKKTGKEVR   67 (72)
T ss_dssp             CCEEEEEEECCCSHHHHHHHHHHHHTTTTSEEEEEEETTTTEEEEEESSCHHHHHHHHHTTSSCEE
T ss_pred             CcEEEEEEECcCcHHHHHHHHHHHHcCcCceEEEEEECCCCEEEEeecCCHHHHHHHHHHHCCccC
Confidence            468899999999999999999999999 59999999999999999999999999999999998764

>d1qupa2 d.58.17.1 (A:2-73) Copper chaperone for superoxide dismutase, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Copper chaperone for superoxide dismutase, N-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.34  E-value=1.4e-12  Score=104.22  Aligned_cols=66  Identities=17%  Similarity=0.223  Sum_probs=62.4

Q ss_pred             ceEEEEEEEecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceEEE
Q 000945         1116 KQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1116 ~~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      ..+++++|+|+|++|+.++.++|.+++||.+|.+|...++++|.|.++|.+++++|++.|+.|.+.
T Consensus         5 ~~~~~f~V~M~C~~C~~~Iek~l~~~~gV~~v~vdl~~~~v~V~~~~~~~~i~~~I~~~G~~A~l~   70 (72)
T d1qupa2           5 TYEATYAIPMHCENCVNDIKACLKNVPGINSLNFDIEQQIMSVESSVAPSTIINTLRNCGKDAIIR   70 (72)
T ss_dssp             CEEEEEECCCCSTTHHHHHHHHHTTCTTEEEEEEETTTTEEEEEESSCHHHHHHHHHHTTCCCEEE
T ss_pred             cEEEEEEEccCCHHHHHHHHHHHhcCCCeeEEEEECCCCEEEEEeeCCHHHHHHHHHHhCCCEEEe
Confidence            346789999999999999999999999999999999999999999999999999999999998774

>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=99.33  E-value=5.5e-12  Score=134.02  Aligned_cols=197  Identities=15%  Similarity=0.138  Sum_probs=131.9

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      .++.+++-++++++.+++.     -.+++++|+|++|.+..+|...|.++++|+.|+|+.|+++.++...       .++
T Consensus        10 ~~~~~v~C~~~~L~~iP~~-----lp~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~~~-------~l~   77 (266)
T d1p9ag_          10 ASHLEVNCDKRNLTALPPD-----LPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDG-------TLP   77 (266)
T ss_dssp             TTCCEEECTTSCCSSCCSC-----CCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECCS-------CCT
T ss_pred             CCCeEEEccCCCCCeeCcC-----cCcCCCEEECcCCcCCCcCHHHhhcccccccccccccccccccccc-------ccc
Confidence            4555667777777776421     1257999999999999999888899999999999977887765432       367


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccc
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCL  934 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L  934 (1212)
                      +|+.|+++++. +..+    +..+..+++|+.|+++++....-.+.....+.+++.|+++++ .++.++. .....+++|
T Consensus        78 ~L~~L~Ls~N~-l~~~----~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n-~l~~l~~-~~~~~l~~l  150 (266)
T d1p9ag_          78 VLGTLDLSHNQ-LQSL----PLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGN-ELKTLPP-GLLTPTPKL  150 (266)
T ss_dssp             TCCEEECCSSC-CSSC----CCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTS-CCCCCCT-TTTTTCTTC
T ss_pred             ccccccccccc-cccc----ccccccccccccccccccccceeecccccccccccccccccc-ccceecc-ccccccccc
Confidence            88888888764 4433    445667778888888876554433444556677777777774 5666543 334556667


Q ss_pred             cEEEecCcchhhHhhccCccccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCCcCCCc
Q 000945          935 TKLRIDGCRMLTEIISKEEDVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPR 1014 (1212)
Q Consensus       935 ~~L~i~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~~~~~~ 1014 (1212)
                      +.|++++|. +                               +.++..... .+++|++|+++++. ++++|.++..+++
T Consensus       151 ~~l~l~~N~-l-------------------------------~~~~~~~~~-~l~~L~~L~Ls~N~-L~~lp~~~~~~~~  196 (266)
T d1p9ag_         151 EKLSLANNN-L-------------------------------TELPAGLLN-GLENLDTLLLQENS-LYTIPKGFFGSHL  196 (266)
T ss_dssp             CEEECTTSC-C-------------------------------SCCCTTTTT-TCTTCCEEECCSSC-CCCCCTTTTTTCC
T ss_pred             hhccccccc-c-------------------------------cccCccccc-cccccceeecccCC-CcccChhHCCCCC
Confidence            777766654 3                               333322211 24677777777764 6677777777777


Q ss_pred             cceEEeccCc
Q 000945         1015 LREVRQNWGL 1024 (1212)
Q Consensus      1015 L~~l~~~~~~ 1024 (1212)
                      |+.+++.+|.
T Consensus       197 L~~L~L~~Np  206 (266)
T d1p9ag_         197 LPFAFLHGNP  206 (266)
T ss_dssp             CSEEECCSCC
T ss_pred             CCEEEecCCC
Confidence            7777777654

>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=99.31  E-value=7.5e-12  Score=134.65  Aligned_cols=131  Identities=14%  Similarity=0.041  Sum_probs=64.8

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|++|++++|.+..+..  .....+.+|+.+++++|.+..+|...+..+++|+.|+++.|+++.+++.     .+..+
T Consensus       104 l~~L~~L~l~~n~~~~~~~--~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~-----~f~~l  176 (284)
T d1ozna_         104 LGRLHTLHLDRCGLQELGP--GLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPER-----AFRGL  176 (284)
T ss_dssp             CTTCCEEECTTSCCCCCCT--TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTT-----TTTTC
T ss_pred             cccCCEEecCCcccccccc--cccchhcccchhhhccccccccChhHhccccchhhcccccCcccccchh-----hhccc
Confidence            4555566665555544432  2233455666666666666666666666666666666665555554431     12224


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeecc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWY  915 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~  915 (1212)
                      ++|+.+.+.++. +..+   .|..+..+++|++|++++|...+..|..+..+++|++|++++
T Consensus       177 ~~L~~l~l~~N~-l~~i---~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~  234 (284)
T d1ozna_         177 HSLDRLLLHQNR-VAHV---HPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLND  234 (284)
T ss_dssp             TTCCEEECCSSC-CCEE---CTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCS
T ss_pred             cccchhhhhhcc-cccc---ChhHhhhhhhcccccccccccccccccccccccccCEEEecC
Confidence            555555555432 1111   133444445555555554433222222334444555555544

>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=99.30  E-value=9.6e-12  Score=132.07  Aligned_cols=39  Identities=21%  Similarity=-0.049  Sum_probs=25.4

Q ss_pred             CccccCcccEEEEecCCCcccccCCccccCCccEEeeccc
Q 000945          877 LDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYC  916 (1212)
Q Consensus       877 ~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c  916 (1212)
                      .+..+++|++|++++|. ++++|..+..+++|+.|+++++
T Consensus       167 ~~~~l~~L~~L~Ls~N~-L~~lp~~~~~~~~L~~L~L~~N  205 (266)
T d1p9ag_         167 LLNGLENLDTLLLQENS-LYTIPKGFFGSHLLPFAFLHGN  205 (266)
T ss_dssp             TTTTCTTCCEEECCSSC-CCCCCTTTTTTCCCSEEECCSC
T ss_pred             ccccccccceeecccCC-CcccChhHCCCCCCCEEEecCC
Confidence            34556667777776653 5567766666677777777764

>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=99.24  E-value=1.1e-11  Score=133.23  Aligned_cols=206  Identities=15%  Similarity=0.065  Sum_probs=143.0

Q ss_pred             cccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCcc
Q 000945          800 FRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDS  879 (1212)
Q Consensus       800 ~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~  879 (1212)
                      .+++++|+|++|.+..+|...|.++++|+.|+++.+.+..+.+.     .+..++.+..+.+.....+..++   +..+.
T Consensus        31 p~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~-----~~~~~~~~~~l~~~~~~~~~~l~---~~~~~  102 (284)
T d1ozna_          31 PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAA-----AFTGLALLEQLDLSDNAQLRSVD---PATFH  102 (284)
T ss_dssp             CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTT-----TTTTCTTCCEEECCSCTTCCCCC---TTTTT
T ss_pred             CCCCCEEECcCCcCCCCCHHHhhccccccccccccccccccccc-----ccccccccccccccccccccccc---chhhc
Confidence            35678888888888888877788888888888887777766542     22335677777777666666552   45567


Q ss_pred             ccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccccc
Q 000945          880 ITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAEDE  959 (1212)
Q Consensus       880 ~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~  959 (1212)
                      .+++|++|++++|....-.+.....+++|+.+++++ +.++.++. ..+..+++|+.|++++|. +..++..      ..
T Consensus       103 ~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~-N~l~~i~~-~~f~~~~~L~~L~l~~N~-l~~l~~~------~f  173 (284)
T d1ozna_         103 GLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD-NALQALPD-DTFRDLGNLTHLFLHGNR-ISSVPER------AF  173 (284)
T ss_dssp             TCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCT-TTTTTCTTCCEEECCSSC-CCEECTT------TT
T ss_pred             ccccCCEEecCCcccccccccccchhcccchhhhcc-ccccccCh-hHhccccchhhcccccCc-ccccchh------hh
Confidence            788888888888765433334456678888888887 46777754 344667788888888885 5555421      23


Q ss_pred             eeccchhhhhhccCCCcccccCCCceeecCCccEEEeccCCCccccCcCCcCCCccceEEeccCc
Q 000945          960 IVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIECPKMKIFSHRVLSTPRLREVRQNWGL 1024 (1212)
Q Consensus       960 ~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp~~~~~~~~L~~l~~~~~~ 1024 (1212)
                      ..+++|+.+.+.++. +..++..... .+++|++|+++++.-....|..+..+++|+++++++|.
T Consensus       174 ~~l~~L~~l~l~~N~-l~~i~~~~f~-~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~  236 (284)
T d1ozna_         174 RGLHSLDRLLLHQNR-VAHVHPHAFR-DLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNP  236 (284)
T ss_dssp             TTCTTCCEEECCSSC-CCEECTTTTT-TCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSC
T ss_pred             ccccccchhhhhhcc-ccccChhHhh-hhhhcccccccccccccccccccccccccCEEEecCCC
Confidence            346778888888774 4555433322 46899999999986554444566789999999998765

>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=99.19  E-value=4.6e-11  Score=123.45  Aligned_cols=98  Identities=20%  Similarity=0.153  Sum_probs=57.3

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      +.+..+.++.+.+....    ....+++|+.|+++++.+...+.  +.++++|+.|++++|.++++++.       ..++
T Consensus       129 ~~~~~l~~~~~~~~~~~----~~~~~~~L~~L~l~~n~~~~~~~--l~~l~~L~~L~Ls~n~l~~l~~l-------~~l~  195 (227)
T d1h6ua2         129 SNLQVLYLDLNQITNIS----PLAGLTNLQYLSIGNAQVSDLTP--LANLSKLTTLKADDNKISDISPL-------ASLP  195 (227)
T ss_dssp             TTCCEEECCSSCCCCCG----GGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCCGGG-------GGCT
T ss_pred             cchhhhhchhhhhchhh----hhccccccccccccccccccchh--hcccccceecccCCCccCCChhh-------cCCC
Confidence            34444444444433321    12345566666666655554443  56677777777776566665432       2367


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEec
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWW  891 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~  891 (1212)
                      +|++|++++| .++.++     .++++++|+.|++++
T Consensus       196 ~L~~L~Ls~N-~lt~i~-----~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         196 NLIEVHLKNN-QISDVS-----PLANTSNLFIVTLTN  226 (227)
T ss_dssp             TCCEEECTTS-CCCBCG-----GGTTCTTCCEEEEEE
T ss_pred             CCCEEECcCC-cCCCCc-----ccccCCCCCEEEeeC
Confidence            7777777776 365552     356777888888764

>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=99.18  E-value=6.9e-11  Score=122.07  Aligned_cols=185  Identities=18%  Similarity=0.253  Sum_probs=100.5

Q ss_pred             cceeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhh
Q 000945          266 KLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELK  345 (1212)
Q Consensus       266 ~Lr~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~  345 (1212)
                      .|+.|++.+++|..++ .+..+++|++|++++| .+..++.  +.++.+|+++++++|.+.             .++.+.
T Consensus        42 ~L~~L~l~~~~i~~l~-~l~~l~~L~~L~ls~n-~i~~~~~--l~~l~~l~~l~~~~n~~~-------------~i~~l~  104 (227)
T d1h6ua2          42 GITTLSAFGTGVTTIE-GVQYLNNLIGLELKDN-QITDLAP--LKNLTKITELELSGNPLK-------------NVSAIA  104 (227)
T ss_dssp             TCCEEECTTSCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG--GTTCCSCCEEECCSCCCS-------------CCGGGT
T ss_pred             CcCEEECCCCCCCcch-hHhcCCCCcEeecCCc-eeecccc--cccccccccccccccccc-------------cccccc
Confidence            4666666666666663 4666666666666666 5555554  566666666666666542             233455


Q ss_pred             cCCCCCcceeeecccccCCCCcccccceEEeEEEcCcccccCCCccceeeeeccccChHHHHHHHhccceEEEeccCCCc
Q 000945          346 LLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLDEVPGI  425 (1212)
Q Consensus       346 ~l~~L~~L~l~~~~~~~~p~~~~~~~L~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~l~~l~~L~l~~~~~~  425 (1212)
                      .+.+|+.+.++.+....++..                                                           
T Consensus       105 ~l~~L~~l~l~~~~~~~~~~~-----------------------------------------------------------  125 (227)
T d1h6ua2         105 GLQSIKTLDLTSTQITDVTPL-----------------------------------------------------------  125 (227)
T ss_dssp             TCTTCCEEECTTSCCCCCGGG-----------------------------------------------------------
T ss_pred             ccccccccccccccccccchh-----------------------------------------------------------
Confidence            555555555544332221110                                                           


Q ss_pred             ccccccCCccccCCCcEEEeecCCCceeeecCcchhccccccccceeecccccccceeecccCCccccCCccEEEEecCC
Q 000945          426 KNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVRYNAFLLLESLVLHNLIHLEKICLGQLRAESFYKLKIIKVRNCD  505 (1212)
Q Consensus       426 ~~~~~~l~~~~l~~L~~L~l~~~~~~~~l~~~~~~~~~~~~~~L~~L~L~~~~~l~~i~~~~~~~~~l~~L~~L~L~~c~  505 (1212)
                               ...+.++.+.+.++.....       .....+++|+.|.+.++.. ..    ..+++.+++|++|++++| 
T Consensus       126 ---------~~~~~~~~l~~~~~~~~~~-------~~~~~~~~L~~L~l~~n~~-~~----~~~l~~l~~L~~L~Ls~n-  183 (227)
T d1h6ua2         126 ---------AGLSNLQVLYLDLNQITNI-------SPLAGLTNLQYLSIGNAQV-SD----LTPLANLSKLTTLKADDN-  183 (227)
T ss_dssp             ---------TTCTTCCEEECCSSCCCCC-------GGGGGCTTCCEEECCSSCC-CC----CGGGTTCTTCCEEECCSS-
T ss_pred             ---------ccccchhhhhchhhhhchh-------hhhcccccccccccccccc-cc----chhhcccccceecccCCC-
Confidence                     1233444444443321110       0123445566666555421 11    122456777777777774 


Q ss_pred             CCCccCchhhhccCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEeccc
Q 000945          506 KLKNIFSFSFVRGLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKF  565 (1212)
Q Consensus       506 ~l~~l~~~~~~~~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~  565 (1212)
                      .++.++   .+.++++|++|++++|. ++.++.             +..+++|+.|+|++
T Consensus       184 ~l~~l~---~l~~l~~L~~L~Ls~N~-lt~i~~-------------l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         184 KISDIS---PLASLPNLIEVHLKNNQ-ISDVSP-------------LANTSNLFIVTLTN  226 (227)
T ss_dssp             CCCCCG---GGGGCTTCCEEECTTSC-CCBCGG-------------GTTCTTCCEEEEEE
T ss_pred             ccCCCh---hhcCCCCCCEEECcCCc-CCCCcc-------------cccCCCCCEEEeeC
Confidence            566664   25667777777777764 666653             45667777776653

>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=99.16  E-value=3.1e-12  Score=137.11  Aligned_cols=187  Identities=18%  Similarity=0.177  Sum_probs=91.7

Q ss_pred             ccccceEeEeecCCccc-cchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCC
Q 000945          799 IFRNLKNLEVVNDESEN-FRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKL  877 (1212)
Q Consensus       799 ~~~~L~~L~l~~~~~~~-~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~  877 (1212)
                      ...+|++|+++++.+.. ....++.++++|++|+++++.+....     ...+..+++|++|++++|..++....  ...
T Consensus        44 ~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~-----~~~l~~~~~L~~L~Ls~c~~itd~~l--~~l  116 (284)
T d2astb2          44 SPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPI-----VNTLAKNSNLVRLNLSGCSGFSEFAL--QTL  116 (284)
T ss_dssp             CCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHH-----HHHHTTCTTCSEEECTTCBSCCHHHH--HHH
T ss_pred             cCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHH-----HHHHhcCCCCcCcccccccccccccc--chh
Confidence            34567777777644432 22344667777777777722332110     12233456777777777765543210  011


Q ss_pred             ccccCcccEEEEecCCCccc--ccCCc-cccCCccEEeecccc-CcccccchhhhcccccccEEEecCcchhhHhhccCc
Q 000945          878 DSITENLESLEVWWCENLIN--LVPSS-ASFKNLTTLELWYCQ-RLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEE  953 (1212)
Q Consensus       878 ~~~l~~L~~L~l~~c~~l~~--lp~~~-~~l~~L~~L~l~~c~-~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~  953 (1212)
                      ...+++|++|++++|..++.  ++..+ ...++|+.|++++|. .++.-....+..++++|++|++++|..++.-..   
T Consensus       117 ~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~---  193 (284)
T d2astb2         117 LSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCF---  193 (284)
T ss_dssp             HHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGG---
T ss_pred             hHHHHhccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhh---
Confidence            23456677777777766542  11111 223567777776653 343322223445566677777766665432110   


Q ss_pred             cccccceeccchhhhhhccCCCcccccCCCceeecCCccEEEeccC
Q 000945          954 DVAEDEIVFSKLKWVSLERLENLTSFCSGNYTLKFPSLEDLFVIEC  999 (1212)
Q Consensus       954 ~~~~~~~~l~~L~~L~l~~~~~L~~l~~~~~~~~~~sL~~L~i~~C  999 (1212)
                         .....+++|++|++++|+.+..-...... .+|+|+.|++++|
T Consensus       194 ---~~l~~~~~L~~L~L~~C~~i~~~~l~~L~-~~~~L~~L~l~~~  235 (284)
T d2astb2         194 ---QEFFQLNYLQHLSLSRCYDIIPETLLELG-EIPTLKTLQVFGI  235 (284)
T ss_dssp             ---GGGGGCTTCCEEECTTCTTCCGGGGGGGG-GCTTCCEEECTTS
T ss_pred             ---hhhcccCcCCEEECCCCCCCChHHHHHHh-cCCCCCEEeeeCC
Confidence               01223455555555555544322111111 2355555555555

>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=99.16  E-value=3.6e-11  Score=121.03  Aligned_cols=149  Identities=17%  Similarity=0.208  Sum_probs=98.7

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      ++++++|+++++.+..+.    ....+++|++|++++|.+..+++  +.++++|+.|+++.+.+..+++       +..+
T Consensus        39 l~~l~~L~l~~~~i~~l~----~l~~l~nL~~L~Ls~N~l~~~~~--l~~l~~L~~L~l~~n~~~~~~~-------l~~l  105 (199)
T d2omxa2          39 LDQVTTLQADRLGIKSID----GVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQIADITP-------LANL  105 (199)
T ss_dssp             HTTCCEEECTTSCCCCCT----TGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCCGG-------GTTC
T ss_pred             hcCCCEEECCCCCCCCcc----ccccCCCcCcCccccccccCccc--ccCCcccccccccccccccccc-------cccc
Confidence            567788888887777653    24467788888888877777764  6778888888888555655443       2236


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++++|....      ...+..+++|+.|++++|. +..++ .+..+++|+.|++.+| .++.++   .++++++
T Consensus       106 ~~L~~L~l~~~~~~~------~~~~~~l~~L~~L~l~~n~-l~~~~-~l~~~~~L~~L~l~~n-~l~~l~---~l~~l~~  173 (199)
T d2omxa2         106 TNLTGLTLFNNQITD------IDPLKNLTNLNRLELSSNT-ISDIS-ALSGLTSLQQLNFSSN-QVTDLK---PLANLTT  173 (199)
T ss_dssp             TTCSEEECCSSCCCC------CGGGTTCTTCSEEECCSSC-CCCCG-GGTTCTTCSEEECCSS-CCCCCG---GGTTCTT
T ss_pred             ccccccccccccccc------ccccchhhhhHHhhhhhhh-hcccc-cccccccccccccccc-cccCCc---cccCCCC
Confidence            778888877765332      1235567778888887764 44443 3566777788887775 566663   2466777


Q ss_pred             ccEEEecCcchhhHh
Q 000945          934 LTKLRIDGCRMLTEI  948 (1212)
Q Consensus       934 L~~L~i~~c~~l~~~  948 (1212)
                      |+.|++++|. +.++
T Consensus       174 L~~L~ls~N~-i~~i  187 (199)
T d2omxa2         174 LERLDISSNK-VSDI  187 (199)
T ss_dssp             CCEEECCSSC-CCCC
T ss_pred             CCEEECCCCC-CCCC
Confidence            7777777775 4433

>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=99.11  E-value=1.1e-11  Score=132.76  Aligned_cols=91  Identities=14%  Similarity=0.097  Sum_probs=42.5

Q ss_pred             CcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeecccccccccccccCCccceeecccCCccceeccCC
Q 000945          643 SQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGT  722 (1212)
Q Consensus       643 l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~  722 (1212)
                      ..+|++|++++|. +..-....++.++++|++|++++|. +.....       .....+++|++|++++|+.+.......
T Consensus        45 ~~~L~~LdLs~~~-i~~~~l~~l~~~c~~L~~L~L~~~~-l~~~~~-------~~l~~~~~L~~L~Ls~c~~itd~~l~~  115 (284)
T d2astb2          45 PFRVQHMDLSNSV-IEVSTLHGILSQCSKLQNLSLEGLR-LSDPIV-------NTLAKNSNLVRLNLSGCSGFSEFALQT  115 (284)
T ss_dssp             CBCCCEEECTTCE-ECHHHHHHHHTTBCCCSEEECTTCB-CCHHHH-------HHHTTCTTCSEEECTTCBSCCHHHHHH
T ss_pred             CCCCCEEECCCCc-cCHHHHHHHHHhCCCcccccccccC-CCcHHH-------HHHhcCCCCcCccccccccccccccch
Confidence            4567777776653 2221122235666777777777664 221100       011224555555555554443211000


Q ss_pred             CcCCCCCccEEEEecCCCcc
Q 000945          723 HTSKWPMLKKLEVYGCDKVK  742 (1212)
Q Consensus       723 ~~~~~~~L~~L~i~~C~~L~  742 (1212)
                      ....+++|++|++++|.++.
T Consensus       116 l~~~~~~L~~L~ls~c~~~~  135 (284)
T d2astb2         116 LLSSCSRLDELNLSWCFDFT  135 (284)
T ss_dssp             HHHHCTTCCEEECCCCTTCC
T ss_pred             hhHHHHhccccccccccccc
Confidence            01135566666666665543

>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=99.11  E-value=8.1e-10  Score=115.33  Aligned_cols=102  Identities=20%  Similarity=0.201  Sum_probs=52.6

Q ss_pred             ceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccccccc
Q 000945          621 ETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEATTTFV  700 (1212)
Q Consensus       621 ~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~  700 (1212)
                      +.++.++.+++.++..     -++++++|+|+++ .++.+++.. +.++++|++|+++++.....++..       ....
T Consensus        11 ~~i~c~~~~l~~iP~~-----l~~~l~~L~Ls~n-~i~~l~~~~-f~~l~~L~~L~ls~n~~~~~i~~~-------~f~~   76 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSD-----LPRNAIELRFVLT-KLRVIQKGA-FSGFGDLEKIEISQNDVLEVIEAD-------VFSN   76 (242)
T ss_dssp             SEEEEESCSCSSCCSC-----SCSCCSEEEEESC-CCCEECTTT-TTTCTTCCEEEEESCTTCCEECSS-------SEES
T ss_pred             CEEEEeCCCCCCcCCC-----CCCCCCEEECcCC-cCCccChhH-hhccchhhhhhhccccccceeecc-------cccc
Confidence            3455555455544432     2457788888774 566665533 366778888888777644444211       1222


Q ss_pred             CCccceeecccCCccceeccCCCcCCCCCccEEEEec
Q 000945          701 FPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYG  737 (1212)
Q Consensus       701 ~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~  737 (1212)
                      ++.++++.+..+.++..+.... ...+++|+.+.+.+
T Consensus        77 l~~l~~l~~~~~n~l~~~~~~~-~~~l~~L~~l~l~~  112 (242)
T d1xwdc1          77 LPKLHEIRIEKANNLLYINPEA-FQNLPNLQYLLISN  112 (242)
T ss_dssp             CTTCCEEEEECCTTCCEECTTS-EECCTTCCEEEEES
T ss_pred             cccccccccccccccccccccc-ccccccccccccch
Confidence            4455555554444444433221 11344444444444

>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=99.09  E-value=9e-11  Score=119.16  Aligned_cols=144  Identities=19%  Similarity=0.162  Sum_probs=69.3

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +.+|++|+++++.+..+.    ....+++|++|++++|.+..+++  +..+++|+.|+++.|.+++++.       +..+
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  111 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQ----GIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENKVKDLSS-------LKDL  111 (210)
T ss_dssp             HHTCCEEECTTSCCCCCT----TGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCGGG-------GTTC
T ss_pred             hcCccEEECcCCCCCCch----hHhhCCCCCEEeCCCccccCccc--cccCcccccccccccccccccc-------cccc
Confidence            345666666666555542    23345566666666665555553  3455666666665444544322       1224


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.|++.+|.. ..     ...+..++.|+.+++++|. ++.++ ....+++|+.+++++| .++.++   .+..+++
T Consensus       112 ~~L~~L~l~~~~~-~~-----~~~l~~l~~l~~l~~~~n~-l~~~~-~~~~l~~L~~l~l~~n-~l~~i~---~l~~l~~  179 (210)
T d1h6ta2         112 KKLKSLSLEHNGI-SD-----INGLVHLPQLESLYLGNNK-ITDIT-VLSRLTKLDTLSLEDN-QISDIV---PLAGLTK  179 (210)
T ss_dssp             TTCCEEECTTSCC-CC-----CGGGGGCTTCCEEECCSSC-CCCCG-GGGGCTTCSEEECCSS-CCCCCG---GGTTCTT
T ss_pred             ccccccccccccc-cc-----ccccccccccccccccccc-ccccc-cccccccccccccccc-cccccc---cccCCCC
Confidence            5555555555431 11     1234445555555555442 22222 2234455555555553 344432   1334455


Q ss_pred             ccEEEecCc
Q 000945          934 LTKLRIDGC  942 (1212)
Q Consensus       934 L~~L~i~~c  942 (1212)
                      |++|++++|
T Consensus       180 L~~L~Ls~N  188 (210)
T d1h6ta2         180 LQNLYLSKN  188 (210)
T ss_dssp             CCEEECCSS
T ss_pred             CCEEECCCC
Confidence            555555544

>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=99.09  E-value=2.1e-10  Score=116.41  Aligned_cols=143  Identities=21%  Similarity=0.219  Sum_probs=114.5

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +++|++|++++|.++++.+    ...+++|++|++++|.+..+|.  +..+++|+.|+++.+.+..+..       +..+
T Consensus        67 l~~L~~L~L~~n~i~~l~~----~~~l~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~l~~~~~~~~~~-------l~~l  133 (210)
T d1h6ta2          67 LPNVTKLFLNGNKLTDIKP----LANLKNLGWLFLDENKVKDLSS--LKDLKKLKSLSLEHNGISDING-------LVHL  133 (210)
T ss_dssp             CTTCCEEECCSSCCCCCGG----GTTCTTCCEEECCSSCCCCGGG--GTTCTTCCEEECTTSCCCCCGG-------GGGC
T ss_pred             CCCCCEEeCCCccccCccc----cccCcccccccccccccccccc--cccccccccccccccccccccc-------cccc
Confidence            7899999999999988753    4578999999999999998873  7889999999999555554432       3347


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccccCcccccchhhhccccc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYCQRLMNLVTSSTAKSLVC  933 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~  933 (1212)
                      ++|+.++++++. +..     +.....+++|+.+++++|. ++.+++ +..+++|+.|++++| .+++++   .+.++++
T Consensus       134 ~~l~~l~~~~n~-l~~-----~~~~~~l~~L~~l~l~~n~-l~~i~~-l~~l~~L~~L~Ls~N-~i~~l~---~l~~l~~  201 (210)
T d1h6ta2         134 PQLESLYLGNNK-ITD-----ITVLSRLTKLDTLSLEDNQ-ISDIVP-LAGLTKLQNLYLSKN-HISDLR---ALAGLKN  201 (210)
T ss_dssp             TTCCEEECCSSC-CCC-----CGGGGGCTTCSEEECCSSC-CCCCGG-GTTCTTCCEEECCSS-CCCBCG---GGTTCTT
T ss_pred             cccccccccccc-ccc-----ccccccccccccccccccc-cccccc-ccCCCCCCEEECCCC-CCCCCh---hhcCCCC
Confidence            899999998764 333     3456788999999999984 566654 678999999999997 688875   3578899


Q ss_pred             ccEEEecC
Q 000945          934 LTKLRIDG  941 (1212)
Q Consensus       934 L~~L~i~~  941 (1212)
                      |+.|++++
T Consensus       202 L~~L~Ls~  209 (210)
T d1h6ta2         202 LDVLELFS  209 (210)
T ss_dssp             CSEEEEEE
T ss_pred             CCEEEccC
Confidence            99999864

>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=99.08  E-value=3.1e-10  Score=114.01  Aligned_cols=100  Identities=19%  Similarity=0.212  Sum_probs=61.1

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      +++|++|+++++++..+..  +  ..+++|++|++++| .++.+++   ++++++|++|++++|. +..+.         
T Consensus        39 l~~l~~L~l~~~~i~~l~~--l--~~l~nL~~L~Ls~N-~l~~~~~---l~~l~~L~~L~l~~n~-~~~~~---------  100 (199)
T d2omxa2          39 LDQVTTLQADRLGIKSIDG--V--EYLNNLTQINFSNN-QLTDITP---LKNLTKLVDILMNNNQ-IADIT---------  100 (199)
T ss_dssp             HTTCCEEECTTSCCCCCTT--G--GGCTTCCEEECCSS-CCCCCGG---GTTCTTCCEEECCSSC-CCCCG---------
T ss_pred             hcCCCEEECCCCCCCCccc--c--ccCCCcCcCccccc-cccCccc---ccCCcccccccccccc-ccccc---------
Confidence            4678888888886665421  1  25788888888886 5676655   6778888888888775 33332         


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEecC
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGC  738 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~~C  738 (1212)
                      ....++.|+.|.+.++.......    ...+++|+.|++++|
T Consensus       101 ~l~~l~~L~~L~l~~~~~~~~~~----~~~l~~L~~L~l~~n  138 (199)
T d2omxa2         101 PLANLTNLTGLTLFNNQITDIDP----LKNLTNLNRLELSSN  138 (199)
T ss_dssp             GGTTCTTCSEEECCSSCCCCCGG----GTTCTTCSEEECCSS
T ss_pred             ccccccccccccccccccccccc----cchhhhhHHhhhhhh
Confidence            22345666666666554322111    123555666666554

>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=99.06  E-value=6.6e-10  Score=116.03  Aligned_cols=187  Identities=14%  Similarity=0.110  Sum_probs=122.1

Q ss_pred             ccccceeeccccccceecccCcccccCcCccEEEEecCCCccccCchhhhhccCCCcEEEeccccccceeeccccccccc
Q 000945          617 FPNLETLELCAISTEKIWCNQLAAVYSQNLTRLIVHGCEKLKYLFPSSMIRNFVQLEHLEICYCSSLESIVGKESGEEAT  696 (1212)
Q Consensus       617 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  696 (1212)
                      ++++++|++++|.+..+....|.  .+++|++|+++++.....+++. .+..++.+++|.+..+..+..+...       
T Consensus        28 ~~~l~~L~Ls~n~i~~l~~~~f~--~l~~L~~L~ls~n~~~~~i~~~-~f~~l~~l~~l~~~~~n~l~~~~~~-------   97 (242)
T d1xwdc1          28 PRNAIELRFVLTKLRVIQKGAFS--GFGDLEKIEISQNDVLEVIEAD-VFSNLPKLHEIRIEKANNLLYINPE-------   97 (242)
T ss_dssp             CSCCSEEEEESCCCCEECTTTTT--TCTTCCEEEEESCTTCCEECSS-SEESCTTCCEEEEECCTTCCEECTT-------
T ss_pred             CCCCCEEECcCCcCCccChhHhh--ccchhhhhhhccccccceeecc-ccccccccccccccccccccccccc-------
Confidence            36899999999988887766654  5899999999998766655443 3578999999999988878777542       


Q ss_pred             ccccCCccceeecccCCccceeccCCCcCCCCCccEEEEe--cCCCcccccccccchhhccCCCCCCccccceeeeeeec
Q 000945          697 TTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVY--GCDKVKIFTSRFLRFQEINEGQFDIPTQQALFLVEKVT  774 (1212)
Q Consensus       697 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~~L~~L~i~--~C~~L~~lp~~~~~~~~~~~~~~~~~~~~~l~~~~~~l  774 (1212)
                      ....+++|+.|.+.++. +...+...   .+++++.+.+.  ++..+..++..  .+.                   ...
T Consensus        98 ~~~~l~~L~~l~l~~~~-l~~~~~~~---~~~~l~~l~~~~~~n~~l~~i~~~--~~~-------------------~~~  152 (242)
T d1xwdc1          98 AFQNLPNLQYLLISNTG-IKHLPDVH---KIHSLQKVLLDIQDNINIHTIERN--SFV-------------------GLS  152 (242)
T ss_dssp             SEECCTTCCEEEEESCC-CCSCCCCT---TTCBSSCEEEEEESCTTCCEECTT--SST-------------------TSB
T ss_pred             cccccccccccccchhh-hccccccc---cccccccccccccccccccccccc--ccc-------------------ccc
Confidence            23458999999999873 44433222   24445444432  23344444211  000                   013


Q ss_pred             ccceeeeeccccccccccccCcccccccceEeE-eecCCccccchHHHhhcCccceeEEEccceeEec
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLE-VVNDESENFRIGFLERFHNLEKLELRWSSYKEIF  841 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~-l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~  841 (1212)
                      ..++.|++++|.+..+....   ....++..+. ++++.+..+|.+.|.++++|+.|+|+.|+++.++
T Consensus       153 ~~l~~L~l~~n~l~~i~~~~---~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~  217 (242)
T d1xwdc1         153 FESVILWLNKNGIQEIHNCA---FNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLP  217 (242)
T ss_dssp             SSCEEEECCSSCCCEECTTT---TTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSCCCCCC
T ss_pred             ccceeeeccccccccccccc---ccchhhhccccccccccccccHHHhcCCCCCCEEECCCCcCCccC
Confidence            46777888877777765321   2234444443 4447777787777777788888887766676654

>d2ggpb1 d.58.17.1 (B:1-72) Copper transporter domain ccc2a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Copper transporter domain ccc2a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.95  E-value=5.5e-10  Score=89.36  Aligned_cols=66  Identities=11%  Similarity=0.112  Sum_probs=61.9

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe--cCHHHHHHHHHhhcCceEEEe
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD--IDAVPVVRKLRKQLCATELVS 1182 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~--~d~~~~~~~l~k~~~~~~~~~ 1182 (1212)
                      ++++|+|+ |+|++|+.++.+++.+++||.++.+|...++++|+-+  +++.++.++|++.|+.|+++.
T Consensus         2 k~v~l~V~GM~C~~C~~~Ie~~l~~~~gV~~v~V~~~~~~~~v~~~~~~~~~~i~~~i~~~Gy~a~~~~   70 (72)
T d2ggpb1           2 REVILAVHGMTCSACTNTINTQLRALKGVTKCDISLVTNECQVTYDNEVTADSIKEIIEDCGFDCEILR   70 (72)
T ss_dssp             EEEEEECTTCCSSTTTHHHHHHHTTSTTEEEEEECTTTCEEEEEECSSCCHHHHHHHHHHTTCCCEEEE
T ss_pred             eEEEEEECCcccHHHHHHHHHHHhcCCCceEEEEECCCCEEEEEECCCCCHHHHHHHHHHhCCCeEEcc
Confidence            68999998 9999999999999999999999999999999999844  999999999999999999874

>d1sb6a_ d.58.17.1 (A:) Copper chaperone {Synechocystis sp. pcc 6803, Scatx1 [TaxId: 1148]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Copper chaperone
species: Synechocystis sp. pcc 6803, Scatx1 [TaxId: 1148]

Probab=98.94  E-value=1.7e-10  Score=89.82  Aligned_cols=62  Identities=13%  Similarity=0.112  Sum_probs=58.5

Q ss_pred             EEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEecCHHHHHHHHHhhcCceE
Q 000945         1118 KAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGDIDAVPVVRKLRKQLCATE 1179 (1212)
Q Consensus      1118 ~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~~d~~~~~~~l~k~~~~~~ 1179 (1212)
                      ++.++|+ |+|++|+.++.+++.+++||.+|.+|...++++|.+++|+.++.++|.+.|+.|+
T Consensus         2 t~~l~V~gM~C~~C~~~Ie~~l~~~~gv~~v~v~~~~~~v~v~~~~~~~~i~~~i~~~GY~ve   64 (64)
T d1sb6a_           2 TIQLTVPTIACEACAEAVTKAVQNEDAQATVQVDLTSKKVTITSALGEEQLRTAIASAGHEVE   64 (64)
T ss_dssp             EEEEECTTTTSSSCTHHHHHHHHHHCTTCEEEEETTTTEEEEESSSCHHHHHHHHHHHCCCCC
T ss_pred             eEEEEECCccchhHHHHHHHHHhcCCCeeEEEccCCCCEEEEccCCCHHHHHHHHHHcCCCCC
Confidence            4679997 9999999999999999999999999999999999999999999999999998764

>d2aw0a_ d.58.17.1 (A:) Menkes copper-transporting ATPase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Menkes copper-transporting ATPase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=9.1e-10  Score=88.27  Aligned_cols=66  Identities=17%  Similarity=0.115  Sum_probs=61.7

Q ss_pred             cceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEE---ecCHHHHHHHHHhhcCceEE
Q 000945         1115 TKQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIG---DIDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1115 ~~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g---~~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      |.|+++|+|+ |+|.+|+.++.+++.+++||.++.+|...++++|.-   .+++.++.+.|++.|+.|.+
T Consensus         1 mt~~~~l~V~GM~C~~C~~~Ie~~l~~~~GV~~v~v~~~~~~v~v~~d~~~~~~~~i~~~i~~~Gy~a~l   70 (72)
T d2aw0a_           1 LTQETVINIDGMTCNSCVQSIEGVISKKPGVKSIRVSLANSNGTVEYDPLLTSPETLRGAIEDMGFDATL   70 (72)
T ss_dssp             CCEEEEEEEECCCSHHHHHHHHHHHHTSTTCCCEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTSEEEE
T ss_pred             CcEEEEEEECCcccHHHHHHHHHHHhcCCCcEEEEEECCCCEEEEEECCCCCCHHHHHHHHHhhCCCcEe
Confidence            6789999999 999999999999999999999999999999999974   38999999999999998865

>d1osda_ d.58.17.1 (A:) Mercuric ion binding protein MerP {Ralstonia metallidurans CH34 [TaxId: 266264]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Mercuric ion binding protein MerP
species: Ralstonia metallidurans CH34 [TaxId: 266264]

Probab=98.89  E-value=1.3e-09  Score=87.21  Aligned_cols=65  Identities=11%  Similarity=0.102  Sum_probs=60.6

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEE---ecCHHHHHHHHHhhcCceEE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIG---DIDAVPVVRKLRKQLCATEL 1180 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g---~~d~~~~~~~l~k~~~~~~~ 1180 (1212)
                      .|+++++|+ |+|.+|+.++.+++.++|||.++.+|...++++|+-   .+|+.++.++|++.|+.|++
T Consensus         2 tqt~~l~V~Gm~C~~C~~~Ie~~l~~~~gV~~v~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~a~v   70 (72)
T d1osda_           2 TQTVTLSVPGMTCSACPITVKKAISKVEGVSKVDVTFETRQAVVTFDDAKTSVQKLTKATADAGYPSSV   70 (72)
T ss_dssp             EEEEEEECTTCCSTTHHHHHHHHHHTSTTEEEEEEETTTTEEEEEEETTTCCHHHHHHHHHHTTCCCEE
T ss_pred             CeEEEEEECCcccHHHHHHHHHHHHcCCCcEEEEEEcCCCEEEEEECCCCCCHHHHHHHHHhcCCCeEe
Confidence            478999998 999999999999999999999999999999999973   38999999999999999885

>d2qifa1 d.58.17.1 (A:1-69) Copper chaperone {Bacillus subtilis, CopZ [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Copper chaperone
species: Bacillus subtilis, CopZ [TaxId: 1423]

Probab=98.88  E-value=3.6e-09  Score=83.77  Aligned_cols=63  Identities=14%  Similarity=0.184  Sum_probs=58.5

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCce
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCAT 1178 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~ 1178 (1212)
                      |++++++|+ |+|.+|+.++.+++.+++||.++++|...++++|..+   +++.++.+.|++.|+.+
T Consensus         1 M~~~tl~V~Gm~C~~C~~~Ie~~l~~~~GV~~v~v~~~~~~v~v~~d~~~~~~~~i~~~i~~~Gy~~   67 (69)
T d2qifa1           1 MEQKTLQVEGMSCQHCVKAVETSVGELDGVSAVHVNLEAGKVDVSFDADKVSVKDIADAIEDQGYDV   67 (69)
T ss_dssp             CEEEEEEEECCCSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHTTCEE
T ss_pred             CcEEEEEECCccCHHHHHHHHHHHhcCCCceEEEEECCCCEEEEEECCCCCCHHHHHHHHHHhCCcc
Confidence            678899998 9999999999999999999999999999999999964   79999999999988754

>d1cpza_ d.58.17.1 (A:) Copper chaperone {Enterococcus hirae [TaxId: 1354]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Copper chaperone
species: Enterococcus hirae [TaxId: 1354]

Probab=98.82  E-value=2.6e-09  Score=84.24  Aligned_cols=62  Identities=13%  Similarity=0.233  Sum_probs=57.4

Q ss_pred             EEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEE---ecCHHHHHHHHHhhcCceEEE
Q 000945         1120 VLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIG---DIDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1120 ~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g---~~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      .++|+ |+|++|+.++.+++.+++||.++.+|...++++|+-   .+++.++.+++++.|+.|+++
T Consensus         3 el~V~GM~C~~C~~~Ie~~l~~~~GV~~v~V~~~~~~v~v~~d~~~~~~~~i~~~i~~~Gy~a~vi   68 (68)
T d1cpza_           3 EFSVKGMSCNHCVARIEEAVGRISGVKKVKVQLKKEKAVVKFDEANVQATEICQAINELGYQAEVI   68 (68)
T ss_dssp             EEEESCCCSSSHHHHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHTTSSCEEEC
T ss_pred             EEEECCeEcHHHHHHHHHHHhcCCCcEEEEEECCCCEEEEEECCCCCCHHHHHHHHHhhCCCcEEC
Confidence            47887 999999999999999999999999999999999984   389999999999999999874

>d1kvja_ d.58.17.1 (A:) Menkes copper-transporting ATPase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Menkes copper-transporting ATPase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=6.8e-09  Score=84.62  Aligned_cols=67  Identities=12%  Similarity=0.102  Sum_probs=62.3

Q ss_pred             cceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEE
Q 000945         1115 TKQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1115 ~~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      .++++.|+|+ |+|.+|+.++.+++.+++||..+.+|...++++|+-+   +++.++.+.|++.|+.|.+.
T Consensus         6 ~~~~~~l~V~gm~C~~C~~~ie~~l~~~~gv~~v~v~~~~~~v~v~~d~~~~~~~~i~~~i~~~GY~~~~~   76 (79)
T d1kvja_           6 GVNSVTISVEGMTCNSCVWTIEQQIGKVNGVHHIKVSLEEKNATIIYDPKLQTPKTLQEAIDDMGFDAVIH   76 (79)
T ss_dssp             TCEEEEEEEESCCSTHHHHHHHHHHHTTTTCSEEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTCEEEEC
T ss_pred             CceEEEEEECCeecHHHHHHHHHHHhcCCCceEEEEECCCCEEEEEECCCCCCHHHHHHHHHhcCCCcEeC
Confidence            3678999999 9999999999999999999999999999999999854   89999999999999988765

>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=98.74  E-value=9.5e-09  Score=93.17  Aligned_cols=81  Identities=23%  Similarity=0.336  Sum_probs=71.6

Q ss_pred             eeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhcC
Q 000945          268 EILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLL  347 (1212)
Q Consensus       268 r~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~l  347 (1212)
                      |+|++++|+|+.+|. ++.+.+|++|++++| .+..+|.. ++.+.+|++|++++|.+.             .++.+..+
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   64 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHN-RLRALPPA-LAALRCLEVLQASDNALE-------------NVDGVANL   64 (124)
T ss_dssp             SEEECTTSCCSSCCC-GGGGTTCCEEECCSS-CCCCCCGG-GGGCTTCCEEECCSSCCC-------------CCGGGTTC
T ss_pred             CEEEcCCCCCCCCcc-cccCCCCCEEECCCC-ccCcchhh-hhhhhccccccccccccc-------------ccCccccc
Confidence            789999999999984 899999999999999 89999987 899999999999999985             34568888


Q ss_pred             CCCCcceeeecccccCC
Q 000945          348 SHLTTLEIQICDAMILP  364 (1212)
Q Consensus       348 ~~L~~L~l~~~~~~~~p  364 (1212)
                      ++|++++++.|.+..++
T Consensus        65 ~~L~~L~l~~N~i~~~~   81 (124)
T d1dcea3          65 PRLQELLLCNNRLQQSA   81 (124)
T ss_dssp             SSCCEEECCSSCCCSSS
T ss_pred             cccCeEECCCCccCCCC
Confidence            99999999988776554

>d1q8la_ d.58.17.1 (A:) Menkes copper-transporting ATPase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Menkes copper-transporting ATPase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.73  E-value=6.9e-09  Score=85.48  Aligned_cols=66  Identities=11%  Similarity=0.132  Sum_probs=60.7

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEE
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      ...+.|+|+ |+|+.|+.++.+++.+++||.++.+|...++++|+-+   +++.++.++|++.|+.|.+.
T Consensus         8 ~~~v~l~V~GMtC~~C~~~Ie~~l~~~~GV~~v~vn~~~~~v~v~~~~~~~~~~~i~~~I~~~Gy~a~~~   77 (84)
T d1q8la_           8 EVVLKMKVEGMTCHSCTSTIEGKIGKLQGVQRIKVSLDNQEATIVYQPHLISVEEMKKQIEAMGFPAFVK   77 (84)
T ss_dssp             CEEEEEEECCTTTCSSCHHHHHHHHTCTTEEEEEECSTTTEEEEEECTTTCCHHHHHHHHHHTTCCEECS
T ss_pred             CEEEEEEECCeEcHHHHHHHHHHHhcCCCceEEEEECCCCEEceeecccccCHHHHHHHHHHhCCccEEc
Confidence            457889998 9999999999999999999999999999999999844   88999999999999988765

>d1p6ta1 d.58.17.1 (A:1-72) Potential copper-translocating P-type ATPase CopA (YvgX) {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Potential copper-translocating P-type ATPase CopA (YvgX)
species: Bacillus subtilis [TaxId: 1423]

Probab=98.70  E-value=1.5e-08  Score=80.96  Aligned_cols=63  Identities=10%  Similarity=0.159  Sum_probs=58.0

Q ss_pred             ceEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEE---EecCHHHHHHHHHhhcCce
Q 000945         1116 KQKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVI---GDIDAVPVVRKLRKQLCAT 1178 (1212)
Q Consensus      1116 ~~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~---g~~d~~~~~~~l~k~~~~~ 1178 (1212)
                      .+++.++|. |+|.+|+.++.+++.+++||.+|.+|...++++|+   |.+++.++.+++++.|+.+
T Consensus         5 ~~~~~l~V~Gm~C~~C~~~Ie~~l~~~~gV~~v~v~~~~~~~~v~~d~~~~~~~~i~~~i~~~Gy~v   71 (72)
T d1p6ta1           5 QKEIAMQVSGMTCAACAARIEKGLKRMPGVTDANVNLATETVNVIYDPAETGTAAIQEKIEKLGYHV   71 (72)
T ss_dssp             CEEEEEEEESCCSSHHHHHHHHHHTTSSSEEEEEEEGGGTEEEEEECTTTSCHHHHHHHHHHHTCEE
T ss_pred             ceEEEEEECCeecHHHHHHHHHHHHcCCCcEEEEEEcCCCEEEEEECCCCCCHHHHHHHHHHhCCcc
Confidence            468999999 99999999999999999999999999999999996   5589999999999998743

>d1p6ta2 d.58.17.1 (A:73-151) Potential copper-translocating P-type ATPase CopA (YvgX) {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Potential copper-translocating P-type ATPase CopA (YvgX)
species: Bacillus subtilis [TaxId: 1423]

Probab=98.67  E-value=2.5e-08  Score=81.22  Aligned_cols=65  Identities=14%  Similarity=0.091  Sum_probs=60.2

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe---cCHHHHHHHHHhhcCceEEE
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD---IDAVPVVRKLRKQLCATELV 1181 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~---~d~~~~~~~l~k~~~~~~~~ 1181 (1212)
                      +++.++|+ |+|.+|+.++.+++.+++||.++.+|...++++|+-+   +++.++.+.|++.|+.|.+.
T Consensus         2 ~k~~~~V~Gm~C~~C~~~Ie~~l~~~~gV~~v~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~   70 (79)
T d1p6ta2           2 EKAEFDIEGMTCAACANRIEKRLNKIEGVANAPVNFALETVTVEYNPKEASVSDLKEAVDKLGYKLKLK   70 (79)
T ss_dssp             EEEEEEESSCCSSSHHHHHHHHHTTSSSEEECCEETTTTEEEEEECTTTCCHHHHHHHHHHHTCCEEES
T ss_pred             eEEEEEECCcccHHHHHHHHHHHhcCCCcEEEEEEeCCCEEEEEECCCCCCHHHHHHHHHHHCCceEEC
Confidence            57899998 9999999999999999999999999999999999853   79999999999999988764

>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=98.65  E-value=1.1e-08  Score=97.83  Aligned_cols=127  Identities=19%  Similarity=0.160  Sum_probs=63.1

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccc
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEML  853 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l  853 (1212)
                      +..|++|++++|.++.+..   ....+++|+.|++++|.+..++.  +..+++|+.|+++.|.++.+++           
T Consensus        17 ~~~lr~L~L~~n~I~~i~~---~~~~l~~L~~L~Ls~N~i~~l~~--~~~l~~L~~L~ls~N~i~~l~~-----------   80 (162)
T d1a9na_          17 AVRDRELDLRGYKIPVIEN---LGATLDQFDAIDFSDNEIRKLDG--FPLLRRLKTLLVNNNRICRIGE-----------   80 (162)
T ss_dssp             TTSCEEEECTTSCCCSCCC---GGGGTTCCSEEECCSSCCCEECC--CCCCSSCCEEECCSSCCCEECS-----------
T ss_pred             cCcCcEEECCCCCCCccCc---cccccccCCEEECCCCCCCccCC--cccCcchhhhhcccccccCCCc-----------
Confidence            3456666666666665531   12334555555555555555532  4445555555555444444432           


Q ss_pred             cccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCccccc--CCccccCCccEEeeccccCcccccc--hhhhc
Q 000945          854 TQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLV--PSSASFKNLTTLELWYCQRLMNLVT--SSTAK  929 (1212)
Q Consensus       854 ~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp--~~~~~l~~L~~L~l~~c~~l~~l~~--~~~~~  929 (1212)
                                            ..+..+++|+.|++++|. +++++  ..+..+++|++|++++|+ ++..+.  ...+.
T Consensus        81 ----------------------~~~~~l~~L~~L~L~~N~-i~~~~~l~~l~~l~~L~~L~l~~N~-i~~~~~~r~~~i~  136 (162)
T d1a9na_          81 ----------------------GLDQALPDLTELILTNNS-LVELGDLDPLASLKSLTYLCILRNP-VTNKKHYRLYVIY  136 (162)
T ss_dssp             ----------------------CHHHHCTTCCEEECCSCC-CCCGGGGGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHH
T ss_pred             ----------------------cccccccccccceecccc-ccccccccccccccccchhhcCCCc-cccccchHHHHHH
Confidence                                  112334455555555442 22222  123456667777776653 444432  12345


Q ss_pred             ccccccEEEec
Q 000945          930 SLVCLTKLRID  940 (1212)
Q Consensus       930 ~l~~L~~L~i~  940 (1212)
                      .+++|+.|+-.
T Consensus       137 ~lp~L~~LD~~  147 (162)
T d1a9na_         137 KVPQVRVLDFQ  147 (162)
T ss_dssp             HCTTCSEETTE
T ss_pred             HCCCcCeeCCC
Confidence            66777777643

>d1mwza_ d.58.17.1 (A:) Metal ion-transporting ATPase ZntA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Metal ion-transporting ATPase ZntA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.62  E-value=3e-08  Score=79.23  Aligned_cols=62  Identities=18%  Similarity=0.133  Sum_probs=57.0

Q ss_pred             eEEEEEEE-ecchhHHHHHHhHhccCCCeeEEEEeCCCCeEEEEEe-cCHHHHHHHHHhhcCce
Q 000945         1117 QKAVLKLE-IHGEKARQKAFSIVSKFTGVLSILFDPKDKKMIVIGD-IDAVPVVRKLRKQLCAT 1178 (1212)
Q Consensus      1117 ~~~~~~v~-~~c~~c~~~~~~~~~~~~gv~~~~~d~~~~~~~v~g~-~d~~~~~~~l~k~~~~~ 1178 (1212)
                      ++..++|. |+|.+|+.++.+++.+++||.++.+|...++++|..+ -++.++.++|.+.|+.+
T Consensus         3 ~k~~~~V~Gm~C~~C~~~Ie~~l~~~~gV~~v~v~~~~~~~~v~~~~~~~~~i~~~i~~~GY~v   66 (73)
T d1mwza_           3 TRYSWKVSGMDCAACARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESALQKAGYSL   66 (73)
T ss_dssp             CCEEEECTTCCSHHHHHHHHHHHHTSSSEEEEEEETTTTEEEEEESSCCHHHHHHHHHHHTCCC
T ss_pred             CEEEEEECCcCCHHHHHHHHHHHhcCCCceEEEEECCCCEEEEEECCCCHHHHHHHHHHcCCcc
Confidence            56889998 9999999999999999999999999999999999987 45789999999999865

>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=98.58  E-value=1.8e-09  Score=124.98  Aligned_cols=40  Identities=20%  Similarity=0.328  Sum_probs=21.1

Q ss_pred             cccCCccEEEEecCCCCCccCc---hhhhccCCCccEEEEccCc
Q 000945          491 ESFYKLKIIKVRNCDKLKNIFS---FSFVRGLPQLQTLNVINCK  531 (1212)
Q Consensus       491 ~~l~~L~~L~L~~c~~l~~l~~---~~~~~~L~~L~~L~l~~c~  531 (1212)
                      ..+++|++|+|++| .++....   ...+..+++|++|+++++.
T Consensus        24 ~~l~~l~~L~L~~~-~i~~~~~~~l~~~L~~~~~L~~LdLs~N~   66 (460)
T d1z7xw1          24 PLLQQCQVVRLDDC-GLTEARCKDISSALRVNPALAELNLRSNE   66 (460)
T ss_dssp             HHHTTCSEEEEESS-CCCHHHHHHHHHHHHTCTTCCEEECTTCC
T ss_pred             HhCCCCCEEEeCCC-CCCHHHHHHHHHHHhcCCCCCEEECcCCc
Confidence            45666666777666 3432100   0224556666666666653

>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=98.58  E-value=3.8e-09  Score=105.11  Aligned_cols=113  Identities=20%  Similarity=0.210  Sum_probs=68.9

Q ss_pred             HhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccC
Q 000945          821 LERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVP  900 (1212)
Q Consensus       821 l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~  900 (1212)
                      +..+++|+.|+++.|.++.+.+       +..+++|+.|++++|. +..+    +.....+++|+.|++++| .++.+++
T Consensus        44 l~~L~~L~~L~Ls~n~I~~i~~-------l~~l~~L~~L~Ls~N~-i~~i----~~~~~~~~~L~~L~l~~N-~i~~l~~  110 (198)
T d1m9la_          44 LSTLKACKHLALSTNNIEKISS-------LSGMENLRILSLGRNL-IKKI----ENLDAVADTLEELWISYN-QIASLSG  110 (198)
T ss_dssp             HHHTTTCCEEECSEEEESCCCC-------HHHHTTCCEEECCEEE-ECSC----SSHHHHHHHCCEEECSEE-ECCCHHH
T ss_pred             HhcccccceeECcccCCCCccc-------ccCCccccChhhcccc-cccc----cccccccccccccccccc-ccccccc
Confidence            5566666666666555554422       2235666666666543 3333    222233456777777765 4555532


Q ss_pred             CccccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhh
Q 000945          901 SSASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEII  949 (1212)
Q Consensus       901 ~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~  949 (1212)
                       +..+++|+.|++++| .++.++....+..+++|+.|++++|+ +...+
T Consensus       111 -~~~l~~L~~L~L~~N-~i~~~~~~~~l~~l~~L~~L~L~~N~-l~~~~  156 (198)
T d1m9la_         111 -IEKLVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNP-LYNDY  156 (198)
T ss_dssp             -HHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSSH-HHHHH
T ss_pred             -ccccccccccccccc-hhccccccccccCCCccceeecCCCc-cccCc
Confidence             566788888888875 56666544456788889999999887 43333

>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=98.57  E-value=4.4e-08  Score=93.58  Aligned_cols=133  Identities=13%  Similarity=0.050  Sum_probs=86.8

Q ss_pred             ccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhhccCCCCc
Q 000945          799 IFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIWKQDSKLD  878 (1212)
Q Consensus       799 ~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~  878 (1212)
                      ++.+|++|++++|.+..++. .+..+++|+.|+++.|.++                              .+     .++
T Consensus        16 n~~~lr~L~L~~n~I~~i~~-~~~~l~~L~~L~Ls~N~i~------------------------------~l-----~~~   59 (162)
T d1a9na_          16 NAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIR------------------------------KL-----DGF   59 (162)
T ss_dssp             CTTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSSCCC------------------------------EE-----CCC
T ss_pred             CcCcCcEEECCCCCCCccCc-cccccccCCEEECCCCCCC------------------------------cc-----CCc
Confidence            34566777777777666653 2444555555555544333                              32     124


Q ss_pred             cccCcccEEEEecCCCcccccCCc-cccCCccEEeeccccCcccccchhhhcccccccEEEecCcchhhHhhccCccccc
Q 000945          879 SITENLESLEVWWCENLINLVPSS-ASFKNLTTLELWYCQRLMNLVTSSTAKSLVCLTKLRIDGCRMLTEIISKEEDVAE  957 (1212)
Q Consensus       879 ~~l~~L~~L~l~~c~~l~~lp~~~-~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~  957 (1212)
                      ..+++|++|++++|. ++.+|+.+ ..+++|+.|++++| .+++++....+..+++|+.|++++|+ +...+.-   ...
T Consensus        60 ~~l~~L~~L~ls~N~-i~~l~~~~~~~l~~L~~L~L~~N-~i~~~~~l~~l~~l~~L~~L~l~~N~-i~~~~~~---r~~  133 (162)
T d1a9na_          60 PLLRRLKTLLVNNNR-ICRIGEGLDQALPDLTELILTNN-SLVELGDLDPLASLKSLTYLCILRNP-VTNKKHY---RLY  133 (162)
T ss_dssp             CCCSSCCEEECCSSC-CCEECSCHHHHCTTCCEEECCSC-CCCCGGGGGGGGGCTTCCEEECCSSG-GGGSTTH---HHH
T ss_pred             ccCcchhhhhccccc-ccCCCccccccccccccceeccc-cccccccccccccccccchhhcCCCc-cccccch---HHH
Confidence            566788888888875 66777654 56899999999996 67777654567889999999999997 4443310   001


Q ss_pred             cceeccchhhhhhccC
Q 000945          958 DEIVFSKLKWVSLERL  973 (1212)
Q Consensus       958 ~~~~l~~L~~L~l~~~  973 (1212)
                      ....+|+|+.|+-...
T Consensus       134 ~i~~lp~L~~LD~~~i  149 (162)
T d1a9na_         134 VIYKVPQVRVLDFQKV  149 (162)
T ss_dssp             HHHHCTTCSEETTEEC
T ss_pred             HHHHCCCcCeeCCCCC
Confidence            2345788888876543

>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=98.50  E-value=9.2e-08  Score=94.84  Aligned_cols=108  Identities=19%  Similarity=0.201  Sum_probs=57.8

Q ss_pred             ccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhcccccc
Q 000945          775 SKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLT  854 (1212)
Q Consensus       775 ~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~  854 (1212)
                      +++++|+|++|.++...+. ..+..+++|++|++++|.+..++...+..+++|+.|+++.|.++.++             
T Consensus        29 ~~l~~L~Ls~N~i~~~~~~-~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~-------------   94 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSD-GLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEIS-------------   94 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCS-CSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEEC-------------
T ss_pred             CCCCEEEeCCCCCcccccc-cccCCCceEeeeeccccccccccccccccccccceeeeccccccccC-------------
Confidence            4566666666666543211 22234555555555555555555555555555555555544444433             


Q ss_pred             ccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeecccc
Q 000945          855 QVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQ  917 (1212)
Q Consensus       855 ~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~  917 (1212)
                                          +..+.++++|++|++++| .++.+|+. +..+++|++|++++++
T Consensus        95 --------------------~~~F~~l~~L~~L~L~~N-~l~~i~~~~f~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_          95 --------------------NKMFLGLHQLKTLNLYDN-QISCVMPGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             --------------------SSSSTTCTTCCEEECCSS-CCCEECTTSSTTCTTCCEEECTTCC
T ss_pred             --------------------HHHHhCCCcccccccCCc-cccccCHHHhcCCcccccccccccc
Confidence                                233455566666666664 34555443 4566777777777643

>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=98.48  E-value=8.9e-08  Score=86.58  Aligned_cols=73  Identities=18%  Similarity=0.286  Sum_probs=45.0

Q ss_pred             eeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccce
Q 000945          779 ELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKS  858 (1212)
Q Consensus       779 ~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~  858 (1212)
                      .|++++|+++.+.    ....+++|++|++++|.+..+|.. +..+++|+.|+++.|.++.+++       +..+++|+.
T Consensus         2 ~L~Ls~n~l~~l~----~l~~l~~L~~L~ls~N~l~~lp~~-~~~l~~L~~L~l~~N~i~~l~~-------~~~l~~L~~   69 (124)
T d1dcea3           2 VLHLAHKDLTVLC----HLEQLLLVTHLDLSHNRLRALPPA-LAALRCLEVLQASDNALENVDG-------VANLPRLQE   69 (124)
T ss_dssp             EEECTTSCCSSCC----CGGGGTTCCEEECCSSCCCCCCGG-GGGCTTCCEEECCSSCCCCCGG-------GTTCSSCCE
T ss_pred             EEEcCCCCCCCCc----ccccCCCCCEEECCCCccCcchhh-hhhhhcccccccccccccccCc-------cccccccCe
Confidence            5677777777653    245567777777777777777654 5667777777777666655432       122455555


Q ss_pred             EeeCC
Q 000945          859 LKLWE  863 (1212)
Q Consensus       859 L~l~~  863 (1212)
                      |++++
T Consensus        70 L~l~~   74 (124)
T d1dcea3          70 LLLCN   74 (124)
T ss_dssp             EECCS
T ss_pred             EECCC
Confidence            55554

>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=98.45  E-value=1e-08  Score=118.45  Aligned_cols=114  Identities=14%  Similarity=0.102  Sum_probs=66.2

Q ss_pred             CCCcEEEeecCCCceeeecCcchh-ccccccccceeeccccccccee--ecccCCccccCCccEEEEecCCCCCccCchh
Q 000945          438 LQLKHLHVQNNPFILFIVDSMAWV-RYNAFLLLESLVLHNLIHLEKI--CLGQLRAESFYKLKIIKVRNCDKLKNIFSFS  514 (1212)
Q Consensus       438 ~~L~~L~l~~~~~~~~l~~~~~~~-~~~~~~~L~~L~L~~~~~l~~i--~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~~  514 (1212)
                      ++|+.|+++++. +..    ..|. ....++++++|+|.+|. ++..  ......+..+++|++|+|+++ .++......
T Consensus         2 ~~l~~ld~~~~~-i~~----~~~~~l~~~l~~l~~L~L~~~~-i~~~~~~~l~~~L~~~~~L~~LdLs~N-~i~~~~~~~   74 (460)
T d1z7xw1           2 LDIQSLDIQCEE-LSD----ARWAELLPLLQQCQVVRLDDCG-LTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHC   74 (460)
T ss_dssp             EEEEEEEEESCC-CCH----HHHHHHHHHHTTCSEEEEESSC-CCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHH
T ss_pred             CCCCEEEeeCCc-CCh----HHHHHHHHhCCCCCEEEeCCCC-CCHHHHHHHHHHHhcCCCCCEEECcCC-cCChHHHHH
Confidence            368899997763 221    1222 25678899999999883 3321  111223467889999999985 554321111


Q ss_pred             hhc----cCCCccEEEEccCcCcchhhcccccCCccCCccCceecccccEEecccC
Q 000945          515 FVR----GLPQLQTLNVINCKNMKEIFTVGRENDVDCHEVDKIEFSQLHSLTLKFL  566 (1212)
Q Consensus       515 ~~~----~L~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  566 (1212)
                      ...    ...+|++|++++|. ++....       ......+..+++|++|++.++
T Consensus        75 l~~~l~~~~~~L~~L~L~~n~-it~~~~-------~~l~~~l~~~~~L~~L~L~~N  122 (460)
T d1z7xw1          75 VLQGLQTPSCKIQKLSLQNCC-LTGAGC-------GVLSSTLRTLPTLQELHLSDN  122 (460)
T ss_dssp             HHHTTCSTTCCCCEEECTTSC-CBGGGH-------HHHHHHTTSCTTCCEEECCSS
T ss_pred             HHHHHhcCCCCCCEEECCCCC-cccccc-------ccccchhhccccccccccccc
Confidence            111    23579999999986 443211       000013456778888888775

>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=98.40  E-value=2.1e-07  Score=92.13  Aligned_cols=85  Identities=16%  Similarity=0.178  Sum_probs=62.6

Q ss_pred             cccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCC-ccccCCccEEeeccccCcccccchhhhcc
Q 000945          852 MLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPS-SASFKNLTTLELWYCQRLMNLVTSSTAKS  930 (1212)
Q Consensus       852 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~  930 (1212)
                      .+++|+.|+++++. +..+   .+..+..+++|++|++++| .++.+|+. +..+++|++|+|+++ .|+.+++ ..+..
T Consensus        52 ~l~~L~~L~L~~N~-i~~~---~~~~~~~~~~L~~L~Ls~N-~l~~l~~~~F~~l~~L~~L~L~~N-~l~~i~~-~~f~~  124 (192)
T d1w8aa_          52 RLPHLVKLELKRNQ-LTGI---EPNAFEGASHIQELQLGEN-KIKEISNKMFLGLHQLKTLNLYDN-QISCVMP-GSFEH  124 (192)
T ss_dssp             GCTTCCEEECCSSC-CCCB---CTTTTTTCTTCCEEECCSC-CCCEECSSSSTTCTTCCEEECCSS-CCCEECT-TSSTT
T ss_pred             CCceEeeeeccccc-cccc---cccccccccccceeeeccc-cccccCHHHHhCCCcccccccCCc-cccccCH-HHhcC
Confidence            35566666665543 2222   1445667889999999986 56777664 678999999999994 7999865 45578


Q ss_pred             cccccEEEecCcc
Q 000945          931 LVCLTKLRIDGCR  943 (1212)
Q Consensus       931 l~~L~~L~i~~c~  943 (1212)
                      +++|++|++++++
T Consensus       125 l~~L~~l~L~~N~  137 (192)
T d1w8aa_         125 LNSLTSLNLASNP  137 (192)
T ss_dssp             CTTCCEEECTTCC
T ss_pred             Ccccccccccccc
Confidence            8999999999886

>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=98.31  E-value=1.8e-08  Score=100.20  Aligned_cols=60  Identities=18%  Similarity=0.140  Sum_probs=26.8

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEcccee
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYK  838 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~  838 (1212)
                      +++|++|++++|.++.+.    ....+++|+.|++++|.+..+|.. ...+++|+.|++++|.++
T Consensus        47 L~~L~~L~Ls~n~I~~i~----~l~~l~~L~~L~Ls~N~i~~i~~~-~~~~~~L~~L~l~~N~i~  106 (198)
T d1m9la_          47 LKACKHLALSTNNIEKIS----SLSGMENLRILSLGRNLIKKIENL-DAVADTLEELWISYNQIA  106 (198)
T ss_dssp             TTTCCEEECSEEEESCCC----CHHHHTTCCEEECCEEEECSCSSH-HHHHHHCCEEECSEEECC
T ss_pred             ccccceeECcccCCCCcc----cccCCccccChhhccccccccccc-cccccccccccccccccc
Confidence            445555555555554442    123444455555554444444321 223334444444433443

>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=97.87  E-value=2.8e-06  Score=92.93  Aligned_cols=13  Identities=15%  Similarity=-0.079  Sum_probs=7.2

Q ss_pred             cccCCccEEEEec
Q 000945          491 ESFYKLKIIKVRN  503 (1212)
Q Consensus       491 ~~l~~L~~L~L~~  503 (1212)
                      .....|+.|+|++
T Consensus        28 ~~~~~l~~L~Ls~   40 (344)
T d2ca6a1          28 LEDDSVKEIVLSG   40 (344)
T ss_dssp             HHCSCCCEEECTT
T ss_pred             hhCCCCCEEECcC
Confidence            3445566666655

>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=97.85  E-value=1.3e-06  Score=95.69  Aligned_cols=141  Identities=16%  Similarity=0.080  Sum_probs=61.5

Q ss_pred             ccceEeEeecCCccccc----hHHHhhcCccceeEEEccceeEeccccchhhccccccccceEeeCCCccchhhh-ccCC
Q 000945          801 RNLKNLEVVNDESENFR----IGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVKSLKLWELSDLMYIW-KQDS  875 (1212)
Q Consensus       801 ~~L~~L~l~~~~~~~~p----~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~-~~~~  875 (1212)
                      +.|+.|+++++.+..-.    ...+..+++|+.|+++.+.+..-.....+...+...++|+.|+++++. +..-. ....
T Consensus       158 ~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~-i~~~g~~~L~  236 (344)
T d2ca6a1         158 PPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSALA  236 (344)
T ss_dssp             CCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHHHH
T ss_pred             cccceeecccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccc-cccccccccc
Confidence            34555555554433211    112445566666666633332100000011223345666666666653 11100 0001


Q ss_pred             CCccccCcccEEEEecCCCccc----ccCCcc--ccCCccEEeeccccCcccccch----hhhcccccccEEEecCcc
Q 000945          876 KLDSITENLESLEVWWCENLIN----LVPSSA--SFKNLTTLELWYCQRLMNLVTS----STAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       876 ~~~~~l~~L~~L~l~~c~~l~~----lp~~~~--~l~~L~~L~l~~c~~l~~l~~~----~~~~~l~~L~~L~i~~c~  943 (1212)
                      ..+..+++|++|++++|..-..    +-..+.  ..++|++|++++| .++.-...    .+...+++|+.|+++++.
T Consensus       237 ~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N-~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         237 IALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYN-EIELDAVRTLKTVIDEKMPDLLFLELNGNR  313 (344)
T ss_dssp             HHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSS-CCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             ccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCC-cCChHHHHHHHHHHHccCCCCCEEECCCCc
Confidence            2344556667777766642211    111111  2356777777765 34331111    111245567777776655

>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=97.81  E-value=1.7e-05  Score=74.57  Aligned_cols=101  Identities=17%  Similarity=0.070  Sum_probs=51.6

Q ss_pred             eeeeccccccccccccCcccccccceEeEeec-CCccccchHHHhhcCccceeEEEccceeEeccccchhhccccccccc
Q 000945          779 ELKLSGKDIAMICQSQFPKHIFRNLKNLEVVN-DESENFRIGFLERFHNLEKLELRWSSYKEIFSNEEIVEHAEMLTQVK  857 (1212)
Q Consensus       779 ~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~-~~~~~~p~~~l~~l~~L~~L~l~c~~l~~~~~~~~~~~~~~~l~~L~  857 (1212)
                      .++.++++....+   .....+++|++|++++ +.+..++...|.++++|+.|+++.|.++.+.+               
T Consensus        12 ~l~c~~~~~~~~p---~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~---------------   73 (156)
T d2ifga3          12 GLRCTRDGALDSL---HHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAP---------------   73 (156)
T ss_dssp             CEECCSSCCCTTT---TTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECT---------------
T ss_pred             eEEecCCCCccCc---ccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCccc---------------
Confidence            3444444444332   1223445566666654 34566655555555555555555545544432               


Q ss_pred             eEeeCCCccchhhhccCCCCccccCcccEEEEecCCCcccccCCccccCCccEEeeccc
Q 000945          858 SLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCENLINLVPSSASFKNLTTLELWYC  916 (1212)
Q Consensus       858 ~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~l~~c  916 (1212)
                                        ..+..+++|++|++++| .++.+|.......+|+.|+|+++
T Consensus        74 ------------------~~f~~l~~L~~L~Ls~N-~l~~l~~~~~~~~~l~~L~L~~N  113 (156)
T d2ifga3          74 ------------------DAFHFTPRLSRLNLSFN-ALESLSWKTVQGLSLQELVLSGN  113 (156)
T ss_dssp             ------------------TGGGSCSCCCEEECCSS-CCSCCCSTTTCSCCCCEEECCSS
T ss_pred             ------------------ccccccccccceeccCC-CCcccChhhhccccccccccCCC
Confidence                              23344555555555553 34455555444445666666664

>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=97.76  E-value=1.2e-05  Score=75.50  Aligned_cols=97  Identities=12%  Similarity=0.120  Sum_probs=78.0

Q ss_pred             eeeeccCCccccccHHHHhhcccccccccCCCCCcccchhHhhccccCceeecCCCcceeeeeccccCCCccchhhhhcC
Q 000945          268 EILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLL  347 (1212)
Q Consensus       268 r~L~ls~~~i~~lp~~i~~L~~L~~L~Ls~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~~~~~~~~~~L~~l  347 (1212)
                      ..++.+++.+...|..+..+.+|+.|++.++..++.++.+.|..+.+|+.|++++|.+.           ......+..+
T Consensus        11 ~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~-----------~i~~~~f~~l   79 (156)
T d2ifga3          11 SGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLR-----------FVAPDAFHFT   79 (156)
T ss_dssp             SCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCC-----------EECTTGGGSC
T ss_pred             CeEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccC-----------Cccccccccc
Confidence            34677788888888889899999999998775799999888999999999999999886           2234568888


Q ss_pred             CCCCcceeeecccccCCCCc-ccccceEE
Q 000945          348 SHLTTLEIQICDAMILPKGL-FSKKLERY  375 (1212)
Q Consensus       348 ~~L~~L~l~~~~~~~~p~~~-~~~~L~~l  375 (1212)
                      ++|+.|++++|.+..+|.+. ....++.+
T Consensus        80 ~~L~~L~Ls~N~l~~l~~~~~~~~~l~~L  108 (156)
T d2ifga3          80 PRLSRLNLSFNALESLSWKTVQGLSLQEL  108 (156)
T ss_dssp             SCCCEEECCSSCCSCCCSTTTCSCCCCEE
T ss_pred             ccccceeccCCCCcccChhhhcccccccc
Confidence            99999999999999888875 23344444

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=97.63  E-value=0.00022  Score=74.40  Aligned_cols=111  Identities=21%  Similarity=0.202  Sum_probs=77.8

Q ss_pred             cccchHHHHHHHHHHhC------CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHH
Q 000945          150 AFESRKSILNDALDALS------NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIAD  223 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~  223 (1212)
                      .++||+.+++.+.++|.      ......+-|+|+.|+||||+|+.+.+...-...| ..+|+..........+...+..
T Consensus        17 ~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~   95 (276)
T d1fnna2          17 RLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTA-RFVYINGFIYRNFTAIIGEIAR   95 (276)
T ss_dssp             CCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCC-EEEEEETTTCCSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCC-cEEEecchhhhhhhhhhhhhHH
Confidence            47899999999999885      1345678899999999999999999987622222 3456666667778888888888


Q ss_pred             HhcCcccC--CChhHHHHHHHHHHHcC-CcEE-EecCccccc
Q 000945          224 QLGLYICE--GSESERAMVLCGLLKKG-KKIL-VLDNIWTSL  261 (1212)
Q Consensus       224 ~l~~~~~~--~~~~~~~~~l~~~L~~~-kr~L-VLDDVw~~~  261 (1212)
                      ..+.....  .........+.+.+... .... ++|++++..
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~  137 (276)
T d1fnna2          96 SLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLA  137 (276)
T ss_dssp             HTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSC
T ss_pred             hhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhh
Confidence            87665432  34445555565555432 4555 888777653

>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=97.30  E-value=0.00018  Score=72.52  Aligned_cols=51  Identities=12%  Similarity=0.159  Sum_probs=42.8

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.....++|.++.++.+.+|+..+....+-++|+.|+||||+|+.+.+...
T Consensus        10 P~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~   60 (227)
T d1sxjc2          10 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY   60 (227)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhh
Confidence            345567889999999999999877766566999999999999999988754

>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=97.24  E-value=0.0002  Score=71.89  Aligned_cols=51  Identities=18%  Similarity=0.215  Sum_probs=43.0

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.....++|.++.++.+..|+.+..+.-+-++|..|+||||+|+.+.+...
T Consensus        11 P~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~   61 (224)
T d1sxjb2          11 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELL   61 (224)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHh
Confidence            445667889999999999999887776677999999999999999887654

>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=97.24  E-value=0.0003  Score=71.13  Aligned_cols=99  Identities=21%  Similarity=0.303  Sum_probs=63.1

Q ss_pred             ccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhh----cCCCCEEEEE-EecCCCCHHHHHHHHHH
Q 000945          149 EAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKK----LKLCDEVVFV-EVSQTPDVKRIQGDIAD  223 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v----~~~F~~~~wv-~vs~~~~~~~l~~~il~  223 (1212)
                      ..++||++++++++..|....-.-+-+||.+|+|||+++..+.....-    ....+.++|. .++      .+      
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~------~l------   85 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG------SL------   85 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------------
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeec------hH------
Confidence            347899999999999998544455669999999999998888776432    1234556665 111      10      


Q ss_pred             HhcCcccCCChhHHHHHHHHHHHcCCcEE-EecCcccc
Q 000945          224 QLGLYICEGSESERAMVLCGLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       224 ~l~~~~~~~~~~~~~~~l~~~L~~~kr~L-VLDDVw~~  260 (1212)
                       +.+......-+++...+.+.+...+.++ ++||+-.-
T Consensus        86 -iag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l  122 (268)
T d1r6bx2          86 -LAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTI  122 (268)
T ss_dssp             --CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTT
T ss_pred             -hccCccchhHHHHHHHHHHHhhccCCceEEecchHHH
Confidence             0111112233445555666665546677 99998755

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=97.19  E-value=0.00054  Score=71.76  Aligned_cols=112  Identities=22%  Similarity=0.235  Sum_probs=73.5

Q ss_pred             ccccchHHHHHHHHHHhC----C----CC-ceEEEEEecCCCchhHHHHHHHHHhhh----cCCCCEEEEEEecCCCCHH
Q 000945          149 EAFESRKSILNDALDALS----N----PN-VNVIGLCGLGGIGKTTLAKIVFYQAKK----LKLCDEVVFVEVSQTPDVK  215 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~----~----~~-~~vi~I~GmgGiGKTTLA~~vyn~~~v----~~~F~~~~wv~vs~~~~~~  215 (1212)
                      ..+.||+.+++.|.+.+.    .    .+ ..++.|+|+.|+||||+|+++.+...-    ........++.+...-...
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   95 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY   95 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchh
Confidence            457799999999988763    1    11 235677899999999999999987431    1223445667777777777


Q ss_pred             HHHHHHHHHhcCcccC--CChhHHHHHHHHHHHc-CCcEE-EecCcccc
Q 000945          216 RIQGDIADQLGLYICE--GSESERAMVLCGLLKK-GKKIL-VLDNIWTS  260 (1212)
Q Consensus       216 ~l~~~il~~l~~~~~~--~~~~~~~~~l~~~L~~-~kr~L-VLDDVw~~  260 (1212)
                      .....+...++.....  .........+.+.... +..++ ++|.+...
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l  144 (287)
T d1w5sa2          96 TILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSM  144 (287)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHH
T ss_pred             hHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEe
Confidence            7777777777654322  3444455555555542 24555 88877654

>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=97.16  E-value=0.00019  Score=73.03  Aligned_cols=111  Identities=14%  Similarity=0.135  Sum_probs=65.7

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhhc-CCCCEEEEEEecCCCCHHHHHHHHHHH
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKKL-KLCDEVVFVEVSQTPDVKRIQGDIADQ  224 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~-~~F~~~~wv~vs~~~~~~~l~~~il~~  224 (1212)
                      ....+++|+++.++.+..|+.......+-++|..|+||||+|+.+.++..-. ..+...+.+..+...+...+...+-..
T Consensus         9 ~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (237)
T d1sxjd2           9 KNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNF   88 (237)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHH
Confidence            3455678888889999999987776768899999999999999998864211 112333445555555555444333222


Q ss_pred             hcCcccCCChhHHHHHHHHHHHcCCcEEEecCcccc
Q 000945          225 LGLYICEGSESERAMVLCGLLKKGKKILVLDNIWTS  260 (1212)
Q Consensus       225 l~~~~~~~~~~~~~~~l~~~L~~~kr~LVLDDVw~~  260 (1212)
                      ..........    ..+.......++++|+|++...
T Consensus        89 ~~~~~~~~~~----~~~~~~~~~~~~viiiDe~d~l  120 (237)
T d1sxjd2          89 ARLTVSKPSK----HDLENYPCPPYKIIILDEADSM  120 (237)
T ss_dssp             HHSCCCCCCT----THHHHSCCCSCEEEEETTGGGS
T ss_pred             hhhhhhhhhH----HHHhhccccCceEEEEeccccc
Confidence            2111111111    1111222222456699998755

>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=97.14  E-value=0.00096  Score=69.55  Aligned_cols=47  Identities=17%  Similarity=0.246  Sum_probs=38.8

Q ss_pred             CCCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ......++||+++++.+.+.    .-++|.|+|.+|+|||||++++-++..
T Consensus         8 ~~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~   54 (283)
T d2fnaa2           8 KDNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELN   54 (283)
T ss_dssp             CCSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CCChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCC
Confidence            34467789999999998874    346889999999999999999987654

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.11  E-value=0.00067  Score=64.31  Aligned_cols=100  Identities=19%  Similarity=0.205  Sum_probs=61.8

Q ss_pred             cccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhh----cCCCCEEEEEEecCCCCHHHHHHHHHHHh
Q 000945          150 AFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKK----LKLCDEVVFVEVSQTPDVKRIQGDIADQL  225 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v----~~~F~~~~wv~vs~~~~~~~l~~~il~~l  225 (1212)
                      .++||++++++++..|....-.-+-+||.+|+|||++++.+..+..-    ....+.++|.     .|...+...     
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~-----ld~~~LiAg-----   92 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLA-----LDMGALVAG-----   92 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEE-----ECHHHHHTT-----
T ss_pred             CCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEE-----eeHHHHhcc-----
Confidence            47899999999999998655556779999999999998877765432    2344566664     233222110     


Q ss_pred             cCcccCCChhHHHHHHHHHH-HcCCcEE-EecCccccc
Q 000945          226 GLYICEGSESERAMVLCGLL-KKGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       226 ~~~~~~~~~~~~~~~l~~~L-~~~kr~L-VLDDVw~~~  261 (1212)
                        ......-+++...+.+.+ +...+++ ++||+-.-.
T Consensus        93 --~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~  128 (195)
T d1jbka_          93 --AKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMV  128 (195)
T ss_dssp             --TCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGT
T ss_pred             --CCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHh
Confidence              000011223344444444 3324666 999987663

>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=96.41  E-value=0.0019  Score=69.17  Aligned_cols=100  Identities=15%  Similarity=0.170  Sum_probs=56.9

Q ss_pred             ccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHH----HHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 000945          149 EAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIV----FYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQ  224 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~v----yn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~  224 (1212)
                      ..++||+++++.++..|....-.-+-+||.+|||||+++..+    .+..-.....+.++|.     .|+..++-.    
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~-----ld~~~l~ag----   92 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVS-----LQMGSLLAG----   92 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEE-----ECC----------
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEE-----eeHhhhhcc----
Confidence            347899999999999997443444568899999999977544    4433233456677776     222222111    


Q ss_pred             hcCcccCCChhHHHHHHHHHHHcC-CcEE-EecCcccc
Q 000945          225 LGLYICEGSESERAMVLCGLLKKG-KKIL-VLDNIWTS  260 (1212)
Q Consensus       225 l~~~~~~~~~~~~~~~l~~~L~~~-kr~L-VLDDVw~~  260 (1212)
                      .   .....-.++...+...+... ..++ ++|++-..
T Consensus        93 ~---~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l  127 (387)
T d1qvra2          93 A---KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTV  127 (387)
T ss_dssp             --------CHHHHHHHHHHHHHTTCSSEEEEECCC---
T ss_pred             c---CcchhHHHHHHHHHHHhccCCCceEEEeccHHHH
Confidence            0   00112334555555666432 3565 99998765

>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=96.30  E-value=0.0016  Score=65.46  Aligned_cols=50  Identities=16%  Similarity=0.189  Sum_probs=42.7

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.++.++.+..|+......-+-++|..|+||||+|+.+-+...
T Consensus        21 ~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~   70 (231)
T d1iqpa2          21 QRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF   70 (231)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHH
Confidence            34566889999999999999877777788999999999999999988643

>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=96.29  E-value=0.0004  Score=65.28  Aligned_cols=65  Identities=23%  Similarity=0.072  Sum_probs=41.7

Q ss_pred             cccceeeeeccccccccccccCcccccccceEeEeecCCccccchHHHhhcCccceeEEEcccee
Q 000945          774 TSKLEELKLSGKDIAMICQSQFPKHIFRNLKNLEVVNDESENFRIGFLERFHNLEKLELRWSSYK  838 (1212)
Q Consensus       774 l~~L~~L~l~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~~~~p~~~l~~l~~L~~L~l~c~~l~  838 (1212)
                      +++|+.|++++|.++.+.+.......+++|+.|++++|.+..++.-......+|+.|+++.|.+.
T Consensus        64 ~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~  128 (162)
T d1koha1          64 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLS  128 (162)
T ss_dssp             CTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTS
T ss_pred             CCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcC
Confidence            67788888888887776532223345677777777777777776543334455666666655444

>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=96.17  E-value=0.0017  Score=60.70  Aligned_cols=40  Identities=15%  Similarity=0.270  Sum_probs=19.3

Q ss_pred             HhhcccccccccCCCCCcccch--hHhhccccCceeecCCCcc
Q 000945          285 AQLTQLRLFDLSGCSKLKVIPP--NLLSGLSRLEDLYMGNTSV  325 (1212)
Q Consensus       285 ~~L~~L~~L~Ls~~~~l~~lp~--~~i~~L~~L~~L~l~~~~~  325 (1212)
                      ..+.+|++|+|++| .|..++.  ..+..+.+|+.|++++|.+
T Consensus        62 ~~~~~L~~L~Ls~N-~i~~l~~~~~~~~~l~~L~~L~Ls~N~i  103 (162)
T d1koha1          62 ENIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGNEL  103 (162)
T ss_dssp             HHCTTCCCCCCCSS-CCCCCSGGGTHHHHSTTCCCCCCTTSCC
T ss_pred             HhCCCCCEeeCCCc-cccCCchhHHHHhhCCcccccccccCcc
Confidence            34555555555555 4444331  2244455555555555554

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.16  E-value=0.002  Score=65.03  Aligned_cols=49  Identities=20%  Similarity=0.282  Sum_probs=38.1

Q ss_pred             CcccccchHHHHHHHHHHhC-----CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALS-----NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~-----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....++|.++.++.+-.++.     .....-+-++|+.|+||||+|+.+.+...
T Consensus         7 ~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~   60 (239)
T d1ixsb2           7 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG   60 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            45567899888888776664     22355566999999999999999998765

>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=96.12  E-value=0.0095  Score=58.15  Aligned_cols=74  Identities=23%  Similarity=0.234  Sum_probs=49.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCC
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGK  249 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~k  249 (1212)
                      ...+-|||..|+|||.|++++.+...  +.....+++.      ...+...+.+.+...        ....+.+.+.. -
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~~~~--~~~~~~~~~~------~~~~~~~~~~~~~~~--------~~~~~~~~~~~-~   98 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGNEAK--KRGYRVIYSS------ADDFAQAMVEHLKKG--------TINEFRNMYKS-V   98 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHH--HTTCCEEEEE------HHHHHHHHHHHHHHT--------CHHHHHHHHHT-C
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHhc--cCccceEEec------hHHHHHHHHHHHHcc--------chhhHHHHHhh-c
Confidence            34478999999999999999999876  3344555553      344555555544221        13345566664 7


Q ss_pred             cEEEecCcccc
Q 000945          250 KILVLDNIWTS  260 (1212)
Q Consensus       250 r~LVLDDVw~~  260 (1212)
                      .+|++||+...
T Consensus        99 dll~iDDi~~i  109 (213)
T d1l8qa2          99 DLLLLDDVQFL  109 (213)
T ss_dssp             SEEEEECGGGG
T ss_pred             cchhhhhhhhh
Confidence            78899999755

>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=96.08  E-value=0.0021  Score=65.62  Aligned_cols=49  Identities=18%  Similarity=0.238  Sum_probs=38.7

Q ss_pred             CCcccccchHHHHHHHHHHhCCC-CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          146 EGYEAFESRKSILNDALDALSNP-NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~-~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .....++|+++.++.+..++... ...-+-|+|++|+||||+|+++.+..
T Consensus         8 ~~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           8 KSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            34567889988888888777633 34446699999999999999999874

>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=95.92  E-value=0.012  Score=59.00  Aligned_cols=50  Identities=18%  Similarity=0.347  Sum_probs=41.0

Q ss_pred             CCcccccchHHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          146 EGYEAFESRKSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       146 ~~~~~i~gr~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .....++|.++.++.+..++..... +.+-|+|..|+||||+|+.+.+...
T Consensus         9 ~~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~   59 (239)
T d1njfa_           9 QTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN   59 (239)
T ss_dssp             SSGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhc
Confidence            3466788999999999999876554 4577999999999999999887654

>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=95.88  E-value=0.0033  Score=63.34  Aligned_cols=49  Identities=27%  Similarity=0.373  Sum_probs=38.9

Q ss_pred             CcccccchHHHHHHHHHHhC-----CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDALS-----NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~-----~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....++|.+..++.+-.|+.     .....-+-++|+.|+||||+|+.+-+...
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~   60 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ   60 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             cHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccC
Confidence            45668899998888888874     22344466999999999999999998765

>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=95.70  E-value=0.0081  Score=60.98  Aligned_cols=64  Identities=22%  Similarity=0.195  Sum_probs=46.5

Q ss_pred             CcccccchHHHHHHHHHHhCC-----------------CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEec
Q 000945          147 GYEAFESRKSILNDALDALSN-----------------PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVS  209 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~-----------------~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs  209 (1212)
                      ....++|.++.++++.+|+..                 ...+.+-++|..|+||||+|+++.+...    + ..+++..+
T Consensus        12 ~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~----~-~~~~~~~~   86 (253)
T d1sxja2          12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----Y-DILEQNAS   86 (253)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----C-EEEEECTT
T ss_pred             CHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHH----h-hhhccccc
Confidence            456788899999999888742                 2346788999999999999999998654    2 23455555


Q ss_pred             CCCCHH
Q 000945          210 QTPDVK  215 (1212)
Q Consensus       210 ~~~~~~  215 (1212)
                      ...+..
T Consensus        87 ~~~~~~   92 (253)
T d1sxja2          87 DVRSKT   92 (253)
T ss_dssp             SCCCHH
T ss_pred             cchhhH
Confidence            544443

>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=95.44  E-value=0.0034  Score=60.56  Aligned_cols=25  Identities=16%  Similarity=0.181  Sum_probs=22.8

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++.|.|.|+.|+||||||+++.+..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999998864

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=95.30  E-value=0.0052  Score=57.92  Aligned_cols=26  Identities=27%  Similarity=0.388  Sum_probs=23.4

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.||+|+|..|.||||||+++-+...
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~   27 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALC   27 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46999999999999999999988655

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.28  E-value=0.0057  Score=58.37  Aligned_cols=36  Identities=19%  Similarity=0.146  Sum_probs=27.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      -.+|.|.|+.|+||||+|+++...... ..++...++
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~~-~~~~~~~~~   41 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLNQ-QGGRSVSLL   41 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH-HCSSCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhh-cCCCchhhh
Confidence            358899999999999999999988653 245544444

>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=95.27  E-value=0.0048  Score=56.91  Aligned_cols=23  Identities=30%  Similarity=0.368  Sum_probs=20.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ++|.|.|+.|.||||+|+.+..+
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            47889999999999999998664

>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=95.26  E-value=0.0037  Score=58.72  Aligned_cols=25  Identities=32%  Similarity=0.341  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.|-|.|+.|+||||+||.+-....
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            4688889999999999999998754

>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=95.03  E-value=0.015  Score=56.09  Aligned_cols=29  Identities=34%  Similarity=0.411  Sum_probs=25.5

Q ss_pred             CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          167 NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       167 ~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+.-+|||.|..|.||||||+.+.....
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            44667899999999999999999988766

>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=94.92  E-value=0.008  Score=56.27  Aligned_cols=26  Identities=35%  Similarity=0.298  Sum_probs=23.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+||+|+|..|.|||||+.++-...+
T Consensus         1 Mkii~I~G~~gSGKTTli~~l~~~L~   26 (165)
T d1xjca_           1 MNVWQVVGYKHSGKTTLMEKWVAAAV   26 (165)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            36999999999999999999988766

>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=94.89  E-value=0.0063  Score=56.68  Aligned_cols=23  Identities=35%  Similarity=0.453  Sum_probs=21.1

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |.|+||+|+||||+|+.+..+..
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67889999999999999999875

>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=94.82  E-value=0.0065  Score=57.37  Aligned_cols=25  Identities=40%  Similarity=0.432  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..|.|.|+.|+||||+|+.+..+..
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            3577999999999999999987653

>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=94.81  E-value=0.0074  Score=57.06  Aligned_cols=24  Identities=29%  Similarity=0.373  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++|.|.|+.|+||||+|+.+-...
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            578999999999999999997643

>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=94.71  E-value=0.0075  Score=56.44  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=20.2

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |.++||.|+||||+|+.+.+...
T Consensus         4 IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            44669999999999999998875

>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=94.67  E-value=0.057  Score=53.96  Aligned_cols=49  Identities=22%  Similarity=0.239  Sum_probs=35.7

Q ss_pred             CcccccchHHHHHHHHHH---hCC---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          147 GYEAFESRKSILNDALDA---LSN---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~---L~~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....|.|.++.+++|.+.   +..         ...+-|-++|..|+|||++|+++-+...
T Consensus        10 t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~   70 (256)
T d1lv7a_          10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK   70 (256)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcC
Confidence            445677888777776543   321         1235577999999999999999998765

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.63  E-value=0.068  Score=53.43  Aligned_cols=85  Identities=21%  Similarity=0.243  Sum_probs=58.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC------CChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE------GSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~------~~~~~~~~~l~  242 (1212)
                      .-+++-|+|..|+||||+|-.+.......  =-.++||..-..|+..+     +++++.+.+.      .+.++..+.+.
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~--g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~  131 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIAD  131 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHT--TCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcC--CCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHHH
Confidence            45788999999999999997777665533  34689999998898776     4556665432      34444454444


Q ss_pred             HHHHcCCcEE-EecCcccc
Q 000945          243 GLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~~kr~L-VLDDVw~~  260 (1212)
                      .-++.++.-| |+|.+-..
T Consensus       132 ~l~~~~~~~liIiDSi~al  150 (269)
T d1mo6a1         132 MLIRSGALDIVVIDSVAAL  150 (269)
T ss_dssp             HHHHTTCEEEEEEECSTTC
T ss_pred             HHHhcCCCCEEEEeccccc
Confidence            4444445556 99987644

>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=94.50  E-value=0.008  Score=57.60  Aligned_cols=25  Identities=36%  Similarity=0.317  Sum_probs=22.6

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +.|.|.|.+|+||||||+.+.....
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~   26 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4689999999999999999998775

>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=94.32  E-value=0.011  Score=56.62  Aligned_cols=25  Identities=24%  Similarity=0.506  Sum_probs=23.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++|.|.|+.|+||||+++.+.....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~   26 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLR   26 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH
Confidence            6899999999999999999988765

>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=94.27  E-value=0.013  Score=56.60  Aligned_cols=28  Identities=29%  Similarity=0.252  Sum_probs=24.8

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +..+||.|.|+.|.||||+|+.+..+..
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            4688999999999999999999988553

>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=94.09  E-value=0.013  Score=55.28  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=21.4

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.|.|.|+.|+||||+|+.+....
T Consensus         6 ~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           6 INILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999864

>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=94.03  E-value=0.011  Score=55.50  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=21.2

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|-++||.|+||||+|+.+.+...
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            456889999999999999998775

>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=93.94  E-value=0.019  Score=55.34  Aligned_cols=28  Identities=25%  Similarity=0.192  Sum_probs=24.3

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ....+|.|+|+.|.||||+|+.+.++..
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            3567999999999999999999988653

>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=93.92  E-value=0.011  Score=57.08  Aligned_cols=25  Identities=32%  Similarity=0.317  Sum_probs=22.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|-+.|+.|.||||+|+++.....
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La~~l~   44 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALEEYLV   44 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4788999999999999999988765

>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=93.72  E-value=0.015  Score=54.83  Aligned_cols=23  Identities=35%  Similarity=0.458  Sum_probs=20.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      -++|.|.|+.|.||||+|+++-.
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999854

>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=93.71  E-value=0.021  Score=53.59  Aligned_cols=28  Identities=29%  Similarity=0.366  Sum_probs=24.3

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+-++|.|+|+.|.||||+|+.+.....
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            3568899999999999999999988653

>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=93.59  E-value=0.019  Score=56.18  Aligned_cols=25  Identities=28%  Similarity=0.321  Sum_probs=22.6

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.++|.+|+||||+|+++.....
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~   27 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLN   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5799999999999999999997665

>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=93.59  E-value=0.061  Score=54.28  Aligned_cols=26  Identities=31%  Similarity=0.358  Sum_probs=22.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+-|=++|..|.|||+||+++.+...
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~~   66 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANECQ   66 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHTT
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHhC
Confidence            44577999999999999999998765

>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=93.50  E-value=0.032  Score=53.37  Aligned_cols=32  Identities=19%  Similarity=0.190  Sum_probs=25.6

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCE
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDE  202 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~  202 (1212)
                      .++|.|.|+.|+||||+|+.+..... ..+|..
T Consensus         1 mkiivi~G~~GsGKTT~~~~La~~L~-~~~~~~   32 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVKEILD-NQGINN   32 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHH-TTTCCE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-HcCCCE
Confidence            36899999999999999999988765 234443

>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=93.49  E-value=0.027  Score=56.15  Aligned_cols=46  Identities=22%  Similarity=0.145  Sum_probs=31.7

Q ss_pred             cccchHHHHHHHHHHhC-------C---CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          150 AFESRKSILNDALDALS-------N---PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       150 ~i~gr~~~~~~l~~~L~-------~---~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +|+|..+.++.+++...       .   ...+-|-++|..|+|||++|++|.+...
T Consensus        10 ~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~   65 (246)
T d1d2na_          10 GIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESN   65 (246)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccc
Confidence            45565555555544332       1   2345577999999999999999998765

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=93.41  E-value=0.12  Score=51.56  Aligned_cols=85  Identities=24%  Similarity=0.275  Sum_probs=57.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC------CChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE------GSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~------~~~~~~~~~l~  242 (1212)
                      .-+++-|+|..|.||||+|-.+.-...-..  -.++|+..-..|+..     +++.++.+...      .+.++..+.+.
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~  128 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIME  128 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHHH
Confidence            456899999999999999988877655332  457899988889875     56777776432      34444444444


Q ss_pred             HHHHcCCcEE-EecCcccc
Q 000945          243 GLLKKGKKIL-VLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~~kr~L-VLDDVw~~  260 (1212)
                      ..++.++.-| |+|-+-..
T Consensus       129 ~l~~~~~~~liIiDSi~al  147 (268)
T d1xp8a1         129 LLVRSGAIDVVVVDSVAAL  147 (268)
T ss_dssp             HHHTTTCCSEEEEECTTTC
T ss_pred             HHHhcCCCcEEEEeccccc
Confidence            4344333445 99988654

>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=93.38  E-value=0.02  Score=53.98  Aligned_cols=25  Identities=20%  Similarity=0.203  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .++|.|.|..|.||||+|+.+....
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998864

>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=93.32  E-value=0.047  Score=54.30  Aligned_cols=51  Identities=24%  Similarity=0.272  Sum_probs=35.7

Q ss_pred             CCCcccccchHHHHHHHHH---HhCC---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          145 SEGYEAFESRKSILNDALD---ALSN---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       145 ~~~~~~i~gr~~~~~~l~~---~L~~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ......|.|-++.++.|.+   .+..         ...+-|-++|..|.|||++|+++.+...
T Consensus         5 ~~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~   67 (247)
T d1ixza_           5 KVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   67 (247)
T ss_dssp             SCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcC
Confidence            3445567777777666544   3321         1234578999999999999999998764

>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=93.28  E-value=0.019  Score=58.63  Aligned_cols=26  Identities=27%  Similarity=0.461  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+.|+|+|-||+||||+|-.+---..
T Consensus         1 mr~Iai~gKGGvGKTT~a~nLA~~LA   26 (269)
T d1cp2a_           1 MRQVAIYGKGGIGKSTTTQNLTSGLH   26 (269)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCcCCHHHHHHHHHHHHH
Confidence            37899999999999999987665443

>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=93.25  E-value=0.022  Score=53.81  Aligned_cols=23  Identities=39%  Similarity=0.485  Sum_probs=21.3

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |.|+|..|+|||||++.|-....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCC
Confidence            79999999999999999998765

>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=93.15  E-value=0.22  Score=49.37  Aligned_cols=101  Identities=19%  Similarity=0.299  Sum_probs=64.6

Q ss_pred             HHHHHhCC-CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCC-CHHHHHHHHHHHhcCc----cc---
Q 000945          160 DALDALSN-PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTP-DVKRIQGDIADQLGLY----IC---  230 (1212)
Q Consensus       160 ~l~~~L~~-~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~-~~~~l~~~il~~l~~~----~~---  230 (1212)
                      ++++.+.- ..-..++|.|-.|+|||||+..+-+... +.+=+.++++-+-+.. .+.++.+++.+.--.+    ..   
T Consensus        57 raID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~-~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tv  135 (276)
T d2jdid3          57 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA-KAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVA  135 (276)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHT-TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEE
T ss_pred             eeeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHH-hhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEE
Confidence            45666651 2234599999999999999998887643 2445678888888765 4667777777642110    00   


Q ss_pred             ------CCChh------HHHHHHHHHHH-c-CCcEE-EecCccccc
Q 000945          231 ------EGSES------ERAMVLCGLLK-K-GKKIL-VLDNIWTSL  261 (1212)
Q Consensus       231 ------~~~~~------~~~~~l~~~L~-~-~kr~L-VLDDVw~~~  261 (1212)
                            .+...      ..+-.+-+++. + ||.+| ++||+-.-.
T Consensus       136 vv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~A  181 (276)
T d2jdid3         136 LVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFT  181 (276)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhHHH
Confidence                  11111      12334566765 3 79999 999987553

>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=93.01  E-value=0.025  Score=55.39  Aligned_cols=25  Identities=20%  Similarity=0.284  Sum_probs=22.4

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -||||-|..|.||||+|+.+.....
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l~   27 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLLG   27 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4899999999999999999988754

>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=92.97  E-value=0.029  Score=58.26  Aligned_cols=45  Identities=22%  Similarity=0.195  Sum_probs=33.9

Q ss_pred             ccchHHHHHHHHHHhC--------------CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          151 FESRKSILNDALDALS--------------NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~--------------~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |+|.++.++.+...+.              +...+-|-.+|+.|+|||.||+++.+...
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc
Confidence            6788888877765441              11346677999999999999999998653

>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=92.72  E-value=0.031  Score=52.29  Aligned_cols=26  Identities=31%  Similarity=0.491  Sum_probs=22.0

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHH
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ..-.+|-++|+.|.||||+|+.+...
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            35678999999999999999987653

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=92.65  E-value=0.026  Score=54.02  Aligned_cols=21  Identities=38%  Similarity=0.574  Sum_probs=19.0

Q ss_pred             eEEEEEecCCCchhHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVF  191 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vy  191 (1212)
                      -+|||.|+.|.||||+|+.+-
T Consensus         4 ~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            489999999999999999873

>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=92.60  E-value=0.12  Score=51.86  Aligned_cols=47  Identities=21%  Similarity=0.227  Sum_probs=34.1

Q ss_pred             ccccchHHHHHHHHHHh----CC---------CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          149 EAFESRKSILNDALDAL----SN---------PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       149 ~~i~gr~~~~~~l~~~L----~~---------~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..|.|.+..+++|.+.+    ..         ...+-|-++|..|+|||++|+++-+...
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~   63 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG   63 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhC
Confidence            34667777777666653    21         1234577999999999999999999765

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.52  E-value=0.19  Score=48.38  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=22.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..|.|.|+-|+||||+|+.+.+...
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~   28 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALC   28 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4789999999999999999999865

>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=92.39  E-value=0.061  Score=54.78  Aligned_cols=27  Identities=30%  Similarity=0.423  Sum_probs=23.3

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+.|-++|+.|+||||||+++.+...
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            345678999999999999999999765

>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=92.30  E-value=0.23  Score=47.15  Aligned_cols=87  Identities=11%  Similarity=-0.018  Sum_probs=50.5

Q ss_pred             HHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhhh--cCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhH
Q 000945          159 NDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAKK--LKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESE  236 (1212)
Q Consensus       159 ~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v--~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~  236 (1212)
                      +.+-+++.......+-++|..|+||||+|..+-+....  ..|-|....-.-++.-++..+. +|.+.+.....      
T Consensus         4 ~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR-~i~~~~~~~~~------   76 (198)
T d2gnoa2           4 ETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIR-TIKDFLNYSPE------   76 (198)
T ss_dssp             HHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHH-HHHHHHTSCCS------
T ss_pred             HHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHH-HHHHHHhhCcc------
Confidence            34444455667889999999999999999998886542  1233432221112223344432 34444432211      


Q ss_pred             HHHHHHHHHHcCCcEEEecCccccc
Q 000945          237 RAMVLCGLLKKGKKILVLDNIWTSL  261 (1212)
Q Consensus       237 ~~~~l~~~L~~~kr~LVLDDVw~~~  261 (1212)
                               ..++|++|+|++....
T Consensus        77 ---------~~~~KviIId~ad~l~   92 (198)
T d2gnoa2          77 ---------LYTRKYVIVHDCERMT   92 (198)
T ss_dssp             ---------SSSSEEEEETTGGGBC
T ss_pred             ---------cCCCEEEEEeCccccc
Confidence                     0136777999987653

>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=92.06  E-value=0.038  Score=54.47  Aligned_cols=42  Identities=29%  Similarity=0.189  Sum_probs=31.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQ  224 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~  224 (1212)
                      ..||+|-|+.|.||||+|+.+-++...    .     +    .+.-.+.|+++..
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~gl----~-----~----iStGdLlR~~a~~   44 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQW----H-----L----LDSGAIYRVLALA   44 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHTC----E-----E----EEHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCC----c-----E----ECHHHHHHHHHHH
Confidence            359999999999999999999998762    2     1    2455666766643

>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=92.05  E-value=0.039  Score=52.89  Aligned_cols=25  Identities=24%  Similarity=0.149  Sum_probs=22.3

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+|.|.|++|.||||.|+.+.+...
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            4789999999999999999998653

>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=92.04  E-value=0.19  Score=47.82  Aligned_cols=57  Identities=25%  Similarity=0.173  Sum_probs=34.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHH--HHHHHHHHhcCc
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKR--IQGDIADQLGLY  228 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~--l~~~il~~l~~~  228 (1212)
                      +.+||.++|..|+||||.+-++-...+ ++.. .++ +--.+.|+.-.  -++...+.++..
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~-~~g~-kV~-lit~Dt~R~gA~eQL~~~a~~l~v~   67 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK-GKGR-RPL-LVAADTQRPAAREQLRLLGEKVGVP   67 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH-HTTC-CEE-EEECCSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-HCCC-cEE-EEecccccchHHHHHHHHHHhcCCc
Confidence            468999999999999976666555444 2333 334 33346666544  333444555554

>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=91.93  E-value=0.39  Score=45.55  Aligned_cols=58  Identities=19%  Similarity=0.168  Sum_probs=40.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHH--HHHHHHHhcCcc
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRI--QGDIADQLGLYI  229 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l--~~~il~~l~~~~  229 (1212)
                      ...||.++|..|+||||.+-++-...+ +  ...++.+...+.|+.-.+  ++...+.++...
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA~~~~-~--~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~   67 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLARQFE-Q--QGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPV   67 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHHHH-T--TTCCEEEECCCTTCHHHHHHHHHHHHHTTCCE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH-H--CCCcEEEEecccccccchhhhhhhhhhcCCcc
Confidence            468999999999999987666655544 2  245677777788887543  334455666554

>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=91.64  E-value=0.049  Score=51.95  Aligned_cols=25  Identities=32%  Similarity=0.313  Sum_probs=21.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++++| |+|++|.||||+|+.+-...
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            45666 88999999999999998754

>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=91.60  E-value=0.044  Score=56.46  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=19.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      .+.|+|.|=||+||||+|-.+--
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~   24 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHH
Confidence            47889999999999999987654

>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=91.57  E-value=0.25  Score=49.17  Aligned_cols=85  Identities=21%  Similarity=0.302  Sum_probs=55.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccC------CChhHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICE------GSESERAMVLC  242 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~------~~~~~~~~~l~  242 (1212)
                      .-+++-|+|..|+||||||-.+.....-..  ..++|+.....|+...     ++.++.+.+.      .+.++..+.+.
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q~~g--~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~~E~~~~~i~  125 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  125 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCC--CEEEEEccccccCHHH-----HHHhCCCHHHEEEecCCCHHHHHHHHH
Confidence            346899999999999999988887765333  4578998888888754     5666665332      23344444444


Q ss_pred             HHHHcCC-cEEEecCcccc
Q 000945          243 GLLKKGK-KILVLDNIWTS  260 (1212)
Q Consensus       243 ~~L~~~k-r~LVLDDVw~~  260 (1212)
                      .-.+.++ +++|+|.+-..
T Consensus       126 ~l~~~~~~~liViDSi~al  144 (263)
T d1u94a1         126 ALARSGAVDVIVVDSVAAL  144 (263)
T ss_dssp             HHHHHTCCSEEEEECGGGC
T ss_pred             HHHhcCCCCEEEEECcccc
Confidence            4344333 33399987533

>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=91.51  E-value=0.055  Score=51.03  Aligned_cols=24  Identities=29%  Similarity=0.332  Sum_probs=20.3

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +++| |.|+.|.||||+|+.+....
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             eEEE-EECCCCCCHHHHHHHHHHHh
Confidence            4544 77999999999999998865

>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=91.30  E-value=0.056  Score=52.20  Aligned_cols=29  Identities=38%  Similarity=0.256  Sum_probs=24.8

Q ss_pred             CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          167 NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       167 ~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...-.||-+.|+.|.||||||+++.....
T Consensus        21 ~~kg~vIwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          21 NQRGLTIWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34667999999999999999999987653

>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=91.28  E-value=0.052  Score=51.74  Aligned_cols=24  Identities=17%  Similarity=0.225  Sum_probs=21.0

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|.|.|+.|.||||+|+.+.+...
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            466999999999999999988764

>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=91.13  E-value=0.057  Score=51.02  Aligned_cols=23  Identities=39%  Similarity=0.398  Sum_probs=20.7

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |.|.|+.|.||||+|+.+.....
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            67999999999999999998764

>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=91.12  E-value=0.053  Score=51.21  Aligned_cols=23  Identities=30%  Similarity=0.203  Sum_probs=20.8

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |.|.|+.|.||||+|+.+.+...
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            67889999999999999998764

>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=91.10  E-value=0.054  Score=51.22  Aligned_cols=22  Identities=36%  Similarity=0.412  Sum_probs=19.9

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.|.|+.|.||||+|+.+....
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999998765

>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=91.07  E-value=0.054  Score=51.48  Aligned_cols=23  Identities=22%  Similarity=0.258  Sum_probs=20.0

Q ss_pred             EEEEEecCCCchhHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .|.|.||.|.||||+|+.+-.+.
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            46688999999999999998854

>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=91.01  E-value=0.042  Score=51.07  Aligned_cols=15  Identities=13%  Similarity=0.056  Sum_probs=9.0

Q ss_pred             cccccccEEEecCcc
Q 000945          929 KSLVCLTKLRIDGCR  943 (1212)
Q Consensus       929 ~~l~~L~~L~i~~c~  943 (1212)
                      ..-++|+.|+++.+.
T Consensus       128 ~~n~sL~~l~l~~~~  142 (167)
T d1pgva_         128 EENESLLRVGISFAS  142 (167)
T ss_dssp             HHCSSCCEEECCCCC
T ss_pred             HhCCCccEeeCcCCC
Confidence            334667777776554

>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=90.94  E-value=0.061  Score=50.80  Aligned_cols=24  Identities=25%  Similarity=0.415  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++|.|+|+.|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            478899999999999999998754

>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=90.93  E-value=0.052  Score=57.25  Aligned_cols=46  Identities=17%  Similarity=0.239  Sum_probs=34.4

Q ss_pred             CcccccchHHHHHHHHHHhCCCCceEEEEEecCCCchhHHHHHHHH
Q 000945          147 GYEAFESRKSILNDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       147 ~~~~i~gr~~~~~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      ++..|+|.+..+..++-........=|-|+|..|+||||||+.+-.
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            4678999988777655444333334578999999999999998864

>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=90.89  E-value=0.066  Score=54.65  Aligned_cols=27  Identities=22%  Similarity=0.305  Sum_probs=24.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..-+|||-|..|+||||+|+.+.....
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~  105 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHh
Confidence            456999999999999999999998765

>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=90.89  E-value=0.064  Score=54.87  Aligned_cols=37  Identities=30%  Similarity=0.477  Sum_probs=28.6

Q ss_pred             HHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          159 NDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       159 ~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..+.+.+.....+||.+.|=||+||||+|-.+-....
T Consensus         9 ~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA   45 (279)
T d1ihua2           9 SALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLA   45 (279)
T ss_dssp             HHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3455555577889999999999999999877655443

>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=90.78  E-value=0.062  Score=52.78  Aligned_cols=41  Identities=22%  Similarity=0.125  Sum_probs=30.7

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQL  225 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l  225 (1212)
                      +|+|-|.+|+||||+|+.+-.+....         +    .+--.+.|.++...
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg~~---------~----istGdl~R~~a~~~   45 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFGFT---------Y----LDTGAMYRAATYMA   45 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHCCE---------E----EEHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCc---------E----ECHHHHHHHHHHHH
Confidence            68999999999999999999977522         1    34556667666443

>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=90.72  E-value=0.06  Score=52.64  Aligned_cols=25  Identities=28%  Similarity=0.283  Sum_probs=22.3

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+++|+|..|.|||||++.++.-.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            4589999999999999999998754

>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=90.66  E-value=0.063  Score=51.07  Aligned_cols=23  Identities=39%  Similarity=0.583  Sum_probs=20.5

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |.|+|+.|+||||||+.+.....
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            66999999999999999988654

>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=90.54  E-value=0.043  Score=52.76  Aligned_cols=24  Identities=25%  Similarity=0.032  Sum_probs=20.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      --+|+|-|.-|+||||+|+.+...
T Consensus         9 p~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           9 PFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            348999999999999999998654

>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=90.51  E-value=0.051  Score=51.97  Aligned_cols=27  Identities=44%  Similarity=0.533  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||.+.+..-.+
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            345799999999999999999987543

>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=90.31  E-value=0.2  Score=51.64  Aligned_cols=38  Identities=24%  Similarity=0.366  Sum_probs=30.1

Q ss_pred             HHHHHHHhC--CCCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          158 LNDALDALS--NPNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       158 ~~~l~~~L~--~~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..++++.+.  ..+..+|||.|.+|+|||||.-++-...+
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~   76 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLT   76 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHh
Confidence            455666553  56789999999999999999999877544

>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=90.25  E-value=0.061  Score=52.57  Aligned_cols=26  Identities=31%  Similarity=0.497  Sum_probs=23.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+++|+|..|.|||||++.++.-.+
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~~   56 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLER   56 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCcc
Confidence            46899999999999999999988554

>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=90.24  E-value=0.33  Score=47.86  Aligned_cols=40  Identities=20%  Similarity=0.199  Sum_probs=33.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecC
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQ  210 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~  210 (1212)
                      .-+++-|+|..|+||||+|..+-.+..  .+...++|++...
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~--~~~~~~~~is~e~   64 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENAC--ANKERAILFAYEE   64 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHH--TTTCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--HhccccceeeccC
Confidence            467889999999999999999888765  6777888887644

>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=90.20  E-value=0.74  Score=43.52  Aligned_cols=85  Identities=19%  Similarity=0.234  Sum_probs=47.2

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC--HHHHHHHHHHHhcCcccC-CChhHHHHHHHH-
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD--VKRIQGDIADQLGLYICE-GSESERAMVLCG-  243 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~--~~~l~~~il~~l~~~~~~-~~~~~~~~~l~~-  243 (1212)
                      +.-+||.++|..|+||||.+-++-...+. +. ..++.|+. +.|.  -..-++...+.++..... .+..+....+++ 
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~-~g-~kV~lit~-Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~   80 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQN-LG-KKVMFCAG-DTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDA   80 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHT-TT-CCEEEECC-CCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHH-CC-CcEEEEEe-ccccccchhhHhhcccccCceEEeccCCccHHHHHHHH
Confidence            35679999999999999877666665542 22 23454433 3343  344445556666665432 222333333332 


Q ss_pred             ----HHHcCCcEEEecC
Q 000945          244 ----LLKKGKKILVLDN  256 (1212)
Q Consensus       244 ----~L~~~kr~LVLDD  256 (1212)
                          +.+ +..++++|=
T Consensus        81 ~~~~~~~-~~d~ilIDT   96 (207)
T d1okkd2          81 VQAMKAR-GYDLLFVDT   96 (207)
T ss_dssp             HHHHHHH-TCSEEEECC
T ss_pred             HHHHHHC-CCCEEEcCc
Confidence                233 355666663

>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=90.15  E-value=0.067  Score=50.72  Aligned_cols=24  Identities=38%  Similarity=0.497  Sum_probs=20.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -|.|+|+.|+|||||++.+.++..
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            367999999999999999988654

>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=90.10  E-value=0.23  Score=51.28  Aligned_cols=48  Identities=25%  Similarity=0.268  Sum_probs=33.8

Q ss_pred             HHHHHHhC--CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEe
Q 000945          159 NDALDALS--NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEV  208 (1212)
Q Consensus       159 ~~l~~~L~--~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~v  208 (1212)
                      .++++.+.  ..+..+|||.|.+|+|||||.-.+-....  ..-..++-+.|
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~--~~g~~vavlav   90 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLI--REGLKVAVIAV   90 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHH--HTTCCEEEEEE
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHH--hcCCceeeecC
Confidence            45555554  45789999999999999999998876655  22234444444

>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=90.09  E-value=0.073  Score=51.68  Aligned_cols=27  Identities=22%  Similarity=0.343  Sum_probs=23.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||.+.+..-.+
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~~   51 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLET   51 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            346899999999999999999987544

>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=90.05  E-value=0.07  Score=51.78  Aligned_cols=35  Identities=23%  Similarity=0.410  Sum_probs=26.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .-.+++|+|..|.|||||++.+..-.+.   -...+++
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~~p---~sG~I~~   64 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLDKP---TEGEVYI   64 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSCC---SEEEEEE
T ss_pred             CCCEEEEECCCCCCcchhhHhccCCCCC---CcceeEE
Confidence            3468999999999999999998874432   2455555

>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=90.02  E-value=0.078  Score=49.67  Aligned_cols=24  Identities=17%  Similarity=0.411  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +.|.|+|+.|+|||||++.+..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            568899999999999999988754

>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=89.93  E-value=0.073  Score=52.84  Aligned_cols=26  Identities=27%  Similarity=0.394  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .-.+++|+|..|.|||||++.+..-.
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            34689999999999999999997643

>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=89.93  E-value=0.24  Score=49.64  Aligned_cols=79  Identities=9%  Similarity=0.005  Sum_probs=43.5

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCC-EEEEEEecCCCCHHHHHHHHHHHhcCc-------ccCCChhHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCD-EVVFVEVSQTPDVKRIQGDIADQLGLY-------ICEGSESERAMV  240 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~-~~~wv~vs~~~~~~~l~~~il~~l~~~-------~~~~~~~~~~~~  240 (1212)
                      ..-+|||-|..|.||||||+.+......+..+. .++-+..-.-|-...=+..+.+.....       ..+..+..+...
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            345899999999999999999987754222222 233333322222222233344443222       223445556666


Q ss_pred             HHHHHHc
Q 000945          241 LCGLLKK  247 (1212)
Q Consensus       241 l~~~L~~  247 (1212)
                      ..+.|+.
T Consensus       106 ~l~~l~~  112 (286)
T d1odfa_         106 VLNTIFN  112 (286)
T ss_dssp             HHHHHTC
T ss_pred             HHHHHHh
Confidence            6666654

>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=89.90  E-value=0.082  Score=49.71  Aligned_cols=23  Identities=30%  Similarity=0.239  Sum_probs=20.3

Q ss_pred             EEEEecCCCchhHHHHHHHHHhh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      |.|.|+.|.||||+|+.+..+..
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            66899999999999999998653

>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=89.77  E-value=0.074  Score=52.86  Aligned_cols=35  Identities=26%  Similarity=0.458  Sum_probs=26.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .-.++||+|..|.|||||++.+..-.+   .-...+++
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl~~---p~~G~I~~   61 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFLEK---PSEGAIIV   61 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC---CSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCcc---CCCCCEEE
Confidence            346899999999999999999986432   33556655

>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=89.76  E-value=0.13  Score=53.14  Aligned_cols=44  Identities=16%  Similarity=0.212  Sum_probs=34.5

Q ss_pred             ccchHHHHHHHHHHhC---------CCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          151 FESRKSILNDALDALS---------NPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~---------~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |+|.++.++.+...+.         +....++-.+|..|+|||.||+.+-.-.
T Consensus        24 viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          24 VFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            6788888888766552         2245688899999999999999998743

>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=89.69  E-value=0.082  Score=51.52  Aligned_cols=27  Identities=26%  Similarity=0.322  Sum_probs=23.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||.+.+..-.+
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            345899999999999999999987544

>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=89.54  E-value=0.08  Score=51.99  Aligned_cols=25  Identities=40%  Similarity=0.565  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -..|+|+|..|.|||||++.+..-.
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            4579999999999999999998744

>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=89.54  E-value=0.085  Score=53.29  Aligned_cols=27  Identities=22%  Similarity=0.428  Sum_probs=23.1

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||++.+..-..
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCCc
Confidence            446799999999999999999987543

>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=89.35  E-value=0.11  Score=49.59  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ...+|-|.|++|.||||+|+.+-...
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999997754

>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=89.35  E-value=0.091  Score=51.13  Aligned_cols=33  Identities=21%  Similarity=0.181  Sum_probs=26.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      .+++|+|..|.|||||++.+..-.+.   -...+|+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~p---~~G~I~~   57 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVKP---DRGEVRL   57 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCC---SEEEEEE
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCCC---CceEEEE
Confidence            47899999999999999999986542   2455555

>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=89.32  E-value=0.089  Score=51.79  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .-.+++|+|..|.|||||++.+..-
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            4468999999999999999998763

>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=89.32  E-value=0.084  Score=52.28  Aligned_cols=27  Identities=30%  Similarity=0.364  Sum_probs=23.0

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||++.+..-.+
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            446899999999999999999987443

>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=89.31  E-value=0.087  Score=52.00  Aligned_cols=26  Identities=35%  Similarity=0.446  Sum_probs=22.1

Q ss_pred             ceEEEEE-ecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLC-GLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~-GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ++||+|+ |-||+||||+|..+-.-..
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la   27 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALA   27 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHH
Confidence            4799999 8899999999998776554

>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=89.06  E-value=0.28  Score=48.90  Aligned_cols=98  Identities=18%  Similarity=0.118  Sum_probs=55.2

Q ss_pred             HHHHHhC-CCCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE-EecCCCCHHHHHHHHHHHhcCcc----cCCC
Q 000945          160 DALDALS-NPNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV-EVSQTPDVKRIQGDIADQLGLYI----CEGS  233 (1212)
Q Consensus       160 ~l~~~L~-~~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv-~vs~~~~~~~l~~~il~~l~~~~----~~~~  233 (1212)
                      ++++.+. =..-..++|+|..|+|||||++.+-+.... .+-++++++ .+.+.....   .++.+......    ....
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~-~~~~~v~~~~~iger~~ev---~~~~~~~~~~vv~~t~d~~  107 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAY-NHPDCVLMVLLIDERPEEV---TEMQRLVKGEVVASTFDEP  107 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHH-HCTTSEEEEEEEEECHHHH---HHHHHHCSSEEEEEETTSC
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhh-cCCCeEEEEEeeceeHHHH---HhHHhhcceEEEeccCCCc
Confidence            5677776 234467899999999999999999887653 334444444 333332211   22222221110    0111


Q ss_pred             hh------HHHHHHHHHHH-cCCcEE-EecCccccc
Q 000945          234 ES------ERAMVLCGLLK-KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       234 ~~------~~~~~l~~~L~-~~kr~L-VLDDVw~~~  261 (1212)
                      ..      ..+-.+-+++. .|+.+| ++||+-.-.
T Consensus       108 ~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr~A  143 (289)
T d1xpua3         108 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLA  143 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHhccCceeecCcHHHHH
Confidence            11      12333445553 369999 999986553

>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=88.91  E-value=0.83  Score=43.34  Aligned_cols=58  Identities=21%  Similarity=0.148  Sum_probs=35.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHH--HHHHHHHHhcCcc
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKR--IQGDIADQLGLYI  229 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~--l~~~il~~l~~~~  229 (1212)
                      .-.||.++|..|+||||.+-++...... +. ..++.|++ +.|.+-.  -++...+.++...
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~~-~~-~kV~lit~-Dt~R~gA~eQL~~~a~~l~i~~   69 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFVD-EG-KSVVLAAA-DTFRAAAIEQLKIWGERVGATV   69 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH-TT-CCEEEEEE-CTTCHHHHHHHHHHHHHHTCEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH-CC-CceEEEee-cccccchhHHHHHHhhhcCccc
Confidence            5679999999999999876666555542 32 33444443 4465543  3444456666554

>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=88.86  E-value=0.11  Score=49.65  Aligned_cols=26  Identities=19%  Similarity=0.399  Sum_probs=23.0

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHH
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      +.+..|+|+|..|+|||||...+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            45778999999999999999999863

>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=88.68  E-value=0.11  Score=47.47  Aligned_cols=22  Identities=32%  Similarity=0.342  Sum_probs=19.2

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.|+|..|+|||||.+.+.++.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999987654

>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=88.40  E-value=0.1  Score=51.91  Aligned_cols=24  Identities=29%  Similarity=0.314  Sum_probs=20.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ||.|.|+.|.|||||.+++-....
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Confidence            799999999999999999865443

>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=88.26  E-value=0.14  Score=50.71  Aligned_cols=26  Identities=19%  Similarity=0.243  Sum_probs=22.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .+.|.|-|+-|+||||+|+.+.+...
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHh
Confidence            46899999999999999999988643

>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=88.19  E-value=0.11  Score=48.09  Aligned_cols=21  Identities=38%  Similarity=0.420  Sum_probs=19.1

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |.|+|..|+|||||.+.+.++
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998774

>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=88.17  E-value=0.061  Score=49.91  Aligned_cols=65  Identities=22%  Similarity=0.088  Sum_probs=33.5

Q ss_pred             cccCcccEEEEecCCCc----ccccCCccccCCccEEeecccc-Ccccccc---hhhhcccccccEEEecCcc
Q 000945          879 SITENLESLEVWWCENL----INLVPSSASFKNLTTLELWYCQ-RLMNLVT---SSTAKSLVCLTKLRIDGCR  943 (1212)
Q Consensus       879 ~~l~~L~~L~l~~c~~l----~~lp~~~~~l~~L~~L~l~~c~-~l~~l~~---~~~~~~l~~L~~L~i~~c~  943 (1212)
                      ...++|+.|++++|..-    ..+...+...++|+.++|+.|. .+..-..   ...+...++|+.|+++.+.
T Consensus        71 ~~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          71 KVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             hhcccchhhhhccccccchhHHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCCC
Confidence            34456666666655432    1222334455677776665442 3332111   1233456778888876654

>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=88.05  E-value=0.21  Score=48.04  Aligned_cols=24  Identities=29%  Similarity=0.430  Sum_probs=21.6

Q ss_pred             EEEEEecCCCchhHHHHHHHHHhh
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .|.|-|+-|+||||+++.+-+...
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~   25 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999988765

>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=88.04  E-value=0.093  Score=50.76  Aligned_cols=27  Identities=19%  Similarity=0.161  Sum_probs=23.2

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.+++|+|..|.|||||.+.+..-..
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            345899999999999999999998543

>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=87.97  E-value=0.12  Score=49.93  Aligned_cols=19  Identities=37%  Similarity=0.541  Sum_probs=17.7

Q ss_pred             EEEEEecCCCchhHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIV  190 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~v  190 (1212)
                      +|||.|+-|.||||.|+.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999865

>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=87.71  E-value=0.21  Score=46.50  Aligned_cols=34  Identities=18%  Similarity=0.200  Sum_probs=25.1

Q ss_pred             HHHHHHhCCCCceEEEEEecCCCchhHHHHHHHHH
Q 000945          159 NDALDALSNPNVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       159 ~~l~~~L~~~~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ..+++++..... -|.|+|-+|+|||||...+-++
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            345665555445 4679999999999999987553

>d3bpda1 d.58.61.1 (A:1-91) Uncharacterized protein AF1549 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: MTH889-like
family: MTH889-like
domain: Uncharacterized protein AF1549
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=87.68  E-value=1.1  Score=34.65  Aligned_cols=61  Identities=15%  Similarity=0.138  Sum_probs=46.7

Q ss_pred             ceEEEEEEEecchhHHHHHHhHhccCCCeeEEEE-----eCCCC--eEEEEEe-cCHHHHHHHHHhhcC
Q 000945         1116 KQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILF-----DPKDK--KMIVIGD-IDAVPVVRKLRKQLC 1176 (1212)
Q Consensus      1116 ~~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~-----d~~~~--~~~v~g~-~d~~~~~~~l~k~~~ 1176 (1212)
                      .+++||-|--.-+.-.-..-+.+++++||+.|.+     |.+..  ++||.|+ +|=.++.+.+.+.|+
T Consensus         4 irRlVLDVlKPh~p~~~~~A~~l~~~~gV~~VnitV~EiD~~t~~i~ItiEG~~idyd~i~~~IE~~Gg   72 (91)
T d3bpda1           4 LRRLVLDVLKPHEPKTIVFALKLSELENVDGVNIHLSEIDQATENIKITILGNNLDYEQIKGVIEDMGG   72 (91)
T ss_dssp             EEEEEEEEEEESCSCHHHHHHHHHTSTTEEEEEEEEEEECSSEEEEEEEEEEEEECHHHHHHHHHTTTC
T ss_pred             eeEEEEEeecCCCCCHHHHHHHHhccCCcceEEEEEEEecccceEEEEEEEecCCCHHHHHHHHHHcCC
Confidence            3577888875444444557778999999988765     33333  7999999 999999999999887

>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=87.63  E-value=0.15  Score=48.82  Aligned_cols=24  Identities=17%  Similarity=0.301  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+|.|+|+.|+|||||++.+..+.
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            478899999999999999998753

>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=87.62  E-value=0.1  Score=52.35  Aligned_cols=27  Identities=19%  Similarity=0.272  Sum_probs=19.8

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ...||||.|..|.||||+|+.+-+-.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~   29 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFR   29 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHh
Confidence            456999999999999999998766543

>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=87.62  E-value=0.088  Score=52.35  Aligned_cols=25  Identities=24%  Similarity=0.289  Sum_probs=21.9

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+.|+|-|+-|+||||+|+.+....
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999877643

>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=87.52  E-value=0.13  Score=50.33  Aligned_cols=27  Identities=37%  Similarity=0.505  Sum_probs=23.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.++||+|..|.|||||.+.+..-..
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            346899999999999999999988654

>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=87.35  E-value=0.13  Score=47.42  Aligned_cols=22  Identities=27%  Similarity=0.199  Sum_probs=19.3

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.++|.+|+|||||+..+.++
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999988765

>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=87.13  E-value=0.099  Score=48.37  Aligned_cols=65  Identities=11%  Similarity=-0.124  Sum_probs=32.0

Q ss_pred             cccccceEeeCCCccchhhhccCCCCccccCcccEEEEecCC-Ccc-----cccCCccccCCccEEeeccc
Q 000945          852 MLTQVKSLKLWELSDLMYIWKQDSKLDSITENLESLEVWWCE-NLI-----NLVPSSASFKNLTTLELWYC  916 (1212)
Q Consensus       852 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~l~~c~-~l~-----~lp~~~~~l~~L~~L~l~~c  916 (1212)
                      ..++++.+++++|.--..-.......+...++|+.++++.|. .++     .+...+...++|+.|+++..
T Consensus        72 ~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_          72 VNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             hcccchhhhhccccccchhHHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCC
Confidence            345666666665532111000002344555667766665432 232     23333445678888888664

>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=87.11  E-value=0.23  Score=46.61  Aligned_cols=32  Identities=28%  Similarity=0.327  Sum_probs=22.7

Q ss_pred             HHHHhC-CCCceEEEEEecCCCchhHHHHHHHH
Q 000945          161 ALDALS-NPNVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       161 l~~~L~-~~~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      ++..+. .....-|.|+|.+|+|||||...+-.
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 33445578999999999999988643

>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=87.04  E-value=0.77  Score=43.51  Aligned_cols=86  Identities=23%  Similarity=0.258  Sum_probs=41.1

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHH--HHHHHHHhcCcccC-CChhHHHHHH---
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRI--QGDIADQLGLYICE-GSESERAMVL---  241 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l--~~~il~~l~~~~~~-~~~~~~~~~l---  241 (1212)
                      ..-.||.+||..|+||||.+-++-...+ +... .++.|++ +.|..-.+  ++...+.++..... .+..+....+   
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~-kV~lit~-Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a   86 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-KKGF-KVGLVGA-DVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRG   86 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-HTTC-CEEEEEC-CCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCC-ceEEEEe-eccccchhHHHHHhccccCcceeecccchhhhHHHHHH
Confidence            3568999999999999976555444444 2333 2444433 44655443  23344555555332 2222333222   


Q ss_pred             -HHHHHcCCcEEEecC
Q 000945          242 -CGLLKKGKKILVLDN  256 (1212)
Q Consensus       242 -~~~L~~~kr~LVLDD  256 (1212)
                       ......+..++++|=
T Consensus        87 ~~~~~~~~~d~IlIDT  102 (211)
T d1j8yf2          87 VEKFLSEKMEIIIVDT  102 (211)
T ss_dssp             HHHHHHTTCSEEEEEC
T ss_pred             HHHhhccCCceEEEec
Confidence             222333356666663

>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=86.91  E-value=0.15  Score=50.03  Aligned_cols=26  Identities=27%  Similarity=0.342  Sum_probs=23.0

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.+++|+|..|.|||||.+.+..-.+
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            45899999999999999999988554

>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=86.82  E-value=0.25  Score=47.33  Aligned_cols=40  Identities=10%  Similarity=0.117  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHhCCCCc-eEEEEEecCCCchhHHHHHHHHHh
Q 000945          155 KSILNDALDALSNPNV-NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       155 ~~~~~~l~~~L~~~~~-~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      +...+.+.+.+..+.+ +.+-++|..|+||||+|+.+.+..
T Consensus         8 ~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2           8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhc
Confidence            4557778777776554 458899999999999999988754

>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=86.75  E-value=0.15  Score=50.29  Aligned_cols=25  Identities=32%  Similarity=0.496  Sum_probs=20.7

Q ss_pred             eEEEEE-ecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLC-GLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~-GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +||+|+ +-||+||||+|..+-.-..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la   28 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALG   28 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH
Confidence            689999 7799999999988765443

>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=86.69  E-value=0.4  Score=46.15  Aligned_cols=25  Identities=32%  Similarity=0.484  Sum_probs=22.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..|.|-|+-|+||||+++.+.+..+
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHH
Confidence            5799999999999999999998765

>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=86.54  E-value=0.14  Score=50.76  Aligned_cols=26  Identities=31%  Similarity=0.331  Sum_probs=23.1

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      -.++||+|..|.|||||++.+..-.+
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            45899999999999999999998654

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=86.38  E-value=0.099  Score=50.96  Aligned_cols=25  Identities=32%  Similarity=0.437  Sum_probs=22.3

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      -.+++|+|..|.|||||++.+..-.
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCc
Confidence            4689999999999999999998843

>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=86.33  E-value=0.98  Score=45.79  Aligned_cols=71  Identities=13%  Similarity=0.086  Sum_probs=42.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCCHHHHHHHHHHHhcCcccCCChhHHHHHHHHHHHcCCc
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPDVKRIQGDIADQLGLYICEGSESERAMVLCGLLKKGKK  250 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~l~~~L~~~kr  250 (1212)
                      .++-++|.+|+|||.||+++-....-+..|-   -+..++-++              ... ..-......+.+..+. ..
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~~---~~~~~~~~~--------------~~~-G~~e~~~~~~f~~a~~-~~  184 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKYA---TVRFGEPLS--------------GYN-TDFNVFVDDIARAMLQ-HR  184 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCCE---EEEBSCSST--------------TCB-CCHHHHHHHHHHHHHH-CS
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCCeE---EEEhhHhhh--------------ccc-chHHHHHHHHHHHHhh-cc
Confidence            3455689999999999999999764222332   133333221              111 1223444555555654 55


Q ss_pred             EEEecCcccc
Q 000945          251 ILVLDNIWTS  260 (1212)
Q Consensus       251 ~LVLDDVw~~  260 (1212)
                      ++.+|.+...
T Consensus       185 ilf~DEid~~  194 (321)
T d1w44a_         185 VIVIDSLKNV  194 (321)
T ss_dssp             EEEEECCTTT
T ss_pred             EEEeehhhhh
Confidence            6699988765

>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=86.19  E-value=0.17  Score=48.60  Aligned_cols=20  Identities=45%  Similarity=0.685  Sum_probs=18.3

Q ss_pred             eEEEEEecCCCchhHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIV  190 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~v  190 (1212)
                      -+|||.|.-|.||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            48999999999999999866

>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=86.17  E-value=0.16  Score=46.71  Aligned_cols=20  Identities=35%  Similarity=0.343  Sum_probs=17.6

Q ss_pred             EEEEecCCCchhHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn  192 (1212)
                      |.|+|.+|+|||||.+.+-+
T Consensus         5 i~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHcC
Confidence            67999999999999998643

>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=86.04  E-value=0.17  Score=47.13  Aligned_cols=21  Identities=24%  Similarity=0.222  Sum_probs=18.5

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |.|+|..|+|||||++.+-++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            679999999999999987664

>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=86.01  E-value=0.21  Score=46.04  Aligned_cols=87  Identities=11%  Similarity=0.134  Sum_probs=57.0

Q ss_pred             cceeeeccCC-ccc-----cccHHHHhhcccccccccCCCCCcc-----cchhHhhccccCceeecCCCcceeeeecccc
Q 000945          266 KLEILSLVDS-NIE-----QLPEEMAQLTQLRLFDLSGCSKLKV-----IPPNLLSGLSRLEDLYMGNTSVKWEFEGLNV  334 (1212)
Q Consensus       266 ~Lr~L~ls~~-~i~-----~lp~~i~~L~~L~~L~Ls~~~~l~~-----lp~~~i~~L~~L~~L~l~~~~~~w~~~~~~~  334 (1212)
                      .|+.|+++++ .+.     .+-..+....+|++|++++| .+..     +.. ++.....|++|++++|.+.....    
T Consensus        16 ~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n-~l~~~~~~~la~-~L~~n~~L~~L~L~~n~i~~~g~----   89 (167)
T d1pgva_          16 DLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANT-AISDSEARGLIE-LIETSPSLRVLNVESNFLTPELL----   89 (167)
T ss_dssp             SCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTS-CCBHHHHTTHHH-HHHHCSSCCEEECCSSBCCHHHH----
T ss_pred             CCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeecccc-ccchhHHHHHhh-hhhhcccccceeeehhhcchHHH----
Confidence            6888888864 343     23345666778999999988 5542     222 25667889999999998752111    


Q ss_pred             CCCccchhhhhcCCCCCcceeeecccc
Q 000945          335 GRSNASLQELKLLSHLTTLEIQICDAM  361 (1212)
Q Consensus       335 ~~~~~~~~~L~~l~~L~~L~l~~~~~~  361 (1212)
                         ......|.....|++|++..+...
T Consensus        90 ---~~l~~aL~~n~sL~~L~l~~n~~~  113 (167)
T d1pgva_          90 ---ARLLRSTLVTQSIVEFKADNQRQS  113 (167)
T ss_dssp             ---HHHHHHTTTTCCCSEEECCCCSSC
T ss_pred             ---HHHHHHHHhCCcCCEEECCCCcCC
Confidence               233455666677888888776544

>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=85.94  E-value=0.18  Score=46.38  Aligned_cols=21  Identities=29%  Similarity=0.499  Sum_probs=18.7

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |.|+|..|+|||||++.+-++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999987764

>d2raqa1 d.58.61.1 (A:3-95) Uncharacterized protein MTH889 {Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: MTH889-like
family: MTH889-like
domain: Uncharacterized protein MTH889
species: Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=85.90  E-value=0.97  Score=35.06  Aligned_cols=61  Identities=18%  Similarity=0.208  Sum_probs=48.1

Q ss_pred             ceEEEEEEEecchhHHHHHHhHhccCCCeeEEEE-----eCCCC--eEEEEEe-cCHHHHHHHHHhhcC
Q 000945         1116 KQKAVLKLEIHGEKARQKAFSIVSKFTGVLSILF-----DPKDK--KMIVIGD-IDAVPVVRKLRKQLC 1176 (1212)
Q Consensus      1116 ~~~~~~~v~~~c~~c~~~~~~~~~~~~gv~~~~~-----d~~~~--~~~v~g~-~d~~~~~~~l~k~~~ 1176 (1212)
                      .+++||-|--.-+.-.-.+-+.+++++||+.|.+     |.+..  ++||.|+ +|=.++.+.+.+.|+
T Consensus         4 iRRlVLDVlKPh~P~i~e~A~~l~~~~gV~~VnitV~EiD~et~~i~itiEG~~idyd~i~~~IE~~Gg   72 (93)
T d2raqa1           4 LIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLMEIDKETENIKVTIQGNDLDFDEITRAIESYGG   72 (93)
T ss_dssp             EEEEEEEEECCSCSCHHHHHHHHHHSTTCCEEEEEEEEECSSCEEEEEEEECSSCCHHHHHHHHHHTTC
T ss_pred             eEEEEEEeecCCCCCHHHHHHHHhccCCcceEEEEEEEecccceEEEEEEEecCCCHHHHHHHHHHcCC
Confidence            4577888876555566777788999999877654     44443  7999999 999999999999887

>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=85.90  E-value=0.13  Score=48.27  Aligned_cols=20  Identities=30%  Similarity=0.506  Sum_probs=18.5

Q ss_pred             EEEEecCCCchhHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn  192 (1212)
                      |+|+|..|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999865

>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=85.72  E-value=0.18  Score=46.56  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=19.2

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.|+|.+|+|||||.+.+-++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999987643

>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=85.71  E-value=0.2  Score=51.40  Aligned_cols=28  Identities=21%  Similarity=0.280  Sum_probs=22.1

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      .-.++|-+.|-||+||||+|-.+-....
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA   33 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLA   33 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHH
Confidence            3456888999999999999887766443

>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=85.70  E-value=0.2  Score=46.04  Aligned_cols=21  Identities=19%  Similarity=0.377  Sum_probs=18.1

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |.++|..|+|||||++...+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999876653

>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=85.66  E-value=0.18  Score=46.95  Aligned_cols=22  Identities=45%  Similarity=0.375  Sum_probs=18.9

Q ss_pred             eEEEEEecCCCchhHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      --|.|+|.+|+|||||.+.+.+
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3478999999999999988755

>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=85.63  E-value=0.18  Score=46.61  Aligned_cols=22  Identities=23%  Similarity=0.164  Sum_probs=19.1

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999987654

>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=85.52  E-value=0.19  Score=46.37  Aligned_cols=22  Identities=23%  Similarity=0.193  Sum_probs=19.0

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|.+|+|||||++.+-++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999887654

>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=85.42  E-value=0.2  Score=46.41  Aligned_cols=21  Identities=24%  Similarity=0.347  Sum_probs=19.3

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      .|+|+|..|+|||||.+++.+
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            589999999999999999874

>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=85.41  E-value=0.31  Score=50.05  Aligned_cols=44  Identities=23%  Similarity=0.317  Sum_probs=33.0

Q ss_pred             ccchHHHHHHHHHHhC-------C--CCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          151 FESRKSILNDALDALS-------N--PNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~-------~--~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++|.++.++.+...+.       +  ....++-.+|..|+|||.+|+.+-...
T Consensus        25 v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          25 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             EeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            5677877777755443       2  234578899999999999999888764

>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=85.29  E-value=0.2  Score=46.43  Aligned_cols=22  Identities=36%  Similarity=0.412  Sum_probs=19.3

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|.+|+|||||.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988764

>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=85.22  E-value=0.18  Score=49.28  Aligned_cols=24  Identities=29%  Similarity=0.354  Sum_probs=21.4

Q ss_pred             CceEEEEEecCCCchhHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      .-.+++|+|..|.|||||.+.+..
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            345899999999999999999987

>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=85.17  E-value=0.19  Score=46.52  Aligned_cols=21  Identities=38%  Similarity=0.460  Sum_probs=18.3

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      -|.|+|..|+|||||++.+.+
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhC
Confidence            378999999999999998754

>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=85.08  E-value=0.13  Score=50.89  Aligned_cols=25  Identities=24%  Similarity=0.420  Sum_probs=21.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .-..++|+|..|.|||||++.+..-
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhc
Confidence            3468999999999999999998763

>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=85.06  E-value=0.67  Score=45.94  Aligned_cols=89  Identities=13%  Similarity=0.191  Sum_probs=52.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEEEecCCCC-HHHHHHHHHHHhcCc-------ccCCChh------H
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFVEVSQTPD-VKRIQGDIADQLGLY-------ICEGSES------E  236 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv~vs~~~~-~~~l~~~il~~l~~~-------~~~~~~~------~  236 (1212)
                      .-++|+|-.|+|||+|++.+-....  .+-+.++++-+-+... +..+.+++.+.=..+       ...+...      .
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            3489999999999999987554433  5557888888877654 334444443321000       0011110      2


Q ss_pred             HHHHHHHHHH-cCCcEE-EecCccccc
Q 000945          237 RAMVLCGLLK-KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       237 ~~~~l~~~L~-~~kr~L-VLDDVw~~~  261 (1212)
                      .+-.+-+++. .||++| ++||+-.-.
T Consensus       146 ~a~tiAEyfrd~G~~Vlll~Dsltr~A  172 (276)
T d1fx0a3         146 TGAALAEYFMYRERHTLIIYDDLSKQA  172 (276)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEECHHHHH
T ss_pred             HHHHHHHHHHHcCCceeEEeeccHHHH
Confidence            2333445554 368999 999987553

>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=84.57  E-value=0.21  Score=45.99  Aligned_cols=22  Identities=32%  Similarity=0.329  Sum_probs=18.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|.+|+|||||++.+-++
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3689999999999999987653

>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=84.55  E-value=0.18  Score=46.71  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=18.1

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |.|+|.+|+|||||.+...++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999876653

>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=84.35  E-value=0.23  Score=46.06  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=18.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|..|+|||||++.+.++
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4679999999999999887653

>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=84.31  E-value=0.24  Score=46.22  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ...|+|+|..|+|||||.+.+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999999865

>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=84.16  E-value=0.47  Score=49.57  Aligned_cols=28  Identities=29%  Similarity=0.191  Sum_probs=24.6

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      ..-+.+-++|++|+||||+|+.+.+...
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~~  179 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELCG  179 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4556899999999999999999999765

>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=84.04  E-value=0.72  Score=44.10  Aligned_cols=35  Identities=31%  Similarity=0.399  Sum_probs=26.1

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHhhhcCCCCEEEEE
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQAKKLKLCDEVVFV  206 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~~v~~~F~~~~wv  206 (1212)
                      +.|.|-|.-|+||||+++.+.+...- ..+....+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~-~g~~~~~~~   37 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQ-LGIRDMVFT   37 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHH-TTCCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHh-CCCCeEEEe
Confidence            46889999999999999999987652 234444443

>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=83.97  E-value=0.24  Score=45.51  Aligned_cols=22  Identities=32%  Similarity=0.326  Sum_probs=19.0

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|..|+|||||+..+.++
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999987663

>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=83.86  E-value=0.24  Score=46.01  Aligned_cols=22  Identities=27%  Similarity=0.376  Sum_probs=19.1

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999987653

>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=83.84  E-value=0.25  Score=45.85  Aligned_cols=22  Identities=23%  Similarity=0.273  Sum_probs=18.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.++|..|+|||||+..+-++
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999986553

>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=83.73  E-value=0.25  Score=45.50  Aligned_cols=22  Identities=27%  Similarity=0.446  Sum_probs=19.2

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|-.|+|||||++.+.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987764

>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=83.68  E-value=0.26  Score=45.61  Aligned_cols=22  Identities=27%  Similarity=0.454  Sum_probs=19.1

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|..|+|||||.+...++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999987664

>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=83.68  E-value=0.25  Score=45.56  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=19.1

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.++|.+|+|||+|.+...++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5799999999999999887743

>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=83.62  E-value=0.25  Score=45.62  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=18.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|..|+|||||++.+-++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999887654

>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=83.53  E-value=0.26  Score=45.31  Aligned_cols=21  Identities=29%  Similarity=0.593  Sum_probs=19.0

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |.|+|.+|+|||||.+.+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988774

>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=83.49  E-value=0.26  Score=45.96  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=21.3

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ...|+|+|-.|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            456899999999999999999874

>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=83.48  E-value=0.26  Score=46.80  Aligned_cols=22  Identities=27%  Similarity=0.271  Sum_probs=19.3

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|.+|+|||||++.+.++
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            3789999999999999988764

>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=83.36  E-value=0.33  Score=47.89  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      +.+|||.|.-|.||||.|+.+.+.
T Consensus         1 M~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           1 MKLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            368999999999999999998764

>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=83.29  E-value=0.4  Score=42.90  Aligned_cols=31  Identities=26%  Similarity=0.206  Sum_probs=26.1

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHHHhhhcC
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFYQAKKLK  198 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~  198 (1212)
                      ..-.+|.+.|-=|.||||++|.+.+...++.
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~~   61 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQG   61 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCCS
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhccccc
Confidence            3456999999999999999999998876543

>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=83.18  E-value=0.28  Score=45.15  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=19.0

Q ss_pred             eEEEEEecCCCchhHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      .-|.|+|..|+|||||.+..-+
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            3578999999999999998755

>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=82.71  E-value=0.28  Score=45.52  Aligned_cols=22  Identities=27%  Similarity=0.347  Sum_probs=19.1

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|..|+|||||++.+-++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987663

>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=82.71  E-value=0.28  Score=44.71  Aligned_cols=21  Identities=33%  Similarity=0.403  Sum_probs=18.7

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      -|.|+|.+|+|||||+..+-+
T Consensus         2 KI~liG~~nvGKSSLln~l~~   22 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKN   22 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998766

>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=82.65  E-value=0.3  Score=45.46  Aligned_cols=22  Identities=27%  Similarity=0.283  Sum_probs=18.5

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|..|+|||||+....++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678999999999999886653

>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=82.55  E-value=0.29  Score=45.01  Aligned_cols=21  Identities=29%  Similarity=0.493  Sum_probs=18.5

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |.|+|..|+|||+|.+..-++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            679999999999999987664

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=82.25  E-value=0.47  Score=48.76  Aligned_cols=26  Identities=35%  Similarity=0.427  Sum_probs=23.4

Q ss_pred             ceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +-.|.|-|.=|+||||+++.+.+...
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~   31 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAAS   31 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhc
Confidence            45789999999999999999999765

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=82.11  E-value=0.32  Score=48.48  Aligned_cols=27  Identities=26%  Similarity=0.385  Sum_probs=22.7

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhh
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAK  195 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~  195 (1212)
                      +++-|+|+|.+|.|||||+-++.-...
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhcC
Confidence            567899999999999999999855443

>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=82.10  E-value=0.45  Score=46.90  Aligned_cols=43  Identities=14%  Similarity=0.366  Sum_probs=31.2

Q ss_pred             ccchHHHHHHHHHHhC---CCCceEEEEEecCCCchhHHHHHHHHHh
Q 000945          151 FESRKSILNDALDALS---NPNVNVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       151 i~gr~~~~~~l~~~L~---~~~~~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      ++|....++.+++.+.   ..+.. |-|+|-.|+|||++|+.++..-
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~~~p-vlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCAECP-VLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTCCSC-EEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEecCHHHHHHHHHHHHHhCCCCC-EEEECCCCcCHHHHHHHHHHhc
Confidence            3555566666666654   33444 5789999999999999998753

>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=82.05  E-value=0.32  Score=45.63  Aligned_cols=22  Identities=27%  Similarity=0.244  Sum_probs=18.9

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|..|+|||||.+..-++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999886654

>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=82.04  E-value=0.25  Score=46.48  Aligned_cols=21  Identities=38%  Similarity=0.632  Sum_probs=18.9

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      -|+|+|..|+|||||..++.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998854

>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=82.01  E-value=0.28  Score=45.92  Aligned_cols=22  Identities=27%  Similarity=0.303  Sum_probs=19.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|+|+|..|+|||||..++.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999864

>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=81.96  E-value=0.41  Score=45.14  Aligned_cols=22  Identities=32%  Similarity=0.353  Sum_probs=18.4

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.++|-||+|||||.+..-.+.
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            6799999999999998865543

>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=81.80  E-value=2.8  Score=41.58  Aligned_cols=24  Identities=38%  Similarity=0.372  Sum_probs=19.7

Q ss_pred             eEEEEEecCCCchhHHHHHHHHHh
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      .+.-|+|.+|+||||+|-.+.-..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            466699999999999998876554

>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=81.68  E-value=0.32  Score=45.69  Aligned_cols=21  Identities=29%  Similarity=0.188  Sum_probs=18.3

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      -|.|+|-.|+|||||+..+.+
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            377999999999999988765

>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=81.63  E-value=0.33  Score=44.89  Aligned_cols=21  Identities=43%  Similarity=0.509  Sum_probs=18.1

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      -|.++|.+|+|||||++.+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            477999999999999987654

>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=81.57  E-value=1.4  Score=43.39  Aligned_cols=50  Identities=24%  Similarity=0.297  Sum_probs=35.9

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhc----CCCCEEEEEEecCCCCHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKL----KLCDEVVFVEVSQTPDVKRIQ  218 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~----~~F~~~~wv~vs~~~~~~~l~  218 (1212)
                      .-+++-|+|.+|.||||+|..+-......    ......+|+.....++...+.
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIR   88 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHHH
Confidence            45789999999999999998775543211    234677888877777765544

>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=81.52  E-value=0.34  Score=45.38  Aligned_cols=21  Identities=29%  Similarity=0.224  Sum_probs=18.4

Q ss_pred             EEEEEecCCCchhHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      -|.|+|..|+|||||.+...+
T Consensus         7 KivviG~~~vGKTsli~~~~~   27 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTT   27 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999988665

>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=81.51  E-value=0.33  Score=46.20  Aligned_cols=19  Identities=42%  Similarity=0.480  Sum_probs=17.2

Q ss_pred             EEEEEecCCCchhHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIV  190 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~v  190 (1212)
                      -|.|+|.+|+|||||++..
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999987

>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=81.46  E-value=0.35  Score=44.58  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=19.1

Q ss_pred             EEEEecCCCchhHHHHHHHHHh
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQA  194 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~~  194 (1212)
                      |.++|..|+|||||++...++.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5689999999999999987753

>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=81.34  E-value=2.1  Score=42.39  Aligned_cols=102  Identities=15%  Similarity=0.162  Sum_probs=56.5

Q ss_pred             HHHHHhCC-CCceEEEEEecCCCchhHHHHHHHHHh-hhcCCC-----CEEEEEEecCCCCH-HHHHHHHHHHhcCcc--
Q 000945          160 DALDALSN-PNVNVIGLCGLGGIGKTTLAKIVFYQA-KKLKLC-----DEVVFVEVSQTPDV-KRIQGDIADQLGLYI--  229 (1212)
Q Consensus       160 ~l~~~L~~-~~~~vi~I~GmgGiGKTTLA~~vyn~~-~v~~~F-----~~~~wv~vs~~~~~-~~l~~~il~~l~~~~--  229 (1212)
                      +.++.+.- ..-..++|+|-.|+|||+|++.+-+.. +....-     ..++++-+.+..+. ..+.+.+...-..+.  
T Consensus        57 raID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tv  136 (285)
T d2jdia3          57 KAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI  136 (285)
T ss_dssp             HHHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEE
T ss_pred             eEEecccCccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceE
Confidence            45666652 233467999999999999988665543 221222     24577777776653 455555544321110  


Q ss_pred             -----cCCChhH------HHHHHHHHHH-cCCcEE-EecCccccc
Q 000945          230 -----CEGSESE------RAMVLCGLLK-KGKKIL-VLDNIWTSL  261 (1212)
Q Consensus       230 -----~~~~~~~------~~~~l~~~L~-~~kr~L-VLDDVw~~~  261 (1212)
                           ..+....      .+-.+-+++. +||.+| ++||+-.-.
T Consensus       137 vv~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr~A  181 (285)
T d2jdia3         137 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQA  181 (285)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHHHH
Confidence                 0111111      1222334443 369999 999987554

>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=81.33  E-value=0.44  Score=44.04  Aligned_cols=25  Identities=32%  Similarity=0.375  Sum_probs=20.0

Q ss_pred             CCCceEEEEEecCCCchhHHHHHHHH
Q 000945          167 NPNVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       167 ~~~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      +..++ |.|+|.+|+|||||.+.+-+
T Consensus        10 ~k~~k-IvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          10 NKEMR-ILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             TCCEE-EEEEEETTSSHHHHHHHTTC
T ss_pred             CCeEE-EEEECCCCCCHHHHHHHHhc
Confidence            34455 56999999999999998754

>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=81.32  E-value=0.46  Score=43.99  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=19.0

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.++|.+|+|||||.+...+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999977653

>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=81.22  E-value=0.35  Score=44.25  Aligned_cols=22  Identities=32%  Similarity=0.400  Sum_probs=18.4

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|..|+|||||...+-+.
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            3678999999999999987553

>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=80.96  E-value=0.36  Score=44.84  Aligned_cols=21  Identities=29%  Similarity=0.355  Sum_probs=18.6

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |.++|.+|+|||||.+.+-++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999987654

>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=80.95  E-value=0.42  Score=45.76  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=20.2

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      +-|.|+|.+|+|||||..++.+.
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            35899999999999999998774

>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=80.94  E-value=0.37  Score=44.35  Aligned_cols=23  Identities=30%  Similarity=0.647  Sum_probs=19.5

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      .-|.|+|..|+|||||++.+.++
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45789999999999999987653

>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=80.87  E-value=0.37  Score=44.41  Aligned_cols=21  Identities=19%  Similarity=0.320  Sum_probs=18.3

Q ss_pred             EEEEecCCCchhHHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      |.|+|..|+|||||.+..-++
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999986654

>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=80.67  E-value=0.43  Score=45.68  Aligned_cols=23  Identities=26%  Similarity=0.304  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCchhHHHHHHHHH
Q 000945          171 NVIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       171 ~vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      ..|.|+|.+|+|||||...+-+.
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            47899999999999999998764

>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=80.60  E-value=0.42  Score=44.00  Aligned_cols=22  Identities=32%  Similarity=0.276  Sum_probs=18.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.|+|-+|+|||||++..-+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3889999999999999986553

>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=80.59  E-value=0.35  Score=45.34  Aligned_cols=22  Identities=23%  Similarity=0.481  Sum_probs=19.7

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|+|+|..|+|||||..++.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999998764

>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=80.57  E-value=0.4  Score=44.67  Aligned_cols=22  Identities=27%  Similarity=0.270  Sum_probs=18.8

Q ss_pred             EEEEEecCCCchhHHHHHHHHH
Q 000945          172 VIGLCGLGGIGKTTLAKIVFYQ  193 (1212)
Q Consensus       172 vi~I~GmgGiGKTTLA~~vyn~  193 (1212)
                      -|.++|..|+|||+|++...+.
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999877664

>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=80.43  E-value=0.28  Score=46.01  Aligned_cols=25  Identities=12%  Similarity=0.150  Sum_probs=21.3

Q ss_pred             CCceEEEEEecCCCchhHHHHHHHH
Q 000945          168 PNVNVIGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       168 ~~~~vi~I~GmgGiGKTTLA~~vyn  192 (1212)
                      +....|+|+|..++|||||.+++.+
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            4567799999999999999988744

>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=80.28  E-value=0.66  Score=45.69  Aligned_cols=50  Identities=14%  Similarity=0.111  Sum_probs=33.6

Q ss_pred             CceEEEEEecCCCchhHHHHHHHHHhhhcC----CCCEEEEEEecCCCCHHHHH
Q 000945          169 NVNVIGLCGLGGIGKTTLAKIVFYQAKKLK----LCDEVVFVEVSQTPDVKRIQ  218 (1212)
Q Consensus       169 ~~~vi~I~GmgGiGKTTLA~~vyn~~~v~~----~F~~~~wv~vs~~~~~~~l~  218 (1212)
                      .-+++-|+|..|.||||+|-.+-.......    .-...+|++....++...+.
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   86 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV   86 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGGH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHHH
Confidence            456899999999999999976543322111    12467888877777644443

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=80.26  E-value=0.43  Score=47.35  Aligned_cols=22  Identities=36%  Similarity=0.676  Sum_probs=19.7

Q ss_pred             ceEEEEEecCCCchhHHHHHHH
Q 000945          170 VNVIGLCGLGGIGKTTLAKIVF  191 (1212)
Q Consensus       170 ~~vi~I~GmgGiGKTTLA~~vy  191 (1212)
                      ++-|+|+|..|.|||||+.++-
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Confidence            4679999999999999999873

>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=80.03  E-value=0.44  Score=44.53  Aligned_cols=20  Identities=30%  Similarity=0.438  Sum_probs=18.1

Q ss_pred             EEEEecCCCchhHHHHHHHH
Q 000945          173 IGLCGLGGIGKTTLAKIVFY  192 (1212)
Q Consensus       173 i~I~GmgGiGKTTLA~~vyn  192 (1212)
                      |.++|..|+|||||++.+-+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999998765