Citrus Sinensis ID: 000803

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050------1060------1070------1080------1090------1100------1110------1120------1130------1140------1150------1160------1170------1180------1190------1200------1210------1220------1230------1240------1250------1260------1270------128
Protein Sequence
MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFIYDPEAE
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccccEEEEEEEEccccHHHHHHHHHHcccccccccccccEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEcccccccHHHHHHHHHHHHccccccEEEEEEccHHHHccccccccEEcccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHccccccccccccccHHHHcccccccccccccccccccccccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHcccccccccccccEEEcHHHHHHHHHHHHccEEEEcccccccccccccEEEEEEEcccccccccccccccccEEEEcccccccccccccccHHHHHcccccccccEEEEcccccccccccccccccccccEEccccccccccccccccccccEEEcccccccccccHHccccccccEEEEccccccccccccccccccccccccEEEcccccccccHHccccccccccEEEEccccccccccHHHHccccccccccEEEEEEcccccccccHHHHHHHHHccccccccccEEEEEEccccccccccccccccccEEEEcccccccccccccccccccEEEEccccccEEEcccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccHHHHcccccccEEEEccccccccccccccccccccccccccccccEEEccccccccccccccccccccEEEEEccccccccccccccccEEEEcccccccccccccccccccEEEEEcccccccccccccccccccEEEEEccccccccccccccccccEEEEEcccccccHHHHHHccccccccccEEEEEccccccccccHHHcccccccccEEEEEccccccccccccccccccccEEEEEccccccccccccccccccEEEEEccHHHHHHHcccccccccccccccEEEEccEEEcccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccEEcccHHHHHHHHHHHcccccccccEEEEEEEccccccHHHHHHHHHccHHHHEcccccEEEEEEEcccccHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccEEEEEEEccccccHHHHHHHHHHHHccccccEEEEEEccHHHHHHHccccccccccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHcccHHHHHHHHHcHHccccccccccHHEEEcHcccccHHHHHHHEHHcccccccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHccccccccEEEHHHHHHHHHHHHcccEEEEEccccccccccccEEEEEEEcccccccccccHHHHHHHccEEcccccccccccccHcHHHHHHHHHHcccEEEEEEcccccccccccccccHHEEEEEccccccccccccHcHHHHHHHHHHccccHHHHccHHHcccccccEEEccccccHHcccccccccHcccEccEEEEcccccccccHHHHHHHHHcccEEEEEcccccccHHHHHHHcHcccccccEEEEEEccccccccccccHHHHHHHccccccccEEEEEcccccccccccccccccccEEEEEcccccccccccccccccHcEEEEcccccEEEccHHHcccccccccccHcEEEEcccccHHccccccccccccccccccEEEEEccccHHccccccccccccEEEEcccccccccccccccHcEEEEcccccEEEccccccccHccccccccEEEcccccHHHcccHHHHHcccHHccccccccccccccEEEEcccccHccccHHHccccccccEEEEccccccccccccccccHHHHcccccccccEEEEccccccccccccccccccccEEEEcccccHcccccccccccEEEEcccccccccccccccccccEEEEcccHHHccccccccccccccEEEEcccccccccccccccccccEEEEcccccHHcccHHHHcHccccccccEEEEcccccccccccccccccccccccEEEEcccccHccccHHcccccccccEEEEcccccccccccccccccccEEEEcccHHHHHHHHcccccccccEEEccEEEEcccEEEccccc
Coil and Loop (DISEMBL)
MAELLLSAFLDVLFdrlaspdlFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAegldqpgssklCKQRIELGLqlipggtsstaaaqrrppsssvptepvvfgreedKTKILEMVLTDtaadhanfavipivgmggigkTTLAREVyndkavedsgkfdvkawvcvsddfdVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVdlkapflaaapnskmiittrnshvastmgpidhynlehlldddcwsifkthafegrdhnaLEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILdskiwdlprqssilpvlrlsyhhlpshlkRCFAYCAIfpkdfefdeKELVFLWIAGgiirqssnneqlkdlgsqcfhDLVSrsifqrtgfgsskfAMHDLVHALAQLVSGEtifrleednsssrrfervrhssyacgeldgrnkFKVFYEIEHLrtflplhktdyiITCYITSMVLYDLLPKFKKLRLLSLQgyyigelpipfedLRLLRYLNLadtdirslpesscslLNLEILILRNCssliklpsKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTlsnfvvgkggetasgledlKILKFLSGElcisglqnvndsKNAREAALCEKLNLEALSlewgsqfdnsrdEVAEEQVLGVLQPYKFVKELTIkryggarfplwigdplfskmnvlelddcwnctslpslgllssLRDLTIKRMTNLKSIGceffgkcfsepfqsleilsfeylpewerwdtnvdrnehveifprlqklsivecpelsgkvpellpSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKsmtisnssldingcegmlhasrtsssllQTETISNALDFFPRNLRYLIISEIstlrslpeeimdnnsrleslyigycgslkfvtkgklpsslkSLQIENltleslkirdcpqltclssGIHLLEALEDLhirncpklesipkGLHKLRSIYIKKCPSLVSlaekglpntishVTISYCEkldalpngmhklQSLQylkikecpsilsfseegfptnLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIglsieechdaesfpdeemrmmLPASLTFLILRRLSKLKYlssmgfqsltSLEHLliedcpnltsfpevglpssllsleikncpklrkqckrdrgkewskiaripcvkiddkfiydpeae
Flexible Loop (DISEMBL)
MAELLLSAFLDVLFDRLASPDLFNFIRQLQggvsselrKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIELGLQLIPGGTsstaaaqrrppsssvptepvvfgreeDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKavedsgkfdvkAWVCVSDDFDVLSISKALLESITsatcdlktVDEVQVQLkkavdgkrfLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLeednsssrrfervrhssyacgeldgrnKFKVFYEIEHLRtflplhktDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEqvlgvlqpykFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEistlrslpeEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTleslkirdcpqLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILsfseegfpTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLeikncpklrkqckrdrgkewskiaripcvkiddkfiydpeae
Low Complexity Region (SEG)
MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIELGLQLIPGGTSSTAAAQRRppsssvptepvvFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTslpslgllsslrdlTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFlilrrlsklkylssMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFIYDPEAE
Disordered region (IsUnstruct)
***LLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLM************CKQRIELGLQL*********************************TKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRL************VRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHA******LLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFIY*****
Disordered Region (DISOPRED)
MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIE************************VPTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITS**********VQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFE********ISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNS**RRFERVRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFD*****VAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLP*SLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYK******LHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFIYD****
Disordered Region (DISEMBL)
MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIELGLQLIPGG******************EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEE***********RHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKL**********EWSKIARIPCVKIDDKFIYDPEAE
Disordered Region (DISPRO)
*AELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIELGLQLIPGGTSS************VPTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFIYD****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSExxxxxxxxxxxxxxxxxxxxxQLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFIYDPEAE
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	1277	2.2.26 [Sep-21-2011]
Q9LRR4	1054	Putative disease resistan	yes	no	0.712	0.863	0.374	1e-171
Q9LRR5	1424	Putative disease resistan	no	no	0.674	0.604	0.380	1e-147
Q7XBQ9	970	Disease resistance protei	N/A	no	0.711	0.937	0.337	1e-124
Q7XA42	979	Putative disease resistan	N/A	no	0.733	0.957	0.327	1e-123
Q7XA40	992	Putative disease resistan	N/A	no	0.741	0.954	0.324	1e-123
Q7XA39	988	Putative disease resistan	N/A	no	0.742	0.959	0.328	1e-123
P0DI18	1049	Probable disease resistan	no	no	0.609	0.741	0.262	2e-51
P0DI17	1049	Probable disease resistan	no	no	0.609	0.741	0.262	2e-51
Q8W474	907	Probable disease resistan	no	no	0.635	0.895	0.264	3e-50
Q9C646	899	Probable disease resistan	no	no	0.486	0.690	0.280	2e-49

>sp|Q9LRR4|R13L1_ARATH Putative disease resistance RPP13-like protein 1 OS=Arabidopsis thaliana GN=RPPL1 PE=3 SV=1

 Score =  603 bits (1556), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 376/1003 (37%), Positives = 566/1003 (56%), Gaps = 93/1003 (9%)

Query: 1   MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLT 60
           + E+ L+AFL  LF  L S    +F ++ +    + L +    L  I AVL DAEEKQ+T
Sbjct: 4   IGEMFLAAFLQALFQTLVSEPFRSFFKRRELN-ENLLERLSTALLTITAVLIDAEEKQIT 62

Query: 61  DEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIELGLQLIP 120
           +  V+ W+++L+D+   AED LD+ AT+AL   + AE      S++L + R  + L    
Sbjct: 63  NPVVEKWVNELRDVVYHAEDALDDIATEALRLNIGAES---SSSNRLRQLRGRMSLGDFL 119

Query: 121 GGTS--------------STAAAQR---------------RPPSSSVPTEPVVFGREEDK 151
            G S                 A+QR               R P++S+  E  VFGR++DK
Sbjct: 120 DGNSEHLETRLEKVTIRLERLASQRNILGLKELTAMIPKQRLPTTSLVDESEVFGRDDDK 179

Query: 152 TKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD 211
            +I+  ++ +   D+    V+ IVG+GG+GKTTL++ +YND+ V     F  K W  VS+
Sbjct: 180 DEIMRFLIPENGKDNG-ITVVAIVGIGGVGKTTLSQLLYNDQHVR--SYFGTKVWAHVSE 236

Query: 212 DFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKR--FLLVLDDVWNEDYSLWVD 269
           +FDV  I+K + ES+TS  C+   +D +QV+LK+ + G    FLLVLDD+WNE+++ W  
Sbjct: 237 EFDVFKITKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDDLWNENFADWDL 296

Query: 270 LKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNAL 329
           L+ PF+ AA  S++++TTR+  VAS M  +  +NL+ L D DCWS+F    F  ++    
Sbjct: 297 LRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMKTVFGNQEPCLN 356

Query: 330 EISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDM-WDDILDSKIWDLPR-QSSILPVLR 387
                  +++V KC GLPLA KTLGG+LR     + W+ +L S+IWDLP  +S++LPVLR
Sbjct: 357 REIGDLAERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRIWDLPADKSNLLPVLR 416

Query: 388 LSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHD 447
           +SY++LP+HLKRCFAYC+IFPK   F++ ++V LW+A G ++Q+ +++ L++LG++ F +
Sbjct: 417 VSYYYLPAHLKRCFAYCSIFPKGHAFEKDKVVLLWMAEGFLQQTRSSKNLEELGNEYFSE 476

Query: 448 LVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGE 507
           L SRS+ Q+T    +++ MHD ++ LAQ  SGE   +  ED    +  ER R+ SY    
Sbjct: 477 LESRSLLQKT---KTRYIMHDFINELAQFASGEFSSKF-EDGCKLQVSERTRYLSYLRDN 532

Query: 508 LDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGE 567
                +F+   E++ LRTFLPL  T+   +C +  MV   LLP   +LR+LSL  Y I  
Sbjct: 533 YAEPMEFEALREVKFLRTFLPLSLTNSSRSCCLDQMVSEKLLPTLTRLRVLSLSHYKIAR 592

Query: 568 LPIP-FEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLC 626
           LP   F+++   R+L+L+ T++  LP+S C + NL+ L+L  CSSL +LP+ I  LINL 
Sbjct: 593 LPPDFFKNISHARFLDLSRTELEKLPKSLCYMYNLQTLLLSYCSSLKELPTDISNLINLR 652

Query: 627 HLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQ 686
           +LD+ G   L++MP     LK+LQTL+ F V       S + +L  L  L G+L I  LQ
Sbjct: 653 YLDLIGTK-LRQMPRRFGRLKSLQTLTTFFV--SASDGSRISELGGLHDLHGKLKIVELQ 709

Query: 687 NVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEV------AEEQVLGVLQPYKFVKE 740
            V D  +A EA L  K +L  +   W +   +S +         E +V   L+P++ +++
Sbjct: 710 RVVDVADAAEANLNSKKHLREIDFVWRTGSSSSENNTNPHRTQNEAEVFEKLRPHRHIEK 769

Query: 741 LTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSI 800
           L I+RY G RFP W+ DP FS++  + L +C  CTSLPSLG L  L++L I  M  L+SI
Sbjct: 770 LAIERYKGRRFPDWLSDPSFSRIVCIRLRECQYCTSLPSLGQLPCLKELHISGMVGLQSI 829

Query: 801 GCEFF------GKCFSEPFQSLEILSFEYLPEWERW-DTNVDRNEHVEIFPRLQKLSIVE 853
           G +F+           +PF+SLE L F+ LP+W+ W D  V R    ++FP L+KL I+ 
Sbjct: 830 GRKFYFSDQQLRDQDQQPFRSLETLRFDNLPDWQEWLDVRVTRG---DLFPSLKKLFILR 886

Query: 854 CPELSGKVPELLPSLKTLVVSKCQKL---------------------------KFSLSSY 886
           CPEL+G +P  LPSL +L + KC  L                           KF L+ +
Sbjct: 887 CPELTGTLPTFLPSLISLHIYKCGLLDFQPDHHEYSYRNLQTLSIKSSCDTLVKFPLNHF 946

Query: 887 PMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGM 929
             L +LE D+C  L      +  L     + N  L IN C+ +
Sbjct: 947 ANLDKLEVDQCTSLYSLELSNEHLRGPNALRN--LRINDCQNL 987

Potential disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LRR5|DRL21_ARATH Putative disease resistance protein At3g14460 OS=Arabidopsis thaliana GN=At3g14460 PE=3 SV=1

 Score =  524 bits (1349), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 348/914 (38%), Positives = 508/914 (55%), Gaps = 53/914 (5%)

Query: 1   MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQA--VLRDAEEKQ 58
           MA   LS+  +V+ +R+ +      +   +G  SS L K   K+ L+ A  VL DA+++ 
Sbjct: 1   MANSYLSSCANVMVERINTSQ--ELVELCKGKSSSALLK-RLKVALVTANPVLADADQRA 57

Query: 59  LTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAE-----GLDQ---PGSSKLCKQ 110
                VK WL  ++D    AEDILDE  T+AL  +++AE     GL Q    G   + K+
Sbjct: 58  EHVREVKHWLTGIKDAFFQAEDILDELQTEALRRRVVAEAGGLGGLFQNLMAGREAIQKK 117

Query: 111 ---RIELGLQLIPGGT-----------SSTAAAQRRPPSSSVP---TEPVVFGREEDKTK 153
              ++E  ++L+               S T   Q R  S S P    +  + GR EDK  
Sbjct: 118 IEPKMEKVVRLLEHHVKHIEVIGLKEYSETREPQWRQASRSRPDDLPQGRLVGRVEDKLA 177

Query: 154 ILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF 213
           ++ ++L+D        AVI +VGM G+GKTTL   V+ND  V +   F+VK W+    +F
Sbjct: 178 LVNLLLSDDEISIGKPAVISVVGMPGVGKTTLTEIVFNDYRVTE--HFEVKMWISAGINF 235

Query: 214 DVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAP 273
           +V +++KA+L+ ITS+  + + +  +Q+QLKK + GKRFLLVLDD W+E  S W   +  
Sbjct: 236 NVFTVTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVA 295

Query: 274 FLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEIS- 332
           F  A   SK+++TTR+  V++       Y ++ + +++CW +    AF      ++    
Sbjct: 296 FTDAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISRFAFGNISVGSINQEL 355

Query: 333 ESFRKKVVGKCGGLPLAAKTLGGLLRTT-TYDMWDDILDSKIWDLPRQSSILPVLRLSYH 391
           E   K++  +C GLPLAA+ +   LR+    D W  +  SK +     +SILPVL+LSY 
Sbjct: 356 EGIGKRIAEQCKGLPLAARAIASHLRSKPNPDDWYAV--SKNFS-SYTNSILPVLKLSYD 412

Query: 392 HLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSR 451
            LP  LKRCFA C+IFPK   FD +ELV LW+A  ++ Q  ++ +L+D+G+    DLV++
Sbjct: 413 SLPPQLKRCFALCSIFPKGHVFDREELVLLWMAIDLLYQPRSSRRLEDIGNDYLGDLVAQ 472

Query: 452 SIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGELDGR 511
           S FQR     + F MHDL++ LA+ VSG+  FRLE+DN         RH S++  + D  
Sbjct: 473 SFFQRLDITMTSFVMHDLMNDLAKAVSGDFCFRLEDDNIPEIP-STTRHFSFSRSQCDAS 531

Query: 512 NKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIP 571
             F+     E LRT LP +    + +  +T  VL  LL     LR+LSL  Y I  LP  
Sbjct: 532 VAFRSICGAEFLRTILPFNSPTSLESLQLTEKVLNPLLNALSGLRILSLSHYQITNLPKS 591

Query: 572 FEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIR 631
            + L+LLRYL+L+ T I+ LPE  C+L NL+ L+L NC  L  LP  I  LINL  LD+ 
Sbjct: 592 LKGLKLLRYLDLSSTKIKELPEFVCTLCNLQTLLLSNCRDLTSLPKSIAELINLRLLDLV 651

Query: 632 GAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDS 691
           G  L+ EMP G+K+L++LQ LSNFV+G+   + +GL +LK L  L G L IS LQNV  +
Sbjct: 652 GTPLV-EMPPGIKKLRSLQKLSNFVIGR--LSGAGLHELKELSHLRGTLRISELQNVAFA 708

Query: 692 KNAREAALCEKLNLEALSLEW---GSQF-DNSRDEVA--EEQVLGVLQPYKFVKELTIKR 745
             A++A L  K  L+ L L+W   GS F   S + +A  +++VL +L+P+  +K   I+ 
Sbjct: 709 SEAKDAGLKRKPFLDGLILKWTVKGSGFVPGSFNALACDQKEVLRMLEPHPHLKTFCIES 768

Query: 746 YGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCE-F 804
           Y G  FP W+GD  F  +  + L  C  C SLP +G L SL+ L+I++   L+ +G + F
Sbjct: 769 YQGGAFPKWLGDSSFFGITSVTLSSCNLCISLPPVGQLPSLKYLSIEKFNILQKVGLDFF 828

Query: 805 FGKCFSE--PFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVP 862
           FG+  S   PFQSL+IL F  +P W+ W   +       IFP LQKL I  CP L  K P
Sbjct: 829 FGENNSRGVPFQSLQILKFYGMPRWDEW---ICPELEDGIFPCLQKLIIQRCPSLRKKFP 885

Query: 863 ELLPSLKTLVVSKC 876
           E LPS   + +S C
Sbjct: 886 EGLPSSTEVTISDC 899

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XBQ9|RGA2_SOLBU Disease resistance protein RGA2 OS=Solanum bulbocastanum GN=RGA2 PE=1 SV=1

 Score =  447 bits (1150), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 358/1061 (33%), Positives = 522/1061 (49%), Gaps = 152/1061 (14%)

Query: 1    MAELLLSAFLDVLFDRLASPDLFNFIRQ---LQGGVSSELRKWERKLKLIQAVLRDAEEK 57
            MAE    AF+ VL D L S     F++    L  G   E ++       IQAVL DA+EK
Sbjct: 1    MAE----AFIQVLLDNLTS-----FLKGELVLLFGFQDEFQRLSSMFSTIQAVLEDAQEK 51

Query: 58   QLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIELGLQ 117
            QL ++ ++ WL  L     + +DILDE+ T+A        G   P   K+   R ++G +
Sbjct: 52   QLNNKPLENWLQKLNAATYEVDDILDEYKTKATRFSQSEYGRYHP---KVIPFRHKVGKR 108

Query: 118  LIPGGTSSTAAAQRRP----------------PSSSVPTEPVVFGREEDKTKILEMVLTD 161
            +        A A+ R                  + SV TEP V+GR+++K +I++ +L +
Sbjct: 109  MDQVMKKLKAIAEERKNFHLHEKIVERQAVRRETGSVLTEPQVYGRDKEKDEIVK-ILIN 167

Query: 162  TAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA 221
              +D  + +V+PI+GMGG+GKTTLA+ V+ND+ V +   F  K W+CVS+DFD   + KA
Sbjct: 168  NVSDAQHLSVLPILGMGGLGKTTLAQMVFNDQRVTEH--FHSKIWICVSEDFDEKRLIKA 225

Query: 222  LLESITSATCDLKTVD--EVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAP 279
            ++ESI      L  +D   +Q +L++ ++GKR+LLVLDDVWNED   W +L+A     A 
Sbjct: 226  IVESIEGRPL-LGEMDLAPLQKKLQELLNGKRYLLVLDDVWNEDQQKWANLRAVLKVGAS 284

Query: 280  NSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAF---EGRDHNALEISESFR 336
             + ++ TTR   V S MG +  Y L +L  +DCW +F   AF   E  + N + I     
Sbjct: 285  GASVLTTTRLEKVGSIMGTLQPYELSNLSQEDCWLLFMQRAFGHQEEINPNLVAIG---- 340

Query: 337  KKVVGKCGGLPLAAKTLGGLLRTTTYD-MWDDILDSKIWDLPR-QSSILPVLRLSYHHLP 394
            K++V K GG+PLAAKTLGG+L     +  W+ + DS IW+LP+ +SSILP LRLSYH LP
Sbjct: 341  KEIVKKSGGVPLAAKTLGGILCFKREERAWEHVRDSPIWNLPQDESSILPALRLSYHQLP 400

Query: 395  SHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIF 454
              LK+CFAYCA+FPKD + ++++L+ LW+A G +  S  N +L+D+G + + +L  RS F
Sbjct: 401  LDLKQCFAYCAVFPKDAKMEKEKLISLWMAHGFLL-SKGNMELEDVGDEVWKELYLRSFF 459

Query: 455  QRTGF--GSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGELDGRN 512
            Q      G + F MHDL+H LA          L   N+SS     +   SY      G  
Sbjct: 460  QEIEVKDGKTYFKMHDLIHDLAT--------SLFSANTSSSNIREINKHSYTHMMSIG-- 509

Query: 513  KFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPF 572
                F E+    T  PL                     KF  LR+L+L      +LP   
Sbjct: 510  ----FAEVVFFYTLPPLE--------------------KFISLRVLNLGDSTFNKLPSSI 545

Query: 573  EDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRG 632
             DL  LRYLNL  + +RSLP+  C L NL+ L L+ C+ L  LP +  +L +L +L + G
Sbjct: 546  GDLVHLRYLNLYGSGMRSLPKQLCKLQNLQTLDLQYCTKLCCLPKETSKLGSLRNLLLDG 605

Query: 633  AILLKEMPFGMKELKNLQTLSNFVVG-KGGETASGLEDLKILKFLSGELCISGLQNVNDS 691
            +  L  MP  +  L  L+TL  FVVG K G     L +L     L G + IS L+ V + 
Sbjct: 606  SQSLTCMPPRIGSLTCLKTLGQFVVGRKKGYQLGELGNLN----LYGSIKISHLERVKND 661

Query: 692  KNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARF 751
            K+A+EA L  K NL +LS+ W + F     E  E +VL  L+P+  +  L I  + G   
Sbjct: 662  KDAKEANLSAKGNLHSLSMSW-NNFGPHIYESEEVKVLEALKPHSNLTSLKIYGFRGIHL 720

Query: 752  PLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSE 811
            P W+   +   +  + + +  NC+ LP  G L  L  L +             +G    E
Sbjct: 721  PEWMNHSVLKNIVSILISNFRNCSCLPPFGDLPCLESLELH------------WGSADVE 768

Query: 812  PFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVP----ELLPS 867
              + ++I      P   R             FP L+KL I +   L G +     E  P 
Sbjct: 769  YVEEVDIDVHSGFPTRIR-------------FPSLRKLDIWDFGSLKGLLKKEGEEQFPV 815

Query: 868  LKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSM--TISN-SSLDIN 924
            L+ +++ +C  L  S S+   L  L        +C   + +   + M   ++N   L I+
Sbjct: 816  LEEMIIHECPFLTLS-SNLRALTSLR-------ICYNKVATSFPEEMFKNLANLKYLTIS 867

Query: 925  GCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESL 984
             C  +     + +SL       NA       L+ L I     L SLPEE ++  S L  L
Sbjct: 868  RCNNLKELPTSLASL-------NA-------LKSLKIQLCCALESLPEEGLEGLSSLTEL 913

Query: 985  YIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQL 1025
            ++ +C  LK      LP  L+ L     TL SLKIR CPQL
Sbjct: 914  FVEHCNMLKC-----LPEGLQHLT----TLTSLKIRGCPQL 945

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth. Confers a broad resistance to all known races of P.infestans.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA42|RGA1_SOLBU Putative disease resistance protein RGA1 OS=Solanum bulbocastanum GN=RGA1 PE=2 SV=2

 Score =  445 bits (1144), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 367/1120 (32%), Positives = 555/1120 (49%), Gaps = 183/1120 (16%)

Query: 1    MAELLLSAFLDVLFDRLASPDLFNFIRQ---LQGGVSSELRKWERKLKLIQAVLRDAEEK 57
            MAE    AF+ V+ D L S     F++    L  G   E ++       IQAVL DA+EK
Sbjct: 1    MAE----AFIQVVLDNLTS-----FLKGELVLLFGFQDEFQRLSSMFSTIQAVLEDAQEK 51

Query: 58   QLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIELGLQ 117
            QL D+ ++ WL  L     + +DILDE+ T+A        G   P   K+   R ++G +
Sbjct: 52   QLNDKPLENWLQKLNAATYEVDDILDEYKTKATRFLQSEYGRYHP---KVIPFRHKVGKR 108

Query: 118  LIPGGTSSTAAAQRRPP----------------SSSVPTEPVVFGREEDKTKILEMVLTD 161
            +        A A+ R                  + SV TEP V+GR+++K +I++ +L +
Sbjct: 109  MDQVMKKLNAIAEERKKFHLQEKIIERQAATRETGSVLTEPQVYGRDKEKDEIVK-ILIN 167

Query: 162  TAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA 221
            TA+D    +V+PI+GMGG+GKTTL++ V+ND+ V +  +F  K W+C+SDDF+   + KA
Sbjct: 168  TASDAQKLSVLPILGMGGLGKTTLSQMVFNDQRVTE--RFYPKIWICISDDFNEKRLIKA 225

Query: 222  LLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNS 281
            ++ESI   +     +  +Q +L++ ++GKR+ LVLDDVWNED   W +L+A     A  +
Sbjct: 226  IVESIEGKSLSDMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQHKWANLRAVLKVGASGA 285

Query: 282  KMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAF---EGRDHNALEISESFRKK 338
             ++ TTR   V S MG +  Y L +L  +DCW +F   AF   E  + N + I     K+
Sbjct: 286  FVLTTTRLEKVGSIMGTLQPYELSNLSPEDCWFLFMQRAFGHQEEINPNLMAIG----KE 341

Query: 339  VVGKCGGLPLAAKTLGGLLRTTTYDM-WDDILDSKIWDLPR-QSSILPVLRLSYHHLPSH 396
            +V KCGG+PLAAKTLGG+LR    +  W+ + DS IW+LP+ +SSILP LRLSYHHLP  
Sbjct: 342  IVKKCGGVPLAAKTLGGILRFKREEREWEHVRDSPIWNLPQDESSILPALRLSYHHLPLD 401

Query: 397  LKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQR 456
            L++CF YCA+FPKD +  ++ L+  W+A G +  S  N +L+D+G++ +++L  RS FQ 
Sbjct: 402  LRQCFVYCAVFPKDTKMAKENLIAFWMAHGFLL-SKGNLELEDVGNEVWNELYLRSFFQE 460

Query: 457  TGFGSSK--FAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGELDGRNKF 514
                S K  F MHDL+H LA          L   N+SS     + +++Y     DG    
Sbjct: 461  IEVESGKTYFKMHDLIHDLAT--------SLFSANTSSSNIREI-NANY-----DGYMMS 506

Query: 515  KVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFED 574
              F E               +++ Y  S     LL KF  LR+L+L+   + +LP    D
Sbjct: 507  IGFAE---------------VVSSYSPS-----LLQKFVSLRVLNLRNSNLNQLPSSIGD 546

Query: 575  LRLLRYLNLA-DTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGA 633
            L  LRYL+L+ +  IR+LP+  C L NL+ L L  C SL  LP +  +L +L +L + G 
Sbjct: 547  LVHLRYLDLSGNFRIRNLPKRLCKLQNLQTLDLHYCDSLSCLPKQTSKLGSLRNLLLDGC 606

Query: 634  ILLKEMP-FGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSK 692
             L    P  G+  L  L++LS FV+GK       L +LK L  L G + I+ L  V    
Sbjct: 607  SLTSTPPRIGL--LTCLKSLSCFVIGK--RKGHQLGELKNLN-LYGSISITKLDRVKKDT 661

Query: 693  NAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFP 752
            +A+EA L  K NL +L L W    D       + +VL  L+P+  +K L I  +GG R P
Sbjct: 662  DAKEANLSAKANLHSLCLSW----DLDGKHRYDSEVLEALKPHSNLKYLEINGFGGIRLP 717

Query: 753  LWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEP 812
             W+   +   +  + +  C NC+ LP  G L  L  L +    +  S   E+        
Sbjct: 718  DWMNQSVLKNVVSIRIRGCENCSCLPPFGELPCLESLEL----HTGSADVEY-------- 765

Query: 813  FQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLV 872
                                 V+ N H   FP L+KL I +             +LK L+
Sbjct: 766  ---------------------VEDNVHPGRFPSLRKLVIWD-----------FSNLKGLL 793

Query: 873  VSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHA 932
              + +K       +P+L  +    C   +  T    K +K +                  
Sbjct: 794  KMEGEK------QFPVLEEMTFYWCPMFVIPTLSSVKTLKVIV----------------- 830

Query: 933  SRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSL 992
              T +++L+  +ISN      R L  L IS+     SLPEE+  + + L+ L I +  +L
Sbjct: 831  --TDATVLR--SISNL-----RALTSLDISDNVEATSLPEEMFKSLANLKYLKISFFRNL 881

Query: 993  KFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCL-SSGIHLLEALEDLHIRNCPKLES 1051
            K     +LP+SL SL      L+SLK   C  L  L   G+  L +L +L + NC  L+ 
Sbjct: 882  K-----ELPTSLASLN----ALKSLKFEFCDALESLPEEGVKGLTSLTELSVSNCMMLKC 932

Query: 1052 IPKGLHK---LRSIYIKKCPSLVSLAEKGLP---NTISHV 1085
            +P+GL     L ++ I +CP +    E+G+    + I+H+
Sbjct: 933  LPEGLQHLTALTTLTITQCPIVFKRCERGIGEDWHKIAHI 972

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA40|RGA3_SOLBU Putative disease resistance protein RGA3 OS=Solanum bulbocastanum GN=RGA3 PE=2 SV=2

 Score =  444 bits (1142), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 354/1090 (32%), Positives = 545/1090 (50%), Gaps = 143/1090 (13%)

Query: 8    AFLDVLFDRLASPDLFNFIRQLQG---GVSSELRKWERKLKLIQAVLRDAEEKQLTDEAV 64
            AFL VL D L       FI+   G   G   E +K      +IQAVL DA+EKQL  +A+
Sbjct: 4    AFLQVLLDNLTF-----FIQGELGLVFGFEKEFKKLSSMFSMIQAVLEDAQEKQLKYKAI 58

Query: 65   KMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCKQRIELGLQLIPGGTS 124
            K WL  L   A + +DILD+  T+A   K    G   P +   C  ++   ++ +     
Sbjct: 59   KNWLQKLNVAAYEVDDILDDCKTEAARFKQAVLGRYHPRTITFC-YKVGKRMKEMMEKLD 117

Query: 125  STAAAQR--------------RPPSSSVPTEPVVFGREEDKTKILEMVLTDTAADHANFA 170
            + A  +R              R  +  V TEP V+GRE+++ +I+++++ + +       
Sbjct: 118  AIAEERRNFHLDERIIERQAARRQTGFVLTEPKVYGREKEEDEIVKILINNVSYSE-EVP 176

Query: 171  VIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSAT 230
            V+PI+GMGG+GKTTLA+ V+ND+ + +   F++K WVCVSDDFD   + KA++ESI   +
Sbjct: 177  VLPILGMGGLGKTTLAQMVFNDQRITEH--FNLKIWVCVSDDFDEKRLIKAIVESIEGKS 234

Query: 231  CDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS 290
                 +  +Q +L++ ++GKR+ LVLDDVWNED   W +L+A     A  + ++ITTR  
Sbjct: 235  LGDMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQEKWDNLRAVLKIGASGASILITTRLE 294

Query: 291  HVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA 350
             + S MG +  Y L +L  +DCW +FK  AF  +   + ++ E   K++V KCGG+PLAA
Sbjct: 295  KIGSIMGTLQLYQLSNLSQEDCWLLFKQRAFCHQTETSPKLME-IGKEIVKKCGGVPLAA 353

Query: 351  KTLGGLLRTTTYDM-WDDILDSKIWDLPR-QSSILPVLRLSYHHLPSHLKRCFAYCAIFP 408
            KTLGGLLR    +  W+ + DS+IW+LP+ ++S+LP LRLSYHHLP  L++CFAYCA+FP
Sbjct: 354  KTLGGLLRFKREESEWEHVRDSEIWNLPQDENSVLPALRLSYHHLPLDLRQCFAYCAVFP 413

Query: 409  KDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSK--FAM 466
            KD + +++ L+ LW+A   +  S  N +L+D+G++ +++L  RS FQ     S K  F M
Sbjct: 414  KDTKIEKEYLIALWMAHSFLL-SKGNMELEDVGNEVWNELYLRSFFQEIEVKSGKTYFKM 472

Query: 467  HDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGELDGRNKFKVFYEIEHLRTF 526
            HDL+H LA  +            S+S     +R       +++ ++   + + + + +  
Sbjct: 473  HDLIHDLATSMF-----------SASASSRSIR-------QINVKDDEDMMFIVTNYKDM 514

Query: 527  LPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADT 586
            + +  ++ +++ Y  S     L  +F  LR+L+L      +LP    DL  LRYL+L+  
Sbjct: 515  MSIGFSE-VVSSYSPS-----LFKRFVSLRVLNLSNSEFEQLPSSVGDLVHLRYLDLSGN 568

Query: 587  DIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKEL 646
             I SLP+  C L NL+ L L NC SL  LP +  +L +L +L +     L  MP  +  L
Sbjct: 569  KICSLPKRLCKLQNLQTLDLYNCQSLSCLPKQTSKLCSLRNL-VLDHCPLTSMPPRIGLL 627

Query: 647  KNLQTLSNFVVG-KGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNL 705
              L+TL  FVVG + G     L +L     L G + I+ L+ V +   A+EA L  K NL
Sbjct: 628  TCLKTLGYFVVGERKGYQLGELRNLN----LRGAISITHLERVKNDMEAKEANLSAKANL 683

Query: 706  EALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNV 765
             +LS+ W      +R E  E +VL  L+P+  +K L I  + G   P W+   +   +  
Sbjct: 684  HSLSMSWDRP---NRYESEEVKVLEALKPHPNLKYLEIIDFCGFCLPDWMNHSVLKNVVS 740

Query: 766  LELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLP 825
            + +  C NC+ LP  G L  L  L ++                      S+E+   EY+ 
Sbjct: 741  ILISGCENCSCLPPFGELPCLESLELQD--------------------GSVEV---EYVE 777

Query: 826  EWERWDTNVDRNEHVEIFPRLQKLSIVECPELSG----KVPELLPSLKTLVVSKCQKLKF 881
            +       + R      FP L+KL I     L G    K  E  P L+ + +S C     
Sbjct: 778  D----SGFLTRRR----FPSLRKLHIGGFCNLKGLQRMKGAEQFPVLEEMKISDC----- 824

Query: 882  SLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQ 941
                 PM         K+L      D+  + S  ISN S            + TS  +  
Sbjct: 825  -----PMFVFPTLSSVKKLEIWGEADAGGLSS--ISNLS------------TLTSLKIFS 865

Query: 942  TETISNALDFFPRNLR---YLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKG 998
              T+++ L+   +NL    YL +S +  L+ LP  +   N+ L+ L I YC +L+     
Sbjct: 866  NHTVTSLLEEMFKNLENLIYLSVSFLENLKELPTSLASLNN-LKCLDIRYCYALE----- 919

Query: 999  KLPSSLKSLQIENL-TLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKL-----ESI 1052
                SL    +E L +L  L +  C  L CL  G+  L  L  L IR CP+L     + I
Sbjct: 920  ----SLPEEGLEGLSSLTELFVEHCNMLKCLPEGLQHLTTLTSLKIRGCPQLIKRCEKGI 975

Query: 1053 PKGLHKLRSI 1062
             +  HK+  I
Sbjct: 976  GEDWHKISHI 985

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA39|RGA4_SOLBU Putative disease resistance protein RGA4 OS=Solanum bulbocastanum GN=RGA4 PE=2 SV=1

 Score =  442 bits (1137), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 360/1096 (32%), Positives = 539/1096 (49%), Gaps = 148/1096 (13%)

Query: 1    MAELLLSAFLDVLFDRLASPDLFNFIRQ---LQGGVSSELRKWERKLKLIQAVLRDAEEK 57
            MAE    AFL VL + L S     FI     L  G   E  K       IQAVL+DA+EK
Sbjct: 1    MAE----AFLQVLLENLTS-----FIGDKLVLIFGFEKECEKLSSVFSTIQAVLQDAQEK 51

Query: 58   QLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPG----SSKLCKQRIE 113
            QL D+A++ WL  L   A + +DIL E   +A+  +    G   PG      K+ ++  E
Sbjct: 52   QLKDKAIENWLQKLNSAAYEVDDILGECKNEAIRFEQSRLGFYHPGIINFRHKIGRRMKE 111

Query: 114  L------------GLQLIPGGTSSTAAAQRRPPSSSVPTEPVVFGREEDKTKILEMVLTD 161
            +                +   T   AAA  R  +  V TEP V+GR++++ +I+++++ +
Sbjct: 112  IMEKLDAISEERRKFHFLEKITERQAAAATRE-TGFVLTEPKVYGRDKEEDEIVKILINN 170

Query: 162  TAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA 221
                     V PI+GMGG+GKTTLA+ ++ND+ V  +  F+ K WVCVSDDFD   + K 
Sbjct: 171  VNVAE-ELPVFPIIGMGGLGKTTLAQMIFNDERV--TKHFNPKIWVCVSDDFDEKRLIKT 227

Query: 222  LLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNS 281
            ++ +I  ++  ++ +   Q +L++ ++GKR+LLVLDDVWN+D   W  L+A     A  +
Sbjct: 228  IIGNIERSSPHVEDLASFQKKLQELLNGKRYLLVLDDVWNDDLEKWAKLRAVLTVGARGA 287

Query: 282  KMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVG 341
             ++ TTR   V S MG +  Y+L +L   D   +F   AF G+   A     +  K++V 
Sbjct: 288  SILATTRLEKVGSIMGTLQPYHLSNLSPHDSLLLFMQRAF-GQQKEANPNLVAIGKEIVK 346

Query: 342  KCGGLPLAAKTLGGLLRTTTYDM-WDDILDSKIWDLPR-QSSILPVLRLSYHHLPSHLKR 399
            KCGG+PLAAKTLGGLLR    +  W+ + D++IW LP+ +SSILP LRLSYHHLP  L++
Sbjct: 347  KCGGVPLAAKTLGGLLRFKREESEWEHVRDNEIWSLPQDESSILPALRLSYHHLPLDLRQ 406

Query: 400  CFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQ--RT 457
            CFAYCA+FPKD +  ++ L+ LW+A G +  S  N +L+D+G++ +++L  RS FQ    
Sbjct: 407  CFAYCAVFPKDTKMIKENLITLWMAHGFLL-SKGNLELEDVGNEVWNELYLRSFFQEIEA 465

Query: 458  GFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGELDGRNKFKVF 517
              G++ F +HDL+H LA      ++F                 +S +CG +   N     
Sbjct: 466  KSGNTYFKIHDLIHDLAT-----SLFS----------------ASASCGNIREIN----V 500

Query: 518  YEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRL 577
             + +H         T  I    + S     LL KF  LR+L+L    + +LP    DL  
Sbjct: 501  KDYKH---------TVSIGFAAVVSSYSPSLLKKFVSLRVLNLSYSKLEQLPSSIGDLLH 551

Query: 578  LRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLK 637
            LRYL+L+  + RSLPE  C L NL+ L + NC SL  LP +  +L +L HL + G  L  
Sbjct: 552  LRYLDLSCNNFRSLPERLCKLQNLQTLDVHNCYSLNCLPKQTSKLSSLRHLVVDGCPLTS 611

Query: 638  EMP-FGMKELKNLQTLSNFVVG-KGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAR 695
              P  G+  L  L+TL  F+VG K G     L++L     L G + I+ L+ V +  +A 
Sbjct: 612  TPPRIGL--LTCLKTLGFFIVGSKKGYQLGELKNLN----LCGSISITHLERVKNDTDA- 664

Query: 696  EAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWI 755
            EA L  K NL++LS+ W +   N R E  E +VL  L+P+  +K L I  +GG RFP WI
Sbjct: 665  EANLSAKANLQSLSMSWDNDGPN-RYESKEVKVLEALKPHPNLKYLEIIAFGGFRFPSWI 723

Query: 756  GDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMT-NLKSIGCEFFGKCFS--EP 812
               +  K+  + +  C NC  LP  G L  L +L ++  +  ++ +  +     FS    
Sbjct: 724  NHSVLEKVISVRIKSCKNCLCLPPFGELPCLENLELQNGSAEVEYVEEDDVHSRFSTRRS 783

Query: 813  FQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLV 872
            F SL+ L   +     R    + + E  E FP L++++I+ CP     V   L S+K L 
Sbjct: 784  FPSLKKLRIWFF----RSLKGLMKEEGEEKFPMLEEMAILYCPLF---VFPTLSSVKKLE 836

Query: 873  VSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHA 932
            V      +  LSS   L  L +         T +  ++  S+T                 
Sbjct: 837  VHGNTNTR-GLSSISNLSTLTSLRIGANYRATSLPEEMFTSLT----------------- 878

Query: 933  SRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSL 992
                                  NL +L   +   L+ LP  +   N+ L+ L I  C SL
Sbjct: 879  ----------------------NLEFLSFFDFKNLKDLPTSLTSLNA-LKRLQIESCDSL 915

Query: 993  KFVTKGKLPSSLKSLQIENLT-LESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLES 1051
            +         S     +E LT L  L ++ C  L CL  G+  L AL +L +  CP++E 
Sbjct: 916  E---------SFPEQGLEGLTSLTQLFVKYCKMLKCLPEGLQHLTALTNLGVSGCPEVEK 966

Query: 1052 -----IPKGLHKLRSI 1062
                 I +  HK+  I
Sbjct: 967  RCDKEIGEDWHKIAHI 982

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|P0DI18|DRL45_ARATH Probable disease resistance protein RDL6 OS=Arabidopsis thaliana GN=RDL6 PE=2 SV=1

 Score =  205 bits (522), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 244/931 (26%), Positives = 418/931 (44%), Gaps = 153/931 (16%)

Query: 21  DLFNFIRQ---LQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACD 77
           +L+N + Q   L  GV  ++ + +R L L+ + L+DA+ K+ T   VK  +++++++  D
Sbjct: 12  NLWNLLSQECELFQGVEDQVTELKRDLNLLSSFLKDADAKKHTSAVVKNCVEEIKEIIYD 71

Query: 78  AEDILDEFATQA-------------------LEHKLMAEGLDQPGS--SKLCKQRIELGL 116
            ED ++ F  +                     + +  A G+    +  SK+ +     G+
Sbjct: 72  GEDTIETFVLEQNLGKTSGIKKSIRRLACIIPDRRRYALGIGGLSNRISKVIRDMQSFGV 131

Query: 117 Q--LIPGGTSSTAAAQRRP--PSSSVPTEPVVFGREEDKTKILEMVLTDTAADHANFAVI 172
           Q  ++ GG       ++R   P  S   +    G E +  K++  ++     D AN  V+
Sbjct: 132 QQAIVDGGYKQPQGDKQREMRPRFSKDDDSDFVGLEANVKKLVGYLV-----DEANVQVV 186

Query: 173 PIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCD 232
            I GMGG+GKTTLA++V+N + V+   +FD  +WVCVS DF  +++ + +L  +     +
Sbjct: 187 SITGMGGLGKTTLAKQVFNHEDVKH--QFDGLSWVCVSQDFTRMNVWQKILRDLKPKEEE 244

Query: 233 LK----TVDEVQVQLKKAVDGKRFLLVLDDVW-NEDYSLWVDLKAPFLAAAPNSKMIITT 287
            K    T D +Q +L + ++  + L+VLDD+W  ED+    +L  P        K+++T+
Sbjct: 245 KKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKEDW----ELIKPIFPPTKGWKVLLTS 300

Query: 288 RNSHVASTMGP-IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEI---SESFRKKVVGKC 343
           RN  VA        ++  E L  +D W++F+  A   +D    +I    E   K ++  C
Sbjct: 301 RNESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFKIDEEKEELGKLMIKHC 360

Query: 344 GGLPLAAKTLGGLL--RTTTYDMWDDILDSKIWDL---------PRQSSILPVLRLSYHH 392
           GGLPLA + LGG+L  + T++D W  + ++    L            ++   VL LS+  
Sbjct: 361 GGLPLAIRVLGGMLAEKYTSHD-WRRLSENIGSHLVGGRTNFNDDNNNTCNYVLSLSFEE 419

Query: 393 LPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIR-QSSNNEQLKDLGSQCFHDLVSR 451
           LPS+LK CF Y A FP D+E + K L + W A GI + +  + E ++D+G     +LV R
Sbjct: 420 LPSYLKHCFLYLAHFPDDYEINVKNLSYYWAAEGIFQPRHYDGEIIRDVGDVYIEELVRR 479

Query: 452 S-IFQRTGFGSSKFA---MHDLVHALAQLVSGETIF------RLEEDNS----SSRRFER 497
           + +       +S+F    +HD++  +  L + E  F      R    NS    +SRR   
Sbjct: 480 NMVISERDVKTSRFETCHLHDMMREVCLLKAKEENFLQITSSRTSTGNSLSIVTSRRL-- 537

Query: 498 VRHSSYACGELDGRNKFKVFYEIEH------LRTFLPLHKTDYIITCYITSMVLYDLLPK 551
                          ++ +  ++E       LR+ + +  T Y+     + M+L     +
Sbjct: 538 -------------VYQYPITLDVEKDINDPKLRSLVVVANT-YMFWGGWSWMLLGSSFIR 583

Query: 552 FKKLRLLSLQGYYI--GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNC 609
            + LR+L +    +  G+L      L  LRYLNL   ++  +P    SL NL++LI  N 
Sbjct: 584 LELLRVLDIHRAKLKGGKLASSIGQLIHLRYLNLKHAEVTHIP---YSLGNLKLLIYLNL 640

Query: 610 SSLIK----LPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETAS 665
             L+     +P+ ++ +  L +L +    + ++    +  L  L+TL NF          
Sbjct: 641 VILVSGSTLVPNVLKEMQQLRYLALPKD-MGRKTKLELSNLVKLETLKNF-----STKNC 694

Query: 666 GLEDLK---ILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSL-EWGSQFDNSRD 721
            LEDL+    L+ L+ EL          S     A++     LE+L++ + GS+      
Sbjct: 695 SLEDLRGMVRLRTLTIEL------RKETSLETLAASIGGLKYLESLTITDLGSEMRTKE- 747

Query: 722 EVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLF-SKMNVLELDDC-WNCTSLPS 779
                   G++  + ++K LT+K Y     P    +  F S +  L L  C      +P 
Sbjct: 748 -------AGIVFDFVYLKTLTLKLY----MPRLSKEQHFPSHLTTLYLQHCRLEEDPMPI 796

Query: 780 LGLLSSLRDLTIKRMTNLKSIGCEFFGK---CFSEPFQSLEILSFEYLPEWERWDTNVDR 836
           L  L  L++L ++R +        F GK   C S  F  L+ LS + L EWE W      
Sbjct: 797 LEKLHQLKELELRRKS--------FSGKEMVCSSGGFPQLQKLSIKGLEEWEDWKVEESS 848

Query: 837 NEHVEIFPRLQKLSIVECPELSGKVPELLPS 867
                  P L  L I +C +L     E LPS
Sbjct: 849 ------MPVLHTLDIRDCRKLKQLPDEHLPS 873

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P0DI17|DRL11_ARATH Probable disease resistance protein RF9 OS=Arabidopsis thaliana GN=RF9 PE=2 SV=1

 Score =  205 bits (522), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 244/931 (26%), Positives = 418/931 (44%), Gaps = 153/931 (16%)

Query: 21  DLFNFIRQ---LQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACD 77
           +L+N + Q   L  GV  ++ + +R L L+ + L+DA+ K+ T   VK  +++++++  D
Sbjct: 12  NLWNLLSQECELFQGVEDQVTELKRDLNLLSSFLKDADAKKHTSAVVKNCVEEIKEIIYD 71

Query: 78  AEDILDEFATQA-------------------LEHKLMAEGLDQPGS--SKLCKQRIELGL 116
            ED ++ F  +                     + +  A G+    +  SK+ +     G+
Sbjct: 72  GEDTIETFVLEQNLGKTSGIKKSIRRLACIIPDRRRYALGIGGLSNRISKVIRDMQSFGV 131

Query: 117 Q--LIPGGTSSTAAAQRRP--PSSSVPTEPVVFGREEDKTKILEMVLTDTAADHANFAVI 172
           Q  ++ GG       ++R   P  S   +    G E +  K++  ++     D AN  V+
Sbjct: 132 QQAIVDGGYKQPQGDKQREMRPRFSKDDDSDFVGLEANVKKLVGYLV-----DEANVQVV 186

Query: 173 PIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCD 232
            I GMGG+GKTTLA++V+N + V+   +FD  +WVCVS DF  +++ + +L  +     +
Sbjct: 187 SITGMGGLGKTTLAKQVFNHEDVKH--QFDGLSWVCVSQDFTRMNVWQKILRDLKPKEEE 244

Query: 233 LK----TVDEVQVQLKKAVDGKRFLLVLDDVW-NEDYSLWVDLKAPFLAAAPNSKMIITT 287
            K    T D +Q +L + ++  + L+VLDD+W  ED+    +L  P        K+++T+
Sbjct: 245 KKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKEDW----ELIKPIFPPTKGWKVLLTS 300

Query: 288 RNSHVASTMGP-IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEI---SESFRKKVVGKC 343
           RN  VA        ++  E L  +D W++F+  A   +D    +I    E   K ++  C
Sbjct: 301 RNESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFKIDEEKEELGKLMIKHC 360

Query: 344 GGLPLAAKTLGGLL--RTTTYDMWDDILDSKIWDL---------PRQSSILPVLRLSYHH 392
           GGLPLA + LGG+L  + T++D W  + ++    L            ++   VL LS+  
Sbjct: 361 GGLPLAIRVLGGMLAEKYTSHD-WRRLSENIGSHLVGGRTNFNDDNNNTCNYVLSLSFEE 419

Query: 393 LPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIR-QSSNNEQLKDLGSQCFHDLVSR 451
           LPS+LK CF Y A FP D+E + K L + W A GI + +  + E ++D+G     +LV R
Sbjct: 420 LPSYLKHCFLYLAHFPDDYEINVKNLSYYWAAEGIFQPRHYDGEIIRDVGDVYIEELVRR 479

Query: 452 S-IFQRTGFGSSKFA---MHDLVHALAQLVSGETIF------RLEEDNS----SSRRFER 497
           + +       +S+F    +HD++  +  L + E  F      R    NS    +SRR   
Sbjct: 480 NMVISERDVKTSRFETCHLHDMMREVCLLKAKEENFLQITSSRTSTGNSLSIVTSRRL-- 537

Query: 498 VRHSSYACGELDGRNKFKVFYEIEH------LRTFLPLHKTDYIITCYITSMVLYDLLPK 551
                          ++ +  ++E       LR+ + +  T Y+     + M+L     +
Sbjct: 538 -------------VYQYPITLDVEKDINDPKLRSLVVVANT-YMFWGGWSWMLLGSSFIR 583

Query: 552 FKKLRLLSLQGYYI--GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNC 609
            + LR+L +    +  G+L      L  LRYLNL   ++  +P    SL NL++LI  N 
Sbjct: 584 LELLRVLDIHRAKLKGGKLASSIGQLIHLRYLNLKHAEVTHIP---YSLGNLKLLIYLNL 640

Query: 610 SSLIK----LPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETAS 665
             L+     +P+ ++ +  L +L +    + ++    +  L  L+TL NF          
Sbjct: 641 VILVSGSTLVPNVLKEMQQLRYLALPKD-MGRKTKLELSNLVKLETLKNF-----STKNC 694

Query: 666 GLEDLK---ILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSL-EWGSQFDNSRD 721
            LEDL+    L+ L+ EL          S     A++     LE+L++ + GS+      
Sbjct: 695 SLEDLRGMVRLRTLTIEL------RKETSLETLAASIGGLKYLESLTITDLGSEMRTKE- 747

Query: 722 EVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLF-SKMNVLELDDC-WNCTSLPS 779
                   G++  + ++K LT+K Y     P    +  F S +  L L  C      +P 
Sbjct: 748 -------AGIVFDFVYLKTLTLKLY----MPRLSKEQHFPSHLTTLYLQHCRLEEDPMPI 796

Query: 780 LGLLSSLRDLTIKRMTNLKSIGCEFFGK---CFSEPFQSLEILSFEYLPEWERWDTNVDR 836
           L  L  L++L ++R +        F GK   C S  F  L+ LS + L EWE W      
Sbjct: 797 LEKLHQLKELELRRKS--------FSGKEMVCSSGGFPQLQKLSIKGLEEWEDWKVEESS 848

Query: 837 NEHVEIFPRLQKLSIVECPELSGKVPELLPS 867
                  P L  L I +C +L     E LPS
Sbjct: 849 ------MPVLHTLDIRDCRKLKQLPDEHLPS 873

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W474|DRL7_ARATH Probable disease resistance protein At1g58390 OS=Arabidopsis thaliana GN=At1g58390 PE=2 SV=4

 Score =  201 bits (512), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 254/960 (26%), Positives = 439/960 (45%), Gaps = 148/960 (15%)

Query: 1   MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLT 60
           MA  L+S  +  L+D L+         Q QG V  ++   +R L L+ + L+DA+ K+ T
Sbjct: 1   MAGELVSFGIKKLWDLLSQE-----CEQFQG-VEDQVTGLKRDLNLLSSFLKDADAKKHT 54

Query: 61  DEAVKMWLDDLQDLACDAEDILDEF-------ATQALEHKLMAEG----------LDQPG 103
              V+  +++++++  DAEDI++ +        T  ++ ++              LD  G
Sbjct: 55  TAVVRNVVEEIKEIVYDAEDIIETYLLKEKLWKTSGIKMRIRRHACIISDRRRNALDVGG 114

Query: 104 S----SKLCKQRIELGLQ--LIPGGTSSTAAAQRRP--PSSSVPTEPVVFGREEDKTKIL 155
                S + +     G+Q  ++ GG       ++R    + S   E    G E +  K++
Sbjct: 115 IRTRISDVIRDMQSFGVQQAIVDGGYMQPQGDRQREMRQTFSKDYESDFVGLEVNVKKLV 174

Query: 156 EMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV 215
             ++     D  N  V+ I GMGG+GKTTLAR+V+N + V+   +FD  AWVCVS +F  
Sbjct: 175 GYLV-----DEENVQVVSITGMGGLGKTTLARQVFNHEDVKH--QFDRLAWVCVSQEFTR 227

Query: 216 LSISKALLESITS--ATCDLKTVDEVQV--QLKKAVDGKRFLLVLDDVW-NEDYSLWVDL 270
            ++ + +L+++TS     ++  ++E ++  +L + ++  + L+V DD+W +ED+    DL
Sbjct: 228 KNVWQMILQNLTSREKKDEILQMEEAELHDKLFQLLETSKSLIVFDDIWKDEDW----DL 283

Query: 271 KAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNL--EHLLDDDCWSIFKTHAFEGRDHNA 328
             P        K+++T++N  VA   G I + N   E L  +D W++F+  AF  +D + 
Sbjct: 284 IKPIFPPNKGWKVLLTSQNESVA-VRGDIKYLNFKPECLAIEDSWTLFQRIAFPKKDASE 342

Query: 329 LEISESFR---KKVVGKCGGLPLAAKTLGGLL--RTTTYDMWDDILDSKIWDL-----PR 378
            ++ E      K+++  CGGLPLA K LGGLL  + T +D W+ +  +   D+       
Sbjct: 343 SKVDEEMEDMGKQMLKHCGGLPLAIKVLGGLLAAKYTMHD-WERLSVNIGSDIVGRTSSN 401

Query: 379 QSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGI--IRQSSNNEQ 436
            SSI  VL +S+  LPS+LK CF Y A FP+D + + ++L + W A GI       N E 
Sbjct: 402 NSSIYHVLSMSFEELPSYLKHCFLYLAHFPEDHKINVEKLSYCWAAEGISTAEDYHNGET 461

Query: 437 LKDLGSQCFHDLVSRS--IFQRTGFGSSKFA---MHDLVHALAQLVSGETIFRLEEDNSS 491
           ++D+G     +LV R+  I++R    +S+F    +HD++  +        +F+ +E+N  
Sbjct: 462 IQDVGQSYLEELVRRNMIIWERDA-TASRFGTCHLHDMMREVC-------LFKAKEENFL 513

Query: 492 SRRFERVRHSSYACGELDG--RNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVL--YD 547
               + V  +S + G      R++  V+      +    LH    I    + S+V+  +D
Sbjct: 514 QIAVKSVGVTSSSTGNSQSPCRSRRLVY------QCPTTLHVERDINNPKLRSLVVLWHD 567

Query: 548 L-----------LPKFKKLRLLSLQGYYIG----ELPIPFEDLRLLRYLNLADTDIRSLP 592
           L             + K LR+L L  +Y+     +LP    +L  LRYL+L D  +  LP
Sbjct: 568 LWVENWKLLGTSFTRLKLLRVLDL--FYVDFEGMKLPFGIGNLIHLRYLSLQDAKVSHLP 625

Query: 593 ESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL 652
            S  +L+ L  L L   +  I +P    R+  L +L +    + K+    ++ L  L+TL
Sbjct: 626 SSLGNLMLLIYLNLDVDTEFIFVPDVFMRMHELRYLKL-PLHMHKKTRLSLRNLVKLETL 684

Query: 653 SNFVV-GKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLE 711
             F       +   G+  L  L           L  V  S     A++    NLE L + 
Sbjct: 685 VYFSTWHSSSKDLCGMTRLMTLAI--------RLTRVT-STETLSASISGLRNLEYLYIV 735

Query: 712 WGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRY--GGARFPLWIGDPLFSKMNVLELD 769
            G+     R+E       G++  +  +K L +  Y      FP        S++  ++L 
Sbjct: 736 -GTHSKKMREE-------GIVLDFIHLKHLLLDLYMPRQQHFP--------SRLTFVKLS 779

Query: 770 DC-WNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWE 828
           +C      +P L  L  L+ + +     LK   C     C    F  L+ L    L +WE
Sbjct: 780 ECGLEEDPMPILEKLLHLKGVIL-----LKGSYCGRRMVCSGGGFPQLKKLEIVGLNKWE 834

Query: 829 RWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPE---LLPSLKTLVVSKCQKLKFSLSS 885
            W             P L+ LSI++C EL  ++P+    + SL+ +++    K KFS+  
Sbjct: 835 EWLVEEGS------MPLLETLSILDCEELK-EIPDGLRFIYSLELVMLGTRWKKKFSVGG 887

Possible disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C646|RX24L_ARATH Probable disease resistance protein RXW24L OS=Arabidopsis thaliana GN=RXW24L PE=2 SV=1

 Score =  199 bits (505), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 205/731 (28%), Positives = 357/731 (48%), Gaps = 110/731 (15%)

Query: 5   LLSAFLDVLFDRLASP-DLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEA 63
           L+S  ++ L+DRL+   D F        GV  ++ + +  L L+++ L+DA+ K+   E 
Sbjct: 3   LVSFGVEKLWDRLSQEYDQFK-------GVEDQVTELKSNLNLLKSFLKDADAKKHISEM 55

Query: 64  VKMWLDDLQDLACDAEDILD-------------------EFATQALEHKLMAEGLDQPGS 104
           V+  +++++D+  D EDI++                    FA+  ++ + +A   D  G 
Sbjct: 56  VRHCVEEIKDIVYDTEDIIETFILKEKVEMKRGIMKRIKRFASTIMDRRELAS--DIGGI 113

Query: 105 SKLCKQRIE----LGLQ-LIPGGTSSTAAAQRRP----PSSSVPTEPVVFGREEDKTKIL 155
           SK   + I+     G+Q +I  G+ S+   Q R      + S  +E    G E +  K++
Sbjct: 114 SKRISKVIQDMQSFGVQQIITDGSRSSHPLQERQREMRHTFSRDSENDFVGMEANVKKLV 173

Query: 156 EMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV 215
             ++     +  ++ ++ + GMGG+GKTTLAR+V+N   V+D  +FD  AWV VS +F  
Sbjct: 174 GYLV-----EKDDYQIVSLTGMGGLGKTTLARQVFNHDVVKD--RFDGFAWVSVSQEFTR 226

Query: 216 LSISKALLESITSA--TCDLKTVDEVQVQ--LKKAVDGKRFLLVLDDVWNEDYSLWVDLK 271
           +S+ + +L+++TS     +++ + E  +   L + ++  + L+VLDD+W E+   W DL 
Sbjct: 227 ISVWQTILQNLTSKERKDEIQNMKEADLHDDLFRLLESSKTLIVLDDIWKEED--W-DLI 283

Query: 272 APFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEH--LLDDDCWSIFKTHAFEGRDHNAL 329
            P        K+++T+R   +A   G   + + +   L   D W++F++ A   +D +  
Sbjct: 284 KPIFPPKKGWKVLLTSRTESIA-MRGDTTYISFKPKCLSIPDSWTLFQSIAMPRKDTSEF 342

Query: 330 EISESFR---KKVVGKCGGLPLAAKTLGGLL--RTTTYDMWDDI---LDSKIWDLP--RQ 379
           ++ E      KK++  CGGL LA K LGGLL  + T +D W  +   + S I +      
Sbjct: 343 KVDEEMENMGKKMIKHCGGLSLAVKVLGGLLAAKYTLHD-WKRLSENIGSHIVERTSGNN 401

Query: 380 SSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGII-RQSSNNEQLK 438
           SSI  VL +S+  LP++LK CF Y A FP+D E D ++L + W A GI  R+  + E ++
Sbjct: 402 SSIDHVLSVSFEELPNYLKHCFLYLAHFPEDHEIDVEKLHYYWAAEGISERRRYDGETIR 461

Query: 439 DLGSQCFHDLVSRS-IFQRTGFGSSKFA---MHDLVHALAQLVSGETIFRLEEDNSSSRR 494
           D G     +LV R+ +       +S+F    +HD++  +        +F+ +E+N     
Sbjct: 462 DTGDSYIEELVRRNMVISERDVMTSRFETCRLHDMMREIC-------LFKAKEEN----- 509

Query: 495 FERV--RHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSM-VLYDLLPK 551
           F ++   HS  +  +  G ++  V      L     LH   Y     + S+ V+YD +  
Sbjct: 510 FLQIVSNHSPTSNPQTLGASRRFV------LHNPTTLHVERYKNNPKLRSLVVVYDDIGN 563

Query: 552 FKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRS--LPESSCSLLNLEILILRNC 609
               R   L G         F  ++LLR L+L     +   LP     L++L  L L++ 
Sbjct: 564 ----RRWMLSGSI-------FTRVKLLRVLDLVQAKFKGGKLPSDIGKLIHLRYLSLKD- 611

Query: 610 SSLIKLPSKIRRLINLCHLDIR---GAILLKEMPFGMKELKNLQTLSNFVVGKGGETASG 666
           + +  LPS +R L+ L +LDIR     I +  +  GM+EL+ L+ L  F+  K     S 
Sbjct: 612 AKVSHLPSSLRNLVLLIYLDIRTDFTDIFVPNVFMGMRELRYLE-LPRFMHEKTKLELSN 670

Query: 667 LEDLKILKFLS 677
           LE L+ L+  S
Sbjct: 671 LEKLEALENFS 681

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	1277
284026888	1424	CC-NBS-LRR protein [Quercus suber]	0.978	0.877	0.412	0.0
356554923	1399	PREDICTED: putative disease resistance R	0.978	0.893	0.404	0.0
225449649	1418	PREDICTED: putative disease resistance p	0.967	0.871	0.408	0.0
359487255	1336	PREDICTED: putative disease resistance p	0.964	0.922	0.416	0.0
147827051	1335	hypothetical protein VITISV_035099 [Viti	0.971	0.928	0.408	0.0
147775060	1330	hypothetical protein VITISV_014782 [Viti	0.966	0.927	0.412	0.0
359479319	1357	PREDICTED: putative disease resistance p	0.975	0.918	0.393	0.0
225449872	1322	PREDICTED: putative disease resistance p	0.976	0.943	0.411	0.0
147798820	1385	hypothetical protein VITISV_007076 [Viti	0.975	0.899	0.393	0.0
359495024	1390	PREDICTED: putative disease resistance p	0.956	0.878	0.396	0.0

>gi|284026888|gb|ADB66335.1| CC-NBS-LRR protein [Quercus suber]

 Score =  984 bits (2545), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 592/1434 (41%), Positives = 809/1434 (56%), Gaps = 185/1434 (12%)

Query: 1    MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLT 60
            +AE+ L A L VL D LA  +L + +    G V  +L KW + L  IQ VL+DAEEKQLT
Sbjct: 2    LAEVFLGAVLPVLLDMLAPQELMSLV--FSGSVKKKLEKWRQTLLAIQMVLKDAEEKQLT 59

Query: 61   DEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSS--------------- 105
            D  V  WL+ +++LA D ED+ D+FA +A++ KL A    QP SS               
Sbjct: 60   DADVNQWLEAIRELAYDLEDLFDDFAIEAMQRKLKA----QPESSSPASMVRSLVPTRFT 115

Query: 106  ----------------------KLCKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPV 143
                                  ++ +Q+  LGL+   GG S      +RP S+SVP  PV
Sbjct: 116  PSAVKFNLKMKFEIEKISNRLKEITEQKDRLGLK--DGGMS--VKIWKRPSSTSVPYGPV 171

Query: 144  VFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDV 203
            + GR+ED+ KI+E++L D   D +N+ VI IVGM G+GKTTLAR VYND AV+    F+ 
Sbjct: 172  I-GRDEDRKKIIELILKDEQTDDSNYHVISIVGMAGVGKTTLARLVYNDDAVK---HFNP 227

Query: 204  KAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED 263
            +AW+CVSDDFDV+ ++KALLES+TS  C LK ++EVQV+L   ++GK+FLLVLDD+WNE+
Sbjct: 228  RAWICVSDDFDVMMVTKALLESVTSQPCHLKELNEVQVKLASELEGKKFLLVLDDLWNEN 287

Query: 264  YSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEG 323
            Y LW  L  PF A A  S++I+TTRN+ V   MG +  YNL+ + ++DCW+IF  H+   
Sbjct: 288  YGLWEALLPPFRAGAAGSRIIVTTRNASVGKVMGAVQSYNLDFISNNDCWAIFVQHSLMN 347

Query: 324  RDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLPRQSS-I 382
             +      S   R++++ +C GLPLAA+TLGGL R    D W+DI++SK+W      S I
Sbjct: 348  ENFGRPGNSGLIRERILERCRGLPLAARTLGGLFRGKELDEWEDIMNSKLWSSSNMGSDI 407

Query: 383  LPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGS 442
             P+LRLSYHHLP HLKRCFAYC++FP+D+EF+EK+L+ LW+A G+I Q+  ++ ++DLG 
Sbjct: 408  FPILRLSYHHLPHHLKRCFAYCSLFPRDYEFEEKQLILLWMAEGLIYQAEGDKPMEDLGG 467

Query: 443  QCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLE---EDNSSSRRFERVR 499
            + F DL+SRS FQ++    S+F MHDL+  LAQ V+G + FRLE   + N  S+   + R
Sbjct: 468  EYFRDLLSRSFFQQSSSNKSRFVMHDLITDLAQWVAGISYFRLETKLKGNEQSKVSSKAR 527

Query: 500  HSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLS 559
            H S+     DG  KF+   E +HLRTFLPL    Y+   Y++  ++  LLPK + LR+LS
Sbjct: 528  HLSFVGSRYDGAKKFEAISEFKHLRTFLPL-MAPYVGYSYLSYHIINQLLPKLQNLRVLS 586

Query: 560  LQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKI 619
            L GY I  LP    DL+ LRYL+L+ T +RSLP S  +L NL+ L+L NC+SL  LP   
Sbjct: 587  LSGYRIVYLPQTIGDLKHLRYLDLSCTQLRSLPTSISTLYNLQTLLLENCTSLKFLPPDF 646

Query: 620  RRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGE 679
             +L NL HL+I G+ LL+ MP  +  L +LQTLSNFVVGK  ++   + +L  L  L G 
Sbjct: 647  GKLFNLRHLNIFGSNLLEGMPLSIGNLSSLQTLSNFVVGK-ADSFCVIRELGPLVHLRGT 705

Query: 680  LCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVK 739
            LCIS L+NV  ++ AR++ L  K +L  + +EW S  + S+DE  + +VL +LQP   +K
Sbjct: 706  LCISKLENVTKAQEARDSYLYGKQDLNEVVMEWSSNLNESQDEETQLEVLNMLQPNVKLK 765

Query: 740  ELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKS 799
            ELT+K YGG +FP WIGDP FS + +L  ++C NC SLP +G L  L+DL IK M  +KS
Sbjct: 766  ELTVKCYGGTKFPTWIGDPSFSNLVLLRFENCDNCNSLPPVGQLPFLKDLLIKGMAGVKS 825

Query: 800  IGCEFFGKCFSEPFQSLEILSFEYLPEWERW-DTNVDRNEHVEIFPRLQKLSIVECPELS 858
            +G EF+G+  S PFQSLE L FE +P W  W    V+     E F  L KLSI+ C  L 
Sbjct: 826  VGREFYGESCSRPFQSLETLHFEDMPRWVNWIPLGVN-----EAFACLHKLSIIRCHNLV 880

Query: 859  GKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISN 918
             K+P+ LPSLK LV+  C  +  S+S+ PMLC L  + CK + C + +      SM  S 
Sbjct: 881  RKLPDHLPSLKKLVIHGCWNMVVSVSNLPMLCVLVIEGCKRVECESSVGFGSPYSMAFSK 940

Query: 919  SSLDINGCEGMLHASRTSSSL---------------------------LQTETISNALDF 951
             S   N   G++H       L                           L  E     + F
Sbjct: 941  ISEFGNATAGLMHGVSKVEYLKIVDSEKLTTLWEKIPEGLHRLKFLRELSIEDCPTLVSF 1000

Query: 952  ----FPRNLRYLIISEISTLRS-LPEEIMDN--NSRLESLYIGYCGSLKFVTKGKLPSSL 1004
                FP  L+ + I   S L+S LPE  + +  N+ LE L +  C S+K + +G+LP++L
Sbjct: 1001 PASGFPSMLKVIQIKSCSGLKSLLPEGTLHSRENACLERLCVVRCDSMKSIARGQLPTTL 1060

Query: 1005 KSLQIENLT------------------------------LESLKIRDCPQLTCLSSGIHL 1034
            K L+I +                                L+ L I+ CP LT L+S   L
Sbjct: 1061 KKLEISHCMNLQCVLDEGEGSSSSSGMHDEDINNRSKTHLQYLDIKSCPSLTTLTSSGKL 1120

Query: 1035 LEALEDLHIRNCPK---------------------------------------------- 1048
               L  L +R CPK                                              
Sbjct: 1121 PATLTHLLLRECPKLMCLSSTGKLPAALQYLEIQSISKLQKIAERLHQNTSLECIKIWNC 1180

Query: 1049 --LESIPKGLH---KLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKL 1103
              L+S+P+ LH   KLR   I  C S  S    GLP+ +  + I  C+ L ALPNGM  L
Sbjct: 1181 HGLKSLPEDLHNLSKLRQFLIFWCQSFSSFPAAGLPSNLRVLGIKNCKNLKALPNGMRNL 1240

Query: 1104 QSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIE 1163
             SLQ L I      L   +EG PTNL  + +    D K YK + +WGL + TSLI LSI 
Sbjct: 1241 TSLQKLDISHRLDSLPSPQEGLPTNLIELNMH---DLKFYKPMFEWGLQQPTSLIKLSIH 1297

Query: 1164 -ECHDAESFPDEE---MRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPN 1219
             EC D +S+P E    + M+LP SL+ L +     L+ LS  GFQ+LTSL  L I +C  
Sbjct: 1298 GECLDVDSYPGERENGVMMLLPNSLSILCISYFQNLECLSPKGFQNLTSLNQLKIYNCLK 1357

Query: 1220 LTSFPEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFIYD 1273
            LTS P+ GLP SL  LEI+NCP L + C  ++G+EWSKIA IPCV ID+KFI++
Sbjct: 1358 LTSLPKEGLPPSLTQLEIRNCPLLSQHCNNEKGQEWSKIAHIPCVLIDNKFIHE 1411

Source: Quercus suber

Species: Quercus suber

Genus: Quercus

Family: Fagaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356554923|ref|XP_003545790.1| PREDICTED: putative disease resistance RPP13-like protein 1-like [Glycine max]

 Score =  931 bits (2405), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 576/1423 (40%), Positives = 831/1423 (58%), Gaps = 173/1423 (12%)

Query: 1    MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLT 60
            + E  LSAFL VLFDRLAS ++   I  L G  S  L+K+++ L L++AVL DAE+  L 
Sbjct: 3    VGEAFLSAFLQVLFDRLASKNVIEVI--LAGDKSKILKKFQKTLLLLKAVLNDAEDNHLK 60

Query: 61   DEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQ------------PGS---- 104
            +EAV+MWL +L+D+A DAED+LD FAT+ L+ +L +    Q            P S    
Sbjct: 61   NEAVRMWLVELKDVAFDAEDVLDRFATEVLKRRLESMSQSQVQTTFAHVWNLFPTSLSSS 120

Query: 105  ------------SKLCKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVVFGREEDKT 152
                        + L  +R ELGL  +  G S      +   +SS+  E  + GR+ DK 
Sbjct: 121  MESNMKAITERLATLANERHELGLSEVAAGCS-----YKINETSSMVNESYIHGRDNDKK 175

Query: 153  KILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD 212
            KI++ ++ +  +      VIPIVGM GIGKTTLA+ V+ND  V  +  F++KAWV V  D
Sbjct: 176  KIIQFLMENRPSHGDEVLVIPIVGMPGIGKTTLAQVVFNDDEV--NTHFELKAWVSVPYD 233

Query: 213  FDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKA 272
            FDV  +++ +LES+T  TCD   + ++QV+L+  + GK+FL+VLDDVWN++Y+ W+ L A
Sbjct: 234  FDVKVVTRKILESVTCVTCDFNNLHQLQVKLRAVLSGKKFLIVLDDVWNKNYNEWIKLVA 293

Query: 273  PFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEIS 332
            PF  AA  S +I+TTR++ VA+ MG ++ +++  L D DCWS+F  HAF  +    ++ +
Sbjct: 294  PFRGAARGSSVIVTTRSAEVANMMGTVESHHVNQLSDKDCWSVFVQHAFRSK---TIDAN 350

Query: 333  ESFR--------KKVVGKCGGLPLAAKTLGGLLRTTTYDM-WDDILDSKIWDLPRQ-SSI 382
            ++F         KK+  KC G PL A T GG+L +      W++++D +IWDL  + S+I
Sbjct: 351  QAFAEIGNFLIGKKIAEKCKGSPLMATTFGGILSSQKDARDWENVMDFEIWDLAEEESNI 410

Query: 383  LPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGS 442
            L  LRLSY+ LPS+LKRCFAYC+I PK FEF+EKE+V LW+A G++ Q S  +Q++D+G 
Sbjct: 411  LQTLRLSYNQLPSYLKRCFAYCSILPKGFEFEEKEIVLLWMAEGLLEQKSQ-KQMEDVGH 469

Query: 443  QCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEED-----NSSSRRFER 497
            + F +L+S S+FQ++    S + MHDL++ LAQ V+GE+ F+L+ +         +  + 
Sbjct: 470  EYFQELLSASLFQKSSSNRSLYVMHDLINDLAQWVAGESCFKLDNNFQSHKQKKKKISKM 529

Query: 498  VRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRL 557
             R++SY  GE DG   F+ F E + LRTFLPL         YIT+ V ++LLP+ + LR 
Sbjct: 530  TRYASYVGGEYDGIQMFQAFKEAKSLRTFLPLKHRRLEEWSYITNHVPFELLPELRCLRA 589

Query: 558  LSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPS 617
            LSL GY+I +LP    +L LLRYLNL+ TD+R LPES CSL NL+ L+LR+C +L +LPS
Sbjct: 590  LSLSGYFISKLPNSVSNLNLLRYLNLSSTDLRQLPESICSLCNLQTLLLRDCFNLEELPS 649

Query: 618  KIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLS 677
             +  LINL HLDI  +  L  MP G+ +L +LQTLSNFVVG     +SG+ +L  L  + 
Sbjct: 650  NMSDLINLRHLDITRSHSLTRMPHGIGKLTHLQTLSNFVVG-----SSGIGELMKLSNIR 704

Query: 678  GELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKF 737
            G L +S L++V D++ A EA + +K+ ++ L L+W S  +N       ++VL +LQP+K 
Sbjct: 705  GVLSVSRLEHVTDTREASEAMINKKVGIDVLKLKWTSCMNNQSHTERAKEVLQMLQPHKN 764

Query: 738  VKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNL 797
            + +LTIK YGG  FP WIGDP +  +  L+L DC +CTSLP+LG L +L++L I  M  +
Sbjct: 765  LAKLTIKCYGGTSFPKWIGDPSYKSLVFLKLKDCAHCTSLPALGNLHALKELYIIGMKEV 824

Query: 798  KSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPEL 857
              I  EF G     PF SLE L F  + +WE W  + D NE  ++F  LQ+L IV+CP+L
Sbjct: 825  CCIDGEFCGNACLRPFPSLERLYFMDMEKWENWFLS-DNNEQNDMFSSLQQLFIVKCPKL 883

Query: 858  SGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTIS 917
             GK+PE LPSLK ++V +C++L  ++SS P+L +LE + CK L+     +   + SM++S
Sbjct: 884  LGKLPENLPSLKHVIVKECEQLLVTISSLPVLYKLEIEGCKGLVLNCANEFNSLNSMSVS 943

Query: 918  NSSLDINGCEGMLHASRTSSSLLQTETISNALD------------FFPRN-------LRY 958
                     E ++ A +T   L   + +S ALD            +  +N       LR 
Sbjct: 944  RILEFTFLMERLVQAFKTVEEL---KIVSCALDETVLNDLWVNEVWLEKNPHGLSSILRL 1000

Query: 959  LIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLT----- 1013
            + I   + ++S+P+ +M N+  LE LYI +C S+ FVT  +LP SLKSL+I N       
Sbjct: 1001 IEIRNCNIMKSIPKVLMVNSHFLERLYICHCDSIVFVTMDQLPHSLKSLEISNCKNLRCL 1060

Query: 1014 ---------------------------LESLKIRDCPQLTCLS-------SGIHLL---- 1035
                                       LE + I  CP LTC+S       S  HL     
Sbjct: 1061 LDNGTCTSSSIIMHDDNVQHGSTIISHLEYVYIGWCPSLTCISRSGELPESVKHLFIWNC 1120

Query: 1036 -------------EALEDLHIRNCPKLESI------------------------PKGLH- 1057
                         +++E L I++CPKLESI                        P+GLH 
Sbjct: 1121 SELSCLSMKGQLPKSIERLEIQSCPKLESIANRLHRNTSLESIQIWNCENLKSLPEGLHF 1180

Query: 1058 --KLRSIYIKKCPSLVSLAEKGLP-NTISHVTISYCEKLDALPNGMHKLQSLQYLKIKEC 1114
               L+ I I  CP+LVS  E+GLP +++S ++I  CEKL ALPN M+ L SL+ L+I  C
Sbjct: 1181 LVNLKEIKIIGCPNLVSFPEEGLPASSLSELSIMSCEKLVALPNSMYNLDSLKELEIGYC 1240

Query: 1115 PSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDE 1174
            PSI  F E  FP NL  + I    D    +A+  WGL++L+ L  L+I         P E
Sbjct: 1241 PSIQYFPEINFPDNLTSLWIN---DHNACEAMFNWGLYKLSFLRDLTI--IGGNLFMPLE 1295

Query: 1175 EMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLS 1234
            ++  MLP++LT L ++    L+ LSS GF  LTSL  L I +CP L   PE GLPSSLL 
Sbjct: 1296 KLGTMLPSTLTSLTVQGFPHLENLSSEGFHKLTSLSKLSIYNCPKLLCLPEKGLPSSLLE 1355

Query: 1235 LEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFIYDPEAE 1277
            L I++CP L++QC++D+G++W KIA +P V+ID KFIYD + E
Sbjct: 1356 LYIQDCPFLKEQCRKDKGRDWLKIADVPYVEIDGKFIYDSDYE 1398

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449649|ref|XP_002262753.1| PREDICTED: putative disease resistance protein At3g14460 [Vitis vinifera]

 Score =  896 bits (2315), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 588/1438 (40%), Positives = 818/1438 (56%), Gaps = 202/1438 (14%)

Query: 5    LLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAV 64
            +LSA   VLFD+L S DL  F R+ Q  + SEL+KWE+ L  I AVL DAEEKQ+++  V
Sbjct: 8    VLSALFGVLFDKLTSADL-TFARREQ--IHSELKKWEKTLMKINAVLDDAEEKQMSNRFV 64

Query: 65   KMWLDDLQDLACDAEDILDEFATQA-LEHKLMAEGLDQP--------------------- 102
            K+WL +L+DLA DA+DILDEFATQA L   L++E    P                     
Sbjct: 65   KIWLSELRDLAYDADDILDEFATQAALRPNLISESQGSPSKVWSLIPTCCTTLISPTDFM 124

Query: 103  -----GSS---------KLCKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVVFGRE 148
                 GS           +  +RIELGL+ + GG  ST    +RPP++ +  EP V+GR+
Sbjct: 125  FNVEMGSKIKDITARLMDISTRRIELGLEKV-GGPVST---WQRPPTTCLVNEPCVYGRD 180

Query: 149  EDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVC 208
            +D+  I++++L D  ++ +   V+PIVGMGG+GKTTLAR V+ND+ ++    F +++WVC
Sbjct: 181  KDEKMIVDLLLRDGGSE-SKVGVVPIVGMGGVGKTTLARLVFNDETIKQY--FTLRSWVC 237

Query: 209  VSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWV 268
            VSD+FD++ I+KA+L+SITS T  L  ++++QV+L  A+ GKRFLLVLDDVWN++Y  WV
Sbjct: 238  VSDEFDIIRITKAILDSITSQTTALSDLNQLQVKLSDALAGKRFLLVLDDVWNKNYGDWV 297

Query: 269  DLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYN-LEHLLDDDCWSIFKTHAFEGRDHN 327
             L++PF   A  SK+I+TTR++ VA  M   D+Y+ ++ L  DDCWS+F  HAFE R+  
Sbjct: 298  LLRSPFSTGAAGSKIIVTTRDAEVARMMAGSDNYHYVKALSYDDCWSVFVQHAFENRNIC 357

Query: 328  ALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTY-DMWDDILDSKIWDLP-RQSSILPV 385
            A    E   KK+V KCGGLPLAAKTLGGLLR+ +  D W+D+L SKIW+ P ++S ILP 
Sbjct: 358  AHPSLEVIGKKIVQKCGGLPLAAKTLGGLLRSKSKDDEWEDVLYSKIWNFPDKESDILPA 417

Query: 386  LRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQS-SNNEQLKDLGSQC 444
            LRLSYH+LPSHLKRCFAYC+IFPKD+EFD+KELV LW+A G+I+QS    +Q++D+GS  
Sbjct: 418  LRLSYHYLPSHLKRCFAYCSIFPKDYEFDKKELVLLWMAEGLIQQSPKGKKQMEDMGSDY 477

Query: 445  FHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFE---RVRHS 501
            F +L+SRS FQ +    S+F MHDL++ LAQ VS E  F LE+   S+++      VRHS
Sbjct: 478  FCELLSRSFFQLSSCNGSRFVMHDLINDLAQYVSEEICFHLEDSLDSNQKHTFSGSVRHS 537

Query: 502  SYACGELDGRNKFKVFYEIEHLRTF--LPLHKTDYIITCYITSMVLYDLLPKFKKLRLLS 559
            S+A  + +   KF+ FY+ ++LRTF  LP+H   Y    ++T  V +DLLPK + LR+LS
Sbjct: 538  SFARCKYEVFRKFEDFYKAKNLRTFLALPIH-MQYYDFFHLTDKVSHDLLPKLRYLRVLS 596

Query: 560  LQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKI 619
            L  Y I ELP    DL+ LRYLNL+ T I+ LP+S   L NL+ L+L  C  L +LP   
Sbjct: 597  LSHYEIRELPNSIGDLKHLRYLNLSCTIIQELPDSLSDLHNLQTLVLFRCRRLNRLPRGF 656

Query: 620  RRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGE 679
            + LINL HLDI     L+ MP  M +LK+LQTLS F+VGK  E   G+++L  L  L G+
Sbjct: 657  KNLINLRHLDIAHTHQLEVMPPQMGKLKSLQTLSKFIVGKSKEL--GIKELGDLLHLRGK 714

Query: 680  LCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQ-FDNSRDEVAEEQVLGVLQPYKFV 738
            L I  LQNV D ++AR+A L +K +LE L +EW S  FD+S++E  E  VL  LQP   +
Sbjct: 715  LSILDLQNVVDIQDARDANLKDKHHLEELLMEWSSNMFDDSQNETIELNVLHFLQPNTNL 774

Query: 739  KELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLK 798
            K+LTI+ YGG  FP WIGDP FSKM  LEL+ C  CT LPSLG LSSL+ L +K M  +K
Sbjct: 775  KKLTIQSYGGLTFPYWIGDPSFSKMVCLELNYCRKCTLLPSLGRLSSLKKLCVKGMQGVK 834

Query: 799  SIGCEFFGK---CFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECP 855
            S+G EF+G+   C  +PF SLE L FE +PEWE W ++       E +PRL++L I  CP
Sbjct: 835  SVGIEFYGEPSLCV-KPFPSLEFLRFEDMPEWEEWCSS-------ESYPRLRELEIHHCP 886

Query: 856  ELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMT 915
            +L  K+P  LPSL  L +  C KL   L S P L  L   EC E + R+  D   + ++ 
Sbjct: 887  KLIQKLPSHLPSLVKLDIIDCPKLVAPLPSLPFLRDLIVAECNEAMLRSGGDLTSLITLR 946

Query: 916  ISNSS------------------LDINGCEGMLHASRTSSSLLQTETISNALDF------ 951
            + N S                  L+I  C  +    ++         I + +        
Sbjct: 947  LENISNLTFLNEGLVRFLGALEVLEICNCSELKFLLQSGVGFENLSCIRHLVIVMCPKLV 1006

Query: 952  -------FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSL 1004
                    P NL YL I++ ++L  LP  +    S L  L I  C  L  + +   P  L
Sbjct: 1007 LLAEDQPLPCNLEYLEINKCASLEKLPIGLQSLTS-LRELSIQKCPKLCSLAEMDFPPML 1065

Query: 1005 KSLQI-----------------ENLT---LESLKIRDCPQLTCLSSGIHLLEALEDLHIR 1044
             SL++                 EN     LE LKI  CP L C   G  L   L++L I 
Sbjct: 1066 ISLELYDCEGLESLPDGMMINGENRNFCLLECLKIVHCPSLICFPRG-ELPSKLKELEII 1124

Query: 1045 NCPKLESIPKGL----H--KLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDAL-- 1096
            +C KL+S+P+GL    H   L  + I +CP L S     LP+T+  + I  C++L+++  
Sbjct: 1125 DCAKLQSLPEGLILGDHTCHLEFLRIHRCPLLSSFPRGLLPSTMKRLEIRNCKQLESISL 1184

Query: 1097 -------------------PNGMHKLQSLQYLKIKECPSILSFSEEGFPT-NLKLIRIGG 1136
                                  +H L+ L  L I  C  + SF E GF + NLK++ I  
Sbjct: 1185 LSHSTTLEYLRIDRLKINFSGCLHSLKHLIELHIYSCSGLESFPERGFSSPNLKMLHID- 1243

Query: 1137 GVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRM------------------ 1178
              D K  K+ +   +   TSL  L I +C +  SF +E + +                  
Sbjct: 1244 --DCKNLKS-LPLQMQSFTSLRDLRIYDCPNLVSFAEEGLSLNLTSFWIRNCKNLKMPLY 1300

Query: 1179 ----------------------------MLPASLTFLILRRLSKLKYLSSMGFQSLTSLE 1210
                                        +LP +LT+L + +   L+ LSSMG Q+LTSLE
Sbjct: 1301 QWGLHGLTSLQTFVINNVAPFCDHDSLPLLPRTLTYLSISKFHNLESLSSMGLQNLTSLE 1360

Query: 1211 HLLIEDCPNLTSF-PEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKID 1267
             L I  CP L +F P+ GL ++L +L IK CP +  +C++++G++W  I+ IP + +D
Sbjct: 1361 ILEIYSCPKLQTFLPKEGLSATLSNLRIKFCPIIEARCRKNKGEDWPMISHIPRIDMD 1418

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487255|ref|XP_002269744.2| PREDICTED: putative disease resistance protein At3g14460 [Vitis vinifera]

 Score =  880 bits (2275), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 565/1357 (41%), Positives = 777/1357 (57%), Gaps = 125/1357 (9%)

Query: 1    MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLT 60
            + E  LS+  +V+ D+L +  L ++ R+++   ++ L++W + L  +QAVL DAE++Q+ 
Sbjct: 3    VVEAFLSSLFEVVLDKLVATPLLDYARRIKVD-TAVLQEWSKTLLDLQAVLHDAEQRQIR 61

Query: 61   DEAVKMWLDDLQDLACDAEDILDEFATQA------------------------------- 89
            +EAVK W+DDL+ LA D ED+LDEF  +A                               
Sbjct: 62   EEAVKSWVDDLKALAYDIEDVLDEFDMEAKRCKGPQTSTSKVRKLIPSFHPSGVIFNKKI 121

Query: 90   -LEHKLMAEGLDQPGSSKLCKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVVFGRE 148
              + K + E LD     K+ +++  L L    GG SS    Q+R  ++S+  +   +GR+
Sbjct: 122  GQKIKTITEQLD-----KIVERKSRLDLTQSVGGVSS--VTQQRL-TTSLIDKAEFYGRD 173

Query: 149  EDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVC 208
             DK KI+E++L+D  A      VIPIVGMGG+GKTTLA+ +YNDK V D+  FD++ W C
Sbjct: 174  GDKEKIMELLLSDEIATADKVQVIPIVGMGGVGKTTLAQMIYNDKRVGDN--FDIRGWGC 231

Query: 209  VSDDFDVLSISKALLESITSATCDL-KTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLW 267
            VSD FD++ I+K++LES++  + D   T+  +Q  L+K ++GKRF LVLDD+WNED + W
Sbjct: 232  VSDQFDLVVITKSILESVSKHSSDTSNTLQSLQDSLQKKLNGKRFFLVLDDIWNEDPNSW 291

Query: 268  VDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHN 327
              L+APF   A  S +++TTR   VAS M     ++L  L D+DCWS+F   AFE    +
Sbjct: 292  GTLQAPFRNGAQGSVVMVTTRLEDVASIMRTTSSHHLSKLSDEDCWSLFAGIAFENVTPD 351

Query: 328  ALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYD-MWDDILDSKIWDL-PRQSSILPV 385
            A +  E   +K++ KC GLPLAA TL GLLR    +  W D+L+S+IWDL   QS ILP 
Sbjct: 352  ARQNLEPIGRKIIKKCDGLPLAANTLAGLLRCKQDEKTWKDMLNSEIWDLRTEQSRILPA 411

Query: 386  LRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCF 445
            L LSYH+LP+ +K+CFAYC+IFPKD+EF ++EL+ LW+A G++      E ++D+G  CF
Sbjct: 412  LHLSYHYLPTKVKQCFAYCSIFPKDYEFQKEELILLWMAQGLVGSLKGGETMEDVGEICF 471

Query: 446  HDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYAC 505
             +L+SRS FQ++G   S F MHDL+H LAQ VSGE  FRLE     +   +  RH SY  
Sbjct: 472  QNLLSRSFFQQSGHNKSMFVMHDLIHDLAQFVSGEFCFRLEMGQQKNVS-KNARHFSYDR 530

Query: 506  GELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYI 565
               D   KF    +I+ LRTFLPL K  Y + CY+   VL+D+LPKF+ +R+LSL  Y I
Sbjct: 531  ELFDMSKKFDPLRDIDKLRTFLPLSKPGYQLPCYLGDKVLHDVLPKFRCMRVLSLSYYNI 590

Query: 566  GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINL 625
              LP  F +L+ LRYLNL++T IR LP+S   LLNL+ LIL  C  L +LP++I +LINL
Sbjct: 591  TYLPDSFGNLKHLRYLNLSNTKIRKLPKSIGMLLNLQSLILSECRWLTELPAEIGKLINL 650

Query: 626  CHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGL 685
             HLDI     ++ MP G+  LK+L+ L+ FVVGK G   + L +L+ L  L G L I  L
Sbjct: 651  RHLDI-PKTKIEGMPMGINGLKDLRMLTTFVVGKHG--GARLGELRDLAHLQGALSILNL 707

Query: 686  QNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKR 745
            QNV   +NA E  L +K +L+ L   W         E+ + +VL  LQP+  VK L I+ 
Sbjct: 708  QNV---ENATEVNLMKKEDLDDLVFAWDPNAIVGDLEI-QTKVLEKLQPHNKVKRLIIEC 763

Query: 746  YGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFF 805
            + G +FP W+ DP F  +  L+L DC NC SLP LG L SL+DL I +M +++ +G E +
Sbjct: 764  FYGIKFPKWLEDPSFMNLVFLQLRDCKNCLSLPPLGQLQSLKDLCIVKMDDVRKVGVELY 823

Query: 806  GKCFS-----EPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGK 860
            G  +      +PF SLEIL FE + EWE W   V R   VE FP L++L I +CP L   
Sbjct: 824  GNSYCSSTSIKPFGSLEILRFEEMLEWEEW---VCRG--VE-FPCLKELYIKKCPNLKKD 877

Query: 861  VPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISN-- 918
            +PE LP L  L +SKC++L   L   P + RLE  EC +++ R+      +  +TI N  
Sbjct: 878  LPEHLPKLTELEISKCEQLVCCLPMAPSIRRLELKECDDVVVRSAGSLTSLAYLTIRNVC 937

Query: 919  ---------SSL---------DINGCEGMLHASRTSSSLLQTETISNALDF----FPRNL 956
                     +SL         ++     +LH S TS   L  E   +   F     P  L
Sbjct: 938  KIPDELGQLNSLVQLCVYRCPELKEIPPILH-SLTSLKNLNIENCESLASFPEMALPPML 996

Query: 957  RYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQI------- 1009
              L I    TL SLPE +M NN+ L+ L I +CGSL+ + +     SLK L I       
Sbjct: 997  ESLEIRACPTLESLPEGMMQNNTTLQCLEIWHCGSLRSLPRDI--DSLKRLVICECKKLE 1054

Query: 1010 ----ENLT------LESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLES--IPKGLH 1057
                E++T      L    I  C   +  S  +     LE L   NC  LES  IP GLH
Sbjct: 1055 LALHEDMTHNHYASLTKFDITSCCD-SLTSFPLASFTKLETLDFFNCGNLESLYIPDGLH 1113

Query: 1058 -----KLRSIYIKKCPSLVSLAEKGLPN-TISHVTISYCEKLDALPNGMHK-LQSLQYLK 1110
                  L+S+ I+ CP+LVS    GLP   +  + I  CEKL +LP GMH  L SLQ+L 
Sbjct: 1114 HVDLTSLQSLEIRNCPNLVSFPRGGLPTPNLRRLWILNCEKLKSLPQGMHTLLTSLQHLH 1173

Query: 1111 IKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAES 1170
            I  CP I SF E G PTNL  + I      K+    ++WGL  L  L  L+IE  ++ E 
Sbjct: 1174 ISNCPEIDSFPEGGLPTNLSELDIRNC--NKLVANQMEWGLQTLPFLRTLTIEG-YENER 1230

Query: 1171 FPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPS 1230
            FP+E     LP++LT L +R    LK L + G Q LTSLE L I +C NL SFP+ GLPS
Sbjct: 1231 FPEER---FLPSTLTSLEIRGFPNLKSLDNKGLQHLTSLETLRIRECGNLKSFPKQGLPS 1287

Query: 1231 SLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKID 1267
            SL SL I+ CP L K+C+RD+GKEW KI+ IPC+  D
Sbjct: 1288 SLSSLYIEECPLLNKRCQRDKGKEWPKISHIPCIAFD 1324

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147827051|emb|CAN75510.1| hypothetical protein VITISV_035099 [Vitis vinifera]

 Score =  879 bits (2272), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 557/1362 (40%), Positives = 782/1362 (57%), Gaps = 122/1362 (8%)

Query: 1    MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLT 60
            + E ++S+FL V+ D+L +  L  + R+ +  V   L++W +KL  I+AV+ DAEEKQ+ 
Sbjct: 3    VGEAVVSSFLAVVIDKLIAGPLLEYARRQK--VDXTLQEWRKKLLXIEAVMNDAEEKQIR 60

Query: 61   DEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSKLCK----------- 109
            + AVK+WLDDL+ LA D ED+LDE  T+A    L  EG  QP SSK+ K           
Sbjct: 61   ERAVKVWLDDLKALAYDIEDVLDELVTKANRLSL-TEG-PQPSSSKVRKFIPTFHPSRSV 118

Query: 110  -------------------QRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVVFGREED 150
                                  + GL L  G    + +A+ R  +S V  E  V+GR+ D
Sbjct: 119  FNGKISKKIKKITEDLDTIANRKFGLHLREGVGGFSFSAEERLTTSLV-DEFGVYGRDAD 177

Query: 151  KTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVS 210
            + KI+E +L+D  +      VIPIVGMGG+GKTT A+ +YNDK VED   FD + WVC+S
Sbjct: 178  REKIMEXLLSDEVSADQKVGVIPIVGMGGVGKTTXAQIIYNDKRVED--HFDTRIWVCIS 235

Query: 211  DDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDL 270
            D FD++ I+KA+LES+T  +   + +  +Q  LKK ++GKRFLLVLDD+WNE+ + W  L
Sbjct: 236  DQFDLVEITKAILESVTKDSSHSRNLQFLQDGLKKELNGKRFLLVLDDIWNENPNNWSVL 295

Query: 271  KAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALE 330
            +APF   A  S +++TTRN +VAS M     Y+L  L D  CWS+F   AFE    +AL+
Sbjct: 296  QAPFRVGAHGSFVMVTTRNENVASIMRTTASYHLNELSDKYCWSLFAHLAFENITSDALQ 355

Query: 331  ISESFRKKVVGKCGGLPLAAKTLGGLLRTTT-YDMWDDILDSKIWDLPR-QSSILPVLRL 388
              E   KK+V KC GLPLAAKT+GGLLR+    + W ++L++KIWDLP  QSSILP L L
Sbjct: 356  SLELIGKKIVKKCKGLPLAAKTIGGLLRSKQDENAWKEMLNNKIWDLPADQSSILPALHL 415

Query: 389  SYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDL 448
            SYH+LP+ LK+CFAYC+IFPK +EF++K+L+ LW+  G++  S   E ++  G  CFH+L
Sbjct: 416  SYHYLPTKLKQCFAYCSIFPKGYEFEKKQLILLWMGEGLVNGSRRGETVEKEGETCFHNL 475

Query: 449  VSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLE--EDNSSSRRFERVRHSSYACG 506
            + RS FQ++    S F MHDL+H L Q VSGE  FRLE  + N  S+   + RH SY   
Sbjct: 476  LLRSFFQQSNHDKSLFMMHDLIHDLTQFVSGEFCFRLEFGKQNQISK---KARHLSYVRE 532

Query: 507  ELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIG 566
            E D   KF   +E  +LRTFLPL     + TCY++  V + LLP  K LR++SL  Y+I 
Sbjct: 533  EFDVSKKFNPVHETSNLRTFLPLTMPHGVSTCYLSKKVSHHLLPTLKCLRVVSLSHYHIT 592

Query: 567  ELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLC 626
             LP     L+ LRYL+L+ T I  LPES   L NL+ L+L NC+ L ++PS+I +LINL 
Sbjct: 593  HLPDSIGKLKHLRYLDLSYTAIHKLPESIGMLFNLQTLMLSNCNFLSEVPSEIGKLINLR 652

Query: 627  HLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQ 686
            + DI     L+ MP G+  LK+LQ L+ FVVG     A+ ++DL+ L  L G L I  LQ
Sbjct: 653  YFDI-SKTKLEGMPMGINRLKDLQVLTTFVVG-WKHAAARIKDLRDLSQLGGTLSILNLQ 710

Query: 687  NVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRY 746
            NV  + +A EA L +K  L+ L   W      S D   + +VL  LQP+  +K LTI+ Y
Sbjct: 711  NVVCAADALEANLKDKGKLDDLVFGWDCN-AVSGDLQNQTRVLENLQPHXKLKTLTIEYY 769

Query: 747  GGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFG 806
             G +FP W+GDP F  +  L+L  C  C SLP +G L SL+ L+I ++  ++ +G EF G
Sbjct: 770  YGXKFPNWLGDPSFMNLVFLQLKSCKXCLSLPPIGQLQSLKGLSIVKI-GVQRVGPEFCG 828

Query: 807  KCFS----EPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVP 862
                    +PF SL+ L FE + EWE W  +      VE FP LZ+L + +CP+L G +P
Sbjct: 829  NGSGSSSFKPFGSLKTLKFEEMLEWEEWTCS-----QVE-FPCLZELYVQKCPKLKGXIP 882

Query: 863  ELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISN---- 918
            + LP L  L +++C +L  SL   P LC L+  EC +++ R+ +D   + S+ +++    
Sbjct: 883  KHLPLLTKLEITECGQLVDSLPMVPSLCELKLTECNDVVFRSAVDITSLTSLIVNDICKI 942

Query: 919  ----------SSLDINGCEGM------LHASRTSSSLL--QTETISNALDF-FPRNLRYL 959
                        L I GC  +      LH   +   L+     ++ + L+   P  L+ L
Sbjct: 943  PLELQHLHSLVRLTIXGCPELREVPPILHKLNSLKQLVIKGCSSLQSLLEMGLPPMLQKL 1002

Query: 960  IISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPS--SLKSLQIEN------ 1011
             I +   L SL + +M NN+ L+ L I  CGSL+       PS  SLK L I++      
Sbjct: 1003 DIEKCGILESLEDAVMQNNTCLQQLTIKDCGSLR-----SFPSIASLKYLDIKDCGKLDL 1057

Query: 1012 -----------LTLESLKIR-DCPQLTCLSSGIHLLEALEDLHIRNCPKLE--SIPKGLH 1057
                        +L +L I   C  LT    G      LE  ++ NC  LE  SIP G+H
Sbjct: 1058 PLPEEMMPSYYASLTTLIINSSCDSLTSFPLG--FFRKLEFFYVSNCTNLESLSIPDGIH 1115

Query: 1058 -----KLRSIYIKKCPSLVSLAEKGL--PNTISHVTISYCEKLDALPNGMHK-LQSLQYL 1109
                  L  +YI  CP+LVS  + GL  PN +S + +  C+KL +LP GMH  L SL+ L
Sbjct: 1116 HVEFTSLNYMYINNCPNLVSFPQGGLSAPN-LSVLILQQCKKLKSLPQGMHTLLTSLEIL 1174

Query: 1110 KIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAE 1169
             + +C  ++S  +EG PTNL L+ I      K+ +  ++WGL RL  L   S+  C +  
Sbjct: 1175 VLYDCQELVSXPDEGLPTNLSLLDITNCY--KLMEHRMEWGLQRLPFLRKFSLRGCKEEI 1232

Query: 1170 SFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLP 1229
            S P  EM  +LP++LTFLI++    LK L+  GFQ LTSLE L I +C  L SFP+ GLP
Sbjct: 1233 SDPFPEM-WLLPSTLTFLIIKDFPNLKSLAKEGFQHLTSLERLYISNCDELKSFPKEGLP 1291

Query: 1230 SSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFI 1271
             SL  L I+ C  L K+C+RD+GKEW KIA +PC+KIDB+ I
Sbjct: 1292 GSLSVLRIEGCSLLTKRCQRDKGKEWPKIAHVPCIKIDBEVI 1333

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147775060|emb|CAN77204.1| hypothetical protein VITISV_014782 [Vitis vinifera]

 Score =  864 bits (2232), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 560/1356 (41%), Positives = 779/1356 (57%), Gaps = 122/1356 (8%)

Query: 1    MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLT 60
            + ELLLSA   VLFD+LAS D   F RQ    + S+L+KWE +L  I+ VL DAE+KQ+ 
Sbjct: 4    VGELLLSAAFQVLFDKLASSDFLTFARQEH--IHSQLKKWETQLFNIREVLNDAEDKQIA 61

Query: 61   DEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAE----------------------- 97
              +VK+WL +L+ LA D EDILDEF T+ L  KL  +                       
Sbjct: 62   SSSVKLWLAELRILAYDMEDILDEFNTEMLRRKLAVQPQAAXAATTSKVWSLIPTCCTSF 121

Query: 98   -----GLDQPGSSKL----------CKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEP 142
                   +    SK+            ++ +LGL+ + G T++T        ++S+  EP
Sbjct: 122  TPSHVTFNVSMGSKIKDITSRLEDISTRKAQLGLEKVAGTTTTTWKRTP---TTSLFNEP 178

Query: 143  VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFD 202
             V GR++DK KI++++L+D +A      V+PIVGMGG+GKTTLAR  YND AV     F 
Sbjct: 179  QVHGRDDDKNKIVDLLLSDESA------VVPIVGMGGLGKTTLARFAYNDDAV--VKHFS 230

Query: 203  VKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNE 262
             +AWVCVSD+FDV+ I+KA+L +I+    D K  +++QV+L  ++ GKRFLLVLDDVWN 
Sbjct: 231  PRAWVCVSDEFDVVKITKAILNAISPQGNDSKDFNQLQVELSHSLAGKRFLLVLDDVWNR 290

Query: 263  DYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGP--IDHYNLEHLLDDDCWSIFKTHA 320
            +Y  W +L++PF   A  SK+I+TTRN+HVA  M P    H++L+ L  DDCWS+F  HA
Sbjct: 291  NYEDWNNLRSPFRGGAKGSKVIVTTRNTHVALMMEPSVTYHHSLKPLSYDDCWSVFVQHA 350

Query: 321  FEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYD-MWDDILDSKIWDLP-R 378
            FE RD       +S  KK+V KC GLPLAAK LGGLLR+   D  W+ +L+SKIW LP  
Sbjct: 351  FENRDIQEHPNLKSIGKKIVEKCDGLPLAAKVLGGLLRSKHRDDEWEHVLNSKIWILPDT 410

Query: 379  QSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLK 438
            +  I+P LRLSYHHLP+ LKRCF YCA FP+D+EF E EL+ LW+A G+I+    N+Q++
Sbjct: 411  ECGIIPALRLSYHHLPAQLKRCFVYCATFPQDYEFKETELILLWMAEGLIQPLEGNKQME 470

Query: 439  DLGSQCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLE---EDNSSSRRF 495
            DLG++ F +LVSRS FQR+G G S+F MHDL+  LAQ V+G+  F LE   E N +    
Sbjct: 471  DLGAEYFRELVSRSFFQRSGNGGSQFVMHDLISDLAQSVAGQLCFNLEDKLEHNKNHIIS 530

Query: 496  ERVRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKL 555
               RH SY   + +   KF+   E+E LRTF+ L        C +TS V   L PK + L
Sbjct: 531  RDTRHVSYNRCKYEIFKKFEALNEVEKLRTFIALPIYGGPSWCNLTSKVFSCLFPKLRYL 590

Query: 556  RLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKL 615
            R LSL GY I ELP    DL+ LRYLNL+ T I  LPES   L NL+ LIL  C  L  L
Sbjct: 591  RALSLSGYSIKELPNSVGDLKHLRYLNLSRTAIERLPESISELYNLQALILCQCRYLAML 650

Query: 616  PSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKF 675
            P  I  L++L HLDI    +LK+MP  +  L NLQTLS F+V K   ++S  E  K++  
Sbjct: 651  PKSIGNLVDLRHLDITDTRMLKKMPPHLGNLVNLQTLSKFIVEKNNSSSSIKELKKLMSK 710

Query: 676  LSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPY 735
            + G L ISGL NV D+++A +  L  K N++ L++EWG+ FD++R+E  E QVL +LQP+
Sbjct: 711  IRGTLSISGLHNVVDAQDAMDVDLKGKHNIKDLTMEWGNDFDDTRNEQNEMQVLELLQPH 770

Query: 736  KFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMT 795
            K +++LTI  YGG  FP WIG+P FS M  L L  C NCT LPSLG LSSL++L I+ M+
Sbjct: 771  KNLEKLTISFYGGGIFPSWIGNPSFSLMVQLCLKGCRNCTLLPSLGQLSSLKNLRIQGMS 830

Query: 796  NLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECP 855
             +K+I  EF+G    E FQSLE L+F  +PEWE W +    +E   +FPRL++L + ECP
Sbjct: 831  GIKNIDVEFYGPNV-ESFQSLESLTFSDMPEWEEWRSPSFIDEE-RLFPRLRELKMTECP 888

Query: 856  ELSGKVPELLPSLKTLVVSKCQK--LKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKS 913
            +L   +P++LP L  L +  C +  L    + +  L  LE  +CKE+          +KS
Sbjct: 889  KLIPPLPKVLP-LHELKLEACNEEVLGRIAADFNSLAALEIGDCKEVRWLRLEKLGGLKS 947

Query: 914  MTI----------------SNSSLDINGCEGM------LHASRTSSSLL--QTETISNAL 949
            +T+                S   L+I GCE +      L + R+++ L+  +   + N L
Sbjct: 948  LTVCGCDGLVSLEEPALPCSLEYLEIEGCENLEKLPNELQSLRSATELVIRRCPKLMNIL 1007

Query: 950  D-FFPRNLRYLIISEISTLRSLPEEIM------DNNSR---LESLYIGYCGSLKFVTKGK 999
            +  +P  LR L +S+   +++LP + M      DN +    LE + I  C SL F  KG+
Sbjct: 1008 EKGWPPMLRKLEVSDCEGIKALPGDWMMMRMDGDNTNSSCVLERVEIRRCPSLLFFPKGE 1067

Query: 1000 LPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKG--LH 1057
            LP+SLK L           IR C  +  L  GI     LE L+I  C  L S P G    
Sbjct: 1068 LPTSLKQL----------IIRYCENVKSLPEGIMRNCNLEQLYIGGCSSLTSFPSGELTS 1117

Query: 1058 KLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSI 1117
             L+ + I  C +L  L    +PN ++++ I  C+ L    + +  L SL+ L I  CPS+
Sbjct: 1118 TLKRLNIWNCGNL-ELPPDHMPN-LTYLNIEGCKGLKH--HHLQNLTSLECLYITGCPSL 1173

Query: 1118 LSFSEEG--FPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEEC--HDAESFPD 1173
             S  E G  F  NL+ + I      K+   + +WGL+RL SL  L+I      +  SF  
Sbjct: 1174 ESLPEGGLGFAPNLRFVTIVNC--EKLKTPLSEWGLNRLLSLKVLTIAPGGYQNVVSFSH 1231

Query: 1174 --EEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSF-PEVGLPS 1230
              ++  + LP SLT L +     L+ ++S+   +L SLE L I +CP L  F P+ GLP+
Sbjct: 1232 GHDDCHLRLPTSLTDLHIGNFQNLESMASLPLPTLVSLERLYIRNCPKLQQFLPKEGLPA 1291

Query: 1231 SLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKI 1266
            +L  LEI  CP + K+C ++ G++W  IA IP + I
Sbjct: 1292 TLGWLEIWGCPIIEKRCLKNGGEDWPHIAHIPVIDI 1327

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359479319|ref|XP_003632256.1| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  863 bits (2231), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 541/1376 (39%), Positives = 779/1376 (56%), Gaps = 130/1376 (9%)

Query: 2    AELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTD 61
            AE  LSAFL+ +F +  SP L+++ R L+  V S   +W + L  I+AVL DAEEK + +
Sbjct: 4    AEAALSAFLEAVFTKFLSPQLWSYARFLE--VDSTFEEWRKTLLGIEAVLNDAEEKHIRE 61

Query: 62   EAVKMWLDDLQDLACDAEDILDEFATQALE--------------HKLMAEGLDQPGSSKL 107
            + VK+WLDDL+ LA D ED+LDEF T+A +               KL+       GS  L
Sbjct: 62   KGVKVWLDDLKALAYDMEDVLDEFDTEAKQPKPMGGPQITITKVQKLIPTCCSSSGSGAL 121

Query: 108  --------------------CKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVVFGR 147
                                 K++ +L L+    G S+  A +R+  ++S      ++GR
Sbjct: 122  ILNENMNRTIKRITKELEAIAKRKFDLPLREDVRGLSN--ATERKLQTTSSVDGSGIYGR 179

Query: 148  EEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWV 207
            + DK KI+E++L+D     +  +VIPIVGMGGIGKTTLA+ +YND+ V++   F++  W 
Sbjct: 180  DSDKEKIIELLLSDEKTRDSKISVIPIVGMGGIGKTTLAQMIYNDERVKN--HFEMGIWA 237

Query: 208  CVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLW 267
            CVSD FDV  I+KA+LES+T  + D+K ++ +Q  LK  + GK+F LVLDDVWNE+Y  W
Sbjct: 238  CVSDQFDVTRITKAVLESVTKTSYDIKNLELLQDSLKNELKGKKFFLVLDDVWNENYHNW 297

Query: 268  VDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHN 327
              L+ PF   A  S +I+TTRN  VA  M  +  ++L  L  ++CW +F  HAF   + +
Sbjct: 298  DVLQVPFKVGAQGSAIIVTTRNEEVAYLMSTLPSHHLGELSSEECWLLFAQHAFANINSD 357

Query: 328  ALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTT-YDMWDDILDSKIWDLPRQ-SSILPV 385
                 E   +K+  KC GLPLAAKTLGGLLR+    + W+D+L+ KIW LP++ S ILP 
Sbjct: 358  VRRSLEPIGRKIARKCKGLPLAAKTLGGLLRSKQDSEAWNDVLNCKIWALPKEKSGILPS 417

Query: 386  LRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCF 445
            LRLSYH+LP+ LKRCFAYC+IFPKD+E+++++LV LW+A G++  S + E ++ +G  CF
Sbjct: 418  LRLSYHYLPTQLKRCFAYCSIFPKDYEYEKQKLVLLWMAEGLLDDSGSGETMEKVGDMCF 477

Query: 446  HDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYAC 505
             +L+ RS FQ++G   S + MH+L+H L+Q VSGE   R+E      +  E+VRHSSY  
Sbjct: 478  RNLLMRSFFQQSGRDKSLYLMHELMHELSQFVSGEFCLRMEA-GKHQKNPEKVRHSSYLR 536

Query: 506  GELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYI 565
               DG  KF    E  +LRTFLPL+ +  +  CY+T  VL  +LP  K LR+LSL  Y I
Sbjct: 537  ETYDGSEKFDFLREAYNLRTFLPLNMSFEVEACYLTHKVLVHMLPTLKCLRVLSLSHYQI 596

Query: 566  GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINL 625
             +LP    +LR LRYL+++ T I+ + ES  +L+NL+ L+L +C  + +LP  +  LINL
Sbjct: 597  TDLPDSIGNLRHLRYLDISYTAIKKISESVSTLVNLQTLVLSHCYHMNELPKNMGNLINL 656

Query: 626  CHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGL 685
             HL+  G   LK MP  MK+LKNLQTLS FVVGK     S + +L+ L  L G L I  L
Sbjct: 657  RHLENSGTS-LKGMPMEMKKLKNLQTLSAFVVGK--HYGSSIRELRDLFCLGGTLSILNL 713

Query: 686  QNVNDSKNAREAALCEKLNLEALSLEWGSQFDN-SRDEVAEEQVLGVLQPYKFVKELTIK 744
            +NV D+ +AREA + +K NL+ L L+W    +N + D   E  VL  LQP+K +K+LTI 
Sbjct: 714  ENVVDAVDAREANVKDKKNLDELVLKWKDNDNNIAVDSQNEASVLEHLQPHKKLKKLTID 773

Query: 745  RYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEF 804
             Y G+ FP W+G+P F+ M  L L  C NC  LP LG L +L+ L++     +K +G EF
Sbjct: 774  CYSGSNFPDWLGEPSFTNMVFLHLSKCKNCPYLPPLGQLPNLKSLSVVHFDAVKRVGAEF 833

Query: 805  FGK--CFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVP 862
            +G     ++PF SLE L FE +PEWE W   V      E FP LQKL I +CP+L+  +P
Sbjct: 834  YGNDSSSAKPFGSLETLMFEEMPEWEEW---VPLRIQGEEFPCLQKLCIRKCPKLTRDLP 890

Query: 863  ELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMT------- 915
              L SL+ L +S+C++L  SL + P +C ++  EC  ++  +      + S++       
Sbjct: 891  CRLSSLRQLEISECRQLVVSLPTVPSICEVKLHECDNVVLESAFHLTSVSSLSASKIFNM 950

Query: 916  -------ISNSSLDIN-------------GCEGM------LH--ASRTSSSLLQTETISN 947
                   I+ SS+ +               C  +      LH   S     + Q  ++ +
Sbjct: 951  THLPGGQITTSSIQVGLQHLRSLVELHLCNCPRLKELPPILHMLTSLKRLEIRQCPSLYS 1010

Query: 948  ALDF-FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKS 1006
              +   P  L  L I     L+SLPE +  NN+ L+ LYI  C SL+   +     SLK+
Sbjct: 1011 LPEMGLPSMLERLEIGGCDILQSLPEGMTFNNAHLQELYIRNCSSLRTFPR---VGSLKT 1067

Query: 1007 LQIEN-----------------LTLESLKIRD-CPQLTCLSSGIHLLEALEDLHIRNCPK 1048
            L I                    +LE+  + + C  L     G      L+ L+I NC  
Sbjct: 1068 LSISKCRKLEFPLPEEMAHNSYASLETFWMTNSCDSLRSFPLG--FFTKLKYLNIWNCEN 1125

Query: 1049 LES--IPKGLH-----KLRSIYIKKCPSLVSLAEKGLPN-TISHVTISYCEKLDALPNGM 1100
            LES  IP+GLH      L +++I  CP+ VS  + GLP   +    +  CEKL +LP+ +
Sbjct: 1126 LESLAIPEGLHHEDLTSLETLHICNCPNFVSFPQGGLPTPNLRFFRVFNCEKLKSLPHQL 1185

Query: 1101 H-KLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIG 1159
            H +L SL+ + + +CP ++SF E G P NL  + I      K+     +W L R  SL  
Sbjct: 1186 HTQLPSLEVMVLYKCPEVVSFPEGGLPPNLSFLEI--SYCNKLIACRTEWRLQRHPSLET 1243

Query: 1160 LSI----EECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIE 1215
             +I    +E    ESFP+E    +LP++LT L +  L  +K L   G + LTSL+ L I 
Sbjct: 1244 FTIRGGFKEEDRLESFPEEG---LLPSTLTSLRICNLP-MKSLGKEGLRRLTSLKSLEIY 1299

Query: 1216 DCPNLTSFPEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFI 1271
             CP++ SFP+ GLP  L  L I +C +L+K C+RD+GKEW KIA IPC++IDD+ I
Sbjct: 1300 SCPDIKSFPQDGLPICLSFLTINHCRRLKKGCQRDKGKEWHKIAHIPCIEIDDEVI 1355

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449872|ref|XP_002265429.1| PREDICTED: putative disease resistance protein At3g14460 [Vitis vinifera]

 Score =  863 bits (2230), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 552/1343 (41%), Positives = 782/1343 (58%), Gaps = 96/1343 (7%)

Query: 1    MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLT 60
            +AE + S+F+ VL D+L +  L  + R+ +  V   L +W + L  I+AV+ DAE KQ+ 
Sbjct: 3    VAEAVGSSFIGVLIDKLIASPLLEYARRKK--VDRTLEEWRKTLTHIEAVVDDAENKQIR 60

Query: 61   DEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSSK-------------- 106
            ++AVK+WLDDL+ LA D ED++DEF T+A + + + EG  Q  +SK              
Sbjct: 61   EKAVKVWLDDLKSLAYDIEDVVDEFDTEA-KQRSLTEG-PQASTSKVRKLIPTFGALDPR 118

Query: 107  ---------------------LCKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVVF 145
                                 + K+R++L L+   GG S     + R P++S+  E  + 
Sbjct: 119  AMSFNKKMGEKINKITRELDAIAKRRLDLHLREGVGGVS--FGIEERLPTTSLVDESRIH 176

Query: 146  GREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKA 205
            GR+ DK KI+E++L+D A      +VI IVGMGGIGKTTLA+ +YND  VE+   F+ + 
Sbjct: 177  GRDADKEKIIELMLSDEATQVDKVSVISIVGMGGIGKTTLAQIIYNDGRVEN--HFEKRV 234

Query: 206  WVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYS 265
            WVCVSDDFDV+ I+KA+LESIT   C+ KT++ +Q +LK  +  KRFLLVLDDVWNE   
Sbjct: 235  WVCVSDDFDVVGITKAILESITKCPCEFKTLESLQEKLKNEMKDKRFLLVLDDVWNEKTP 294

Query: 266  LWVDLKAPFLAAAPNSKMIITTRNSHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGR 324
             W  L+APF  AA  S +++TTRN  VA+ M      + L  L ++ CW +F   A    
Sbjct: 295  RWDLLQAPFNVAARGSVVLVTTRNETVAAIMRTTTSSHQLGQLAEEQCWLLFAQTALTNL 354

Query: 325  DHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTT-YDMWDDILDSKIWDLPR-QSSI 382
            D N  +  ES  +K+  KC GLPL AKTLGGLL +      W+++L+++IWDL   QSSI
Sbjct: 355  DSNECQNLESTGRKIAKKCKGLPLVAKTLGGLLHSNQDITAWNEVLNNEIWDLSNEQSSI 414

Query: 383  LPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGS 442
            LP L LSYH+LP+ LKRCFAYC+IFPKD+ F+ ++LV LW+A G +  S   E ++  G 
Sbjct: 415  LPALNLSYHYLPTTLKRCFAYCSIFPKDYVFEREKLVLLWMAEGFLDGSKRGETIEQFGR 474

Query: 443  QCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSS 502
            +CF+ L+ RS FQ+     S+F MHDL+H LAQ  SG+  FRLE +  +    E +RHSS
Sbjct: 475  KCFNSLLLRSFFQQYDNNDSQFVMHDLIHDLAQFTSGKFCFRLEVEQQNQISKE-IRHSS 533

Query: 503  YACGELDGRNKFKVFYEIEHLRTFLPLH-KTDYIITCYITSMVLYDLLPKFKKLRLLSLQ 561
            Y         + K+F  I +LRTFLPL   ++ + T Y++  + + LL   + LR+LSL 
Sbjct: 534  YTWQHFKVFKEAKLFLNIYNLRTFLPLPLYSNLLSTLYLSKEISHCLLSTLRCLRVLSLS 593

Query: 562  GYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRR 621
             Y I ELP   E+L+ LRYL+L+ T IR+LPES  +L NL+ L+L  C  L+ LP+K+ R
Sbjct: 594  HYDIKELPHSIENLKHLRYLDLSHTRIRTLPESITTLFNLQTLMLSECRFLVDLPTKMGR 653

Query: 622  LINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELC 681
            LINL HL I G I L+ MP  M  +KNL+TL+ FVVGK   T S + +L+ L  L+G L 
Sbjct: 654  LINLRHLKIDG-IKLERMPMEMSRMKNLRTLTAFVVGK--HTGSRVGELRDLSHLTGTLA 710

Query: 682  ISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKEL 741
            I  LQNV D+++A E+ +  K  L+ L L W      + D      VL  LQP+  +KEL
Sbjct: 711  IFKLQNVADARDALESNMKGKECLDKLELNWEDDNAIAGDSHDAASVLEKLQPHSNLKEL 770

Query: 742  TIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIG 801
            +I  Y GA+FP W+G+P F  M  L+L +C NC SLP LG L SL++L+I +   L+ +G
Sbjct: 771  SIGCYYGAKFPSWLGEPSFINMVRLQLSNCKNCASLPPLGQLRSLQNLSIVKNDVLQKVG 830

Query: 802  CEFFGKCFS--EPFQSLEILSFEYLPEWERWDT-NVDRNEHVEIFPRLQKLSIVECPELS 858
             EF+G   S  +PF SL+ L F+ +  WE WD   V+  E    FP L +L I  CP+L 
Sbjct: 831  QEFYGNGPSSFKPFGSLQTLVFKEISVWEEWDCFGVEGGE----FPHLNELRIESCPKLK 886

Query: 859  GKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISN 918
            G +P+ LP L +LV+ +C +L   L   P + +L   EC E++ R+ +    I  + +SN
Sbjct: 887  GDLPKHLPVLTSLVILECGQLVCQLPEAPSIQKLNLKECDEVVLRSVVHLPSITELEVSN 946

Query: 919  -SSLDINGCEGMLHASRTSSSLL-QTETISNALDF-FPRNLRYLIISEISTLRSLPEEIM 975
              S+ +     +L  +     ++ + +++S+  +   P  L  L I +   L +LPE + 
Sbjct: 947  ICSIQVELPTILLKLTSLRKLVIKECQSLSSLPEMGLPPMLETLRIEKCHILETLPEGMT 1006

Query: 976  DNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRD------CPQLTCL- 1028
             NN+ L+SLYI  C SL   T   + SSLKSL+I+      L + +       P LT L 
Sbjct: 1007 LNNTSLQSLYIEDCDSL---TSLPIISSLKSLEIKQCGKVELPLPEETSHNYYPWLTSLH 1063

Query: 1029 ---------SSGIHLLEALEDLHIRNCPKLES--IPKGLHK-----LRSIYIKKCPSLVS 1072
                     S  +     LE L+I  C  LES  IP GL       LR I I  CP+LVS
Sbjct: 1064 IDGSCDSLTSFPLAFFTKLETLYI-GCENLESFYIPDGLRNMDLTSLRRIEIYDCPNLVS 1122

Query: 1073 LAEKGLP-NTISHVTISYCEKLDALPNGMHK-LQSLQYLKIKECPSILSFSEEGFPTNLK 1130
              + GLP + + ++ I  C KL +LP  MH  L SL+ L I +CP I+SF E G PTNL 
Sbjct: 1123 FPQGGLPASNLRNLEIWVCMKLKSLPQRMHTLLTSLENLTIDDCPEIVSFPEGGLPTNLS 1182

Query: 1131 LIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDA--ESFPDEEMRMMLPASLTFLI 1188
             + I      K+ ++  +WGL  L SL  L I    +   ESF +E   ++LP++L  L 
Sbjct: 1183 SLYIWDCY--KLMESRKEWGLQTLPSLGRLVIAGGTEEGLESFSEE--WLLLPSTLFSLE 1238

Query: 1189 LRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKLRKQCK 1248
            +R    LK L ++G ++LTSLE L+I DC  L SFP+ GLP+SL  LEI  CP L+K+C+
Sbjct: 1239 IRSFPDLKSLDNLGLENLTSLERLVISDCVKLKSFPKQGLPASLSILEIHRCPVLKKRCQ 1298

Query: 1249 RDRGKEWSKIARIPCVKIDDKFI 1271
            RD+GKEW KIA IP +K+D + +
Sbjct: 1299 RDKGKEWRKIAHIPRIKMDGEVM 1321

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147798820|emb|CAN67609.1| hypothetical protein VITISV_007076 [Vitis vinifera]

 Score =  863 bits (2229), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 541/1376 (39%), Positives = 779/1376 (56%), Gaps = 130/1376 (9%)

Query: 2    AELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTD 61
            AE  LSAFL+ +F +  SP L+++ R L+  V S   +W + L  I+AVL DAEEK + +
Sbjct: 4    AEAALSAFLEAVFTKFLSPQLWSYARFLE--VDSTFEEWRKTLLGIEAVLNDAEEKHIRE 61

Query: 62   EAVKMWLDDLQDLACDAEDILDEFATQALE--------------HKLMAEGLDQPGSSKL 107
            + VK+WLDDL+ LA D ED+LDEF T+A +               KL+       GS  L
Sbjct: 62   KGVKVWLDDLKALAYDMEDVLDEFDTEAKQPKPMGGPQITITKVQKLIPTCCSSSGSGAL 121

Query: 108  --------------------CKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVVFGR 147
                                 K++ +L L+    G S+  A +R+  ++S      ++GR
Sbjct: 122  ILNENMNRTIKRITKELEAIAKRKFDLPLREDVRGLSN--ATERKLQTTSSVDGSGIYGR 179

Query: 148  EEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWV 207
            + DK KI+E++L+D     +  +VIPIVGMGGIGKTTLA+ +YND+ V++   F++  W 
Sbjct: 180  DSDKEKIIELLLSDEKTRDSKISVIPIVGMGGIGKTTLAQMIYNDERVKN--HFEMGIWA 237

Query: 208  CVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLW 267
            CVSD FDV  I+KA+LES+T  + D+K ++ +Q  LK  + GK+F LVLDDVWNE+Y  W
Sbjct: 238  CVSDQFDVTRITKAVLESVTKTSYDIKNLELLQDSLKNELKGKKFFLVLDDVWNENYHNW 297

Query: 268  VDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHN 327
              L+ PF   A  S +I+TTRN  VA  M  +  ++L  L  ++CW +F  HAF   + +
Sbjct: 298  DVLQVPFKVGAQGSAIIVTTRNEEVAYLMSTLPSHHLGELSSEECWLLFAQHAFANINSD 357

Query: 328  ALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTT-YDMWDDILDSKIWDLPRQ-SSILPV 385
                 E   +K+  KC GLPLAAKTLGGLLR+    + W+D+L+ KIW LP++ S ILP 
Sbjct: 358  VRRSLEPIGRKIARKCKGLPLAAKTLGGLLRSKQDSEAWNDVLNCKIWALPKEKSGILPS 417

Query: 386  LRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCF 445
            LRLSYH+LP+ LKRCFAYC+IFPKD+E+++++LV LW+A G++  S + E ++ +G  CF
Sbjct: 418  LRLSYHYLPTQLKRCFAYCSIFPKDYEYEKQKLVLLWMAEGLLDDSGSGETMEKVGDMCF 477

Query: 446  HDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYAC 505
             +L+ RS FQ++G   S + MH+L+H L+Q VSGE   R+E      +  E+VRHSSY  
Sbjct: 478  RNLLMRSFFQQSGRDKSLYLMHELMHELSQFVSGEFCLRMEA-GKHQKNPEKVRHSSYLR 536

Query: 506  GELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYI 565
               DG  KF    E  +LRTFLPL+ +  +  CY+T  VL  +LP  K LR+LSL  Y I
Sbjct: 537  ETYDGSEKFDFLREAYNLRTFLPLNMSFEVEACYLTHKVLVHMLPTLKCLRVLSLSHYQI 596

Query: 566  GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINL 625
             +LP    +LR LRYL+++ T I+ + ES  +L+NL+ L+L +C  + +LP  +  LINL
Sbjct: 597  TDLPDSIGNLRHLRYLDISYTAIKKISESVSTLVNLQTLVLSHCYHMNELPKNMGNLINL 656

Query: 626  CHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGL 685
             HL+  G   LK MP  MK+LKNLQTLS FVVGK     S + +L+ L  L G L I  L
Sbjct: 657  RHLENSGTS-LKGMPMEMKKLKNLQTLSAFVVGK--HYGSSIRELRDLFCLGGTLSILNL 713

Query: 686  QNVNDSKNAREAALCEKLNLEALSLEWGSQFDN-SRDEVAEEQVLGVLQPYKFVKELTIK 744
            +NV D+ +AREA + +K NL+ L L+W    +N + D   E  VL  LQP+K +K+LTI 
Sbjct: 714  ENVVDAVDAREANVKDKKNLDELVLKWKDNDNNIAVDSQNEASVLEHLQPHKKLKKLTID 773

Query: 745  RYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEF 804
             Y G+ FP W+G+P F+ M  L L  C NC  LP LG L +L+ L++     +K +G EF
Sbjct: 774  CYSGSNFPDWLGEPSFTNMVFLHLSKCKNCPYLPPLGQLPNLKSLSVVHFDAVKRVGAEF 833

Query: 805  FGK--CFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVP 862
            +G     ++PF SLE L FE +PEWE W   V      E FP LQKL I +CP+L+  +P
Sbjct: 834  YGNDSSSAKPFGSLETLMFEEMPEWEEW---VPLRIQGEEFPCLQKLCIRKCPKLTRDLP 890

Query: 863  ELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMT------- 915
              L SL+ L +S+C++L  SL + P +C ++  EC  ++  +      + S++       
Sbjct: 891  CRLSSLRQLEISECRQLVVSLPTVPSICEVKLHECDNVVLESAFHLTSVSSLSASKIFNM 950

Query: 916  -------ISNSSLDIN-------------GCEGM------LH--ASRTSSSLLQTETISN 947
                   I+ SS+ +               C  +      LH   S     + Q  ++ +
Sbjct: 951  THLPGGQITTSSIQVGLQHLRSLVELHLCNCPRLKELPPILHMLTSLKRLEIRQCPSLYS 1010

Query: 948  ALDF-FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKS 1006
              +   P  L  L I     L+SLPE +  NN+ L+ LYI  C SL+   +     SLK+
Sbjct: 1011 LPEMGLPSMLERLEIGGCDILQSLPEGMTFNNAHLQELYIRNCSSLRTFPR---VGSLKT 1067

Query: 1007 LQIEN-----------------LTLESLKIRD-CPQLTCLSSGIHLLEALEDLHIRNCPK 1048
            L I                    +LE+  + + C  L     G      L+ L+I NC  
Sbjct: 1068 LSISKCRKLEFPLPEEMAHNSYASLETFWMTNSCDSLRSFPLG--FFTKLKYLNIWNCEN 1125

Query: 1049 LES--IPKGLH-----KLRSIYIKKCPSLVSLAEKGLPN-TISHVTISYCEKLDALPNGM 1100
            LES  IP+GLH      L +++I  CP+ VS  + GLP   +    +  CEKL +LP+ +
Sbjct: 1126 LESLAIPEGLHHEDLTSLETLHICNCPNFVSFPQGGLPTPNLRFFRVFNCEKLKSLPHQL 1185

Query: 1101 H-KLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIG 1159
            H +L SL+ + + +CP ++SF E G P NL  + I      K+     +W L R  SL  
Sbjct: 1186 HTQLPSLEVMVLYKCPEVVSFPEGGLPPNLSFLEI--SYCNKLIACRTEWRLQRHPSLET 1243

Query: 1160 LSI----EECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIE 1215
             +I    +E    ESFP+E    +LP++LT L +  L  +K L   G + LTSL+ L I 
Sbjct: 1244 FTIRGGFKEEDRLESFPEEG---LLPSTLTSLRICNLP-MKSLGKEGLRRLTSLKSLEIY 1299

Query: 1216 DCPNLTSFPEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFI 1271
             CP++ SFP+ GLP  L  L I +C +L+K C+RD+GKEW KIA IPC++IDD+ I
Sbjct: 1300 SCPDIKSFPQDGLPICLSFLTINHCRRLKKGCQRDKGKEWHKIAHIPCIEIDDEVI 1355

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495024|ref|XP_002267933.2| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  862 bits (2228), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 557/1406 (39%), Positives = 776/1406 (55%), Gaps = 185/1406 (13%)

Query: 1    MAELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLT 60
            + E  LSA +  L D LA PDL  F R+ Q  V +EL+KWE  L  I AVL DAEEKQ+T
Sbjct: 4    VGEAFLSASIQKLVDMLACPDLRKFAREEQ--VHAELKKWEGILLKIHAVLHDAEEKQMT 61

Query: 61   DEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLDQPGSS--------------- 105
            +  V++WL +L+DLA D EDILD+FAT+AL   L+ +   QP +S               
Sbjct: 62   NRFVQIWLAELRDLAYDVEDILDDFATEALRRNLIKDD-PQPSTSTVRSLISSLSSRFNP 120

Query: 106  ---------------------KLCKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVV 144
                                 ++  Q+ +L L+    G S     +R P ++S+  E  V
Sbjct: 121  NALVYNLNMGSKIEEITARLHEISTQKGDLDLRENVEGRSHRKR-KRVPETASLVVESRV 179

Query: 145  FGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVK 204
            +GRE DK  ILE++L D         VIPIVGMGG+GKTTLA+  YND  V++   FD++
Sbjct: 180  YGRETDKEAILEVLLRDELIHDNEVCVIPIVGMGGVGKTTLAQLAYNDDRVKN--HFDLR 237

Query: 205  AWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDY 264
            AWVCVSDDFDVL I+K LL+SI S T ++  ++ +QV++K+ + GK+FLLVLDDVWNE+Y
Sbjct: 238  AWVCVSDDFDVLRITKTLLQSIASYTREINDLNLLQVKMKEKLSGKKFLLVLDDVWNENY 297

Query: 265  SLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGR 324
              W  L  P  A  P SK+IITTRN  VA+    +  Y L+ L +DDC ++F  HA   R
Sbjct: 298  DKWDSLCTPLRAGGPGSKVIITTRNMGVATLTRTVSPYLLQELSNDDCRAVFAQHALGAR 357

Query: 325  DHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTT-TYDMWDDILDSKIWDLPRQ-SSI 382
            +  A    +   +++V +C GLPL AK LGG+LR    ++ WDDIL SKIWDLP + S +
Sbjct: 358  NFEAHPHLKIIGEEMVNRCRGLPLVAKALGGILRNELNHEAWDDILKSKIWDLPEEKSGV 417

Query: 383  LPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGS 442
            LP L+LSYHHLPSHLK+CFAYCAIFPK +EF + EL+ LW+  G ++Q+   ++++DLGS
Sbjct: 418  LPALKLSYHHLPSHLKQCFAYCAIFPKGYEFKKDELILLWMGEGFLQQTKGKKRMEDLGS 477

Query: 443  QCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEED-NSSSRRFERVRHS 501
            + F +L+SRS FQ++     +F MHDL+H LAQ ++G     LE+   ++   F++ RH 
Sbjct: 478  KYFSELLSRSFFQQSSNIMPRFMMHDLIHDLAQSIAGNVCLNLEDKLENNENIFQKARHL 537

Query: 502  SYACGELDGRNKFKVFYEIEHLRTF--LPLHKTDYIITCYITSMVLYDLLPKFKKLRLLS 559
            S+     +   KF+V  + ++LRTF  LP+  +      +IT+ V +DLL + K LR+LS
Sbjct: 538  SFIRQANEIFKKFEVVDKGKYLRTFLALPISVSFMKSLSFITTKVTHDLLMEMKCLRVLS 597

Query: 560  LQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKI 619
            L GY + +LP   ++L  LRYLNL  + I+ LP S   L NL+ LILR+C SL ++P  +
Sbjct: 598  LSGYKMSDLPSSIDNLSHLRYLNLCRSSIKRLPNSVGHLYNLQTLILRDCWSLTEMPVGM 657

Query: 620  RRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGE 679
              LINL HLDI G   L+EMP  M  L NLQTLS F+VGKG    S +++LK L  L GE
Sbjct: 658  GNLINLRHLDIAGTSQLEEMPPRMGSLTNLQTLSKFIVGKG--NGSSIQELKHLLDLQGE 715

Query: 680  LCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVK 739
            L I GL NV ++++A +A L  K ++E L++ W   FD+SR+E+ E  VL +LQP + +K
Sbjct: 716  LSIQGLHNVRNTRDAMDACLKNKCHIEELTMGWSGDFDDSRNELNEMLVLELLQPQRNLK 775

Query: 740  ELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKS 799
            +LT++ YGG +FP WIG+P FSKM  L L +C  CTSLP LG LS L+ L I+ M  +K+
Sbjct: 776  KLTVEFYGGPKFPSWIGNPSFSKMESLTLKNCGKCTSLPCLGRLSLLKALRIQGMCKVKT 835

Query: 800  IGCEFFGKC-FSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELS 858
            IG EFFG+    +PF  LE L FE +PEWE W  +    E   +F  L++L I ECP+L+
Sbjct: 836  IGDEFFGEVSLFQPFPCLESLRFEDMPEWEDWCFSDMVEECEGLFSCLRELRIRECPKLT 895

Query: 859  GKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISN 918
            G +P  LPSL  L + +C KLK +L     +C L   EC E++ R  +D   + ++ I  
Sbjct: 896  GSLPNCLPSLAELEIFECPKLKAALPRLAYVCSLNVVECNEVVLRNGVDLSSLTTLNIQR 955

Query: 919  ---------------------------------------------SSLDINGCEGM--LH 931
                                                          S+DI  C G+  L 
Sbjct: 956  ISRLTCLREGFTQLLAALQKLVIRGCGEMTSLWENRFGLECLRGLESIDIWQCHGLVSLE 1015

Query: 932  ASRTSSSL--LQTETISNALDFFPRNLRYLIISEISTLRSLPE----------------- 972
              R   +L  L+ E  +N L   P  L+ L   E  +L+S P+                 
Sbjct: 1016 EQRLPCNLKHLKIENCAN-LQRLPNGLQRLTCLEELSLQSCPKLESFPEMGLPPMLRSLV 1074

Query: 973  -------EIMDNNSR---LESLYIGYCGSLKFVTKGKLPSSLKSLQI----------ENL 1012
                   +++ +N     LE L I +C  L    +G+LP+SLK L+I          E +
Sbjct: 1075 LQKCNTLKLLPHNYNSGFLEYLEIEHCPCLISFPEGELPASLKQLKIKDCANLQTLPEGM 1134

Query: 1013 T------------LESLKIRDCPQLTCLSSG------------------------IHLLE 1036
            T            LE L+IR C  L  L +G                        +H   
Sbjct: 1135 THHNSMVSNNSCCLEVLEIRKCSSLPSLPTGELPSTLKRLEIWDCRQFQPISEKMLHSNT 1194

Query: 1037 ALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPN-TISHVTISYCEKLDA 1095
            ALE L I N P ++ +P  LH L  +YI  C  LVS  E+GLP   +  + I+ CE L +
Sbjct: 1195 ALEHLSISNYPNMKILPGFLHSLTYLYIYGCQGLVSFPERGLPTPNLRDLYINNCENLKS 1254

Query: 1096 LPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLT 1155
            LP+ M  L SLQ L I+ C  + SF E G   NL  + I   V+ K+   + +WGLHRLT
Sbjct: 1255 LPHQMQNLLSLQELNIRNCQGLESFPECGLAPNLTSLSIRDCVNLKV--PLSEWGLHRLT 1312

Query: 1156 SLIGLSIEE-CHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLI 1214
            SL  L I   C    S  D+E   +LP +L+ L    +SKL  L  +  ++L+SLE + I
Sbjct: 1313 SLSSLYISGVCPSLASLSDDE--CLLPTTLSKLF---ISKLDSLVCLALKNLSSLERISI 1367

Query: 1215 EDCPNLTSFPEVGLPSSLLSLEIKNC 1240
              CP L S   +GLP +L  LEI++C
Sbjct: 1368 YRCPKLRS---IGLPETLSRLEIRDC 1390

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	1277
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.652	0.790	0.376	1.8e-160
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.823	0.738	0.338	1.4e-148
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.736	0.522	0.283	1.7e-72
TAIR|locus:2037639	907	AT1G58390 "AT1G58390" [Arabido	0.373	0.525	0.304	3.3e-52
TAIR|locus:2176486	908	RPP8 "RECOGNITION OF PERONOSPO	0.462	0.649	0.295	5.4e-51
TAIR|locus:504956184	1017	AT1G58807 "AT1G58807" [Arabido	0.420	0.528	0.279	1.4e-50
TAIR|locus:2827038	1017	AT1G59124 "AT1G59124" [Arabido	0.420	0.528	0.279	1.4e-50
TAIR|locus:2037623	899	AT1G58410 [Arabidopsis thalian	0.505	0.718	0.268	3e-49
TAIR|locus:504956182	1049	AT1G58848 [Arabidopsis thalian	0.535	0.652	0.273	1.4e-48
TAIR|locus:2826978	1049	AT1G59218 [Arabidopsis thalian	0.535	0.652	0.273	1.4e-48

TAIR|locus:2091672 AT3G14470 [Arabidopsis thaliana (taxid:3702)]

 Score = 1373 (488.4 bits), Expect = 1.8e-160, Sum P(3) = 1.8e-160
 Identities = 334/888 (37%), Positives = 506/888 (56%)

Query:   106 KLCKQRIELGLQLIPGGTSSTAAAQRRXXXXXXXXXXXXFGREEDKTKILEMVLTDTAAD 165
             +L  QR  LGL+ +     +    ++R            FGR++DK +I+  ++ +   D
Sbjct:   139 RLASQRNILGLKEL-----TAMIPKQRLPTTSLVDESEVFGRDDDKDEIMRFLIPENGKD 193

Query:   166 HANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLES 225
             +    V+ IVG+GG+GKTTL++ +YND+ V     F  K W  VS++FDV  I+K + ES
Sbjct:   194 NG-ITVVAIVGIGGVGKTTLSQLLYNDQHVRSY--FGTKVWAHVSEEFDVFKITKKVYES 250

Query:   226 ITSATCDLKTVDEVQVQLKKAVDGKR--FLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKM 283
             +TS  C+   +D +QV+LK+ + G    FLLVLDD+WNE+++ W  L+ PF+ AA  S++
Sbjct:   251 VTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDDLWNENFADWDLLRQPFIHAAQGSQI 310

Query:   284 IITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNAL--EISESFRKKVVG 341
             ++TTR+  VAS M  +  +NL+ L D DCWS+F    F G     L  EI +   +++V 
Sbjct:   311 LVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMKTVF-GNQEPCLNREIGD-LAERIVH 368

Query:   342 KCGGLPLAAKTLGGLLRTTTYDM-WDDILDSKIWDLPR-QSSILPVLRLSYHHLPSHLKR 399
             KC GLPLA KTLGG+LR     + W+ +L S+IWDLP  +S++LPVLR+SY++LP+HLKR
Sbjct:   369 KCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRIWDLPADKSNLLPVLRVSYYYLPAHLKR 428

Query:   400 CFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGF 459
             CFAYC+IFPK   F++ ++V LW+A G ++Q+ +++ L++LG++ F +L SRS+ Q+T  
Sbjct:   429 CFAYCSIFPKGHAFEKDKVVLLWMAEGFLQQTRSSKNLEELGNEYFSELESRSLLQKT-- 486

Query:   460 GSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYACGELDGRNKFKVFYE 519
               +++ MHD ++ LAQ  SGE   + E D    +  ER R+ SY         +F+   E
Sbjct:   487 -KTRYIMHDFINELAQFASGEFSSKFE-DGCKLQVSERTRYLSYLRDNYAEPMEFEALRE 544

Query:   520 IEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPF-EDLRLL 578
             ++ LRTFLPL  T+   +C +  MV   LLP   +LR+LSL  Y I  LP  F +++   
Sbjct:   545 VKFLRTFLPLSLTNSSRSCCLDQMVSEKLLPTLTRLRVLSLSHYKIARLPPDFFKNISHA 604

Query:   579 RYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKE 638
             R+L+L+ T++  LP+S C + NL+ L+L  CSSL +LP+ I  LINL +LD+ G   L++
Sbjct:   605 RFLDLSRTELEKLPKSLCYMYNLQTLLLSYCSSLKELPTDISNLINLRYLDLIGT-KLRQ 663

Query:   639 MPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAA 698
             MP     LK+LQTL+ F V       S + +L  L  L G+L I  LQ V D  +A EA 
Sbjct:   664 MPRRFGRLKSLQTLTTFFVS--ASDGSRISELGGLHDLHGKLKIVELQRVVDVADAAEAN 721

Query:   699 LCEKLNLEALSLEWGSQFDNSRDEVA------EEQVLGVLQPYKFVKELTIKRYGGARFP 752
             L  K +L  +   W +   +S +         E +V   L+P++ +++L I+RY G RFP
Sbjct:   722 LNSKKHLREIDFVWRTGSSSSENNTNPHRTQNEAEVFEKLRPHRHIEKLAIERYKGRRFP 781

Query:   753 LWIGDPLFSKMNVLELDDCWNCTXXXXXXXXXXXXXXTIKRMTNLKSIGCEFFGKCFS-- 810
              W+ DP FS++  + L +C  CT               I  M  L+SIG +F+       
Sbjct:   782 DWLSDPSFSRIVCIRLRECQYCTSLPSLGQLPCLKELHISGMVGLQSIGRKFYFSDQQLR 841

Query:   811 ----EPFQSLEILSFEYLPEWERW-DTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELL 865
                 +PF+SLE L F+ LP+W+ W D  V R +   +FP L+KL I+ CPEL+G +P  L
Sbjct:   842 DQDQQPFRSLETLRFDNLPDWQEWLDVRVTRGD---LFPSLKKLFILRCPELTGTLPTFL 898

Query:   866 PSLKTLVVSKCQKLKFSLSSYPMLCR-LEADECKELLCRTPIDSKLIKSMTISNSSLDIN 924
             PSL +L + KC  L F    +    R L+    K   C T +   L     +    L+++
Sbjct:   899 PSLISLHIYKCGLLDFQPDHHEYSYRNLQTLSIKSS-CDTLVKFPLNHFANLDK--LEVD 955

Query:   925 GCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPE 972
              C   L++   S+  L+     NAL    RNLR   I++   L+ LP+
Sbjct:   956 QCTS-LYSLELSNEHLRGP---NAL----RNLR---INDCQNLQLLPK 992

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

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

TAIR|locus:2091662 AT3G14460 [Arabidopsis thaliana (taxid:3702)]

 Score = 1350 (480.3 bits), Expect = 1.4e-148, Sum P(2) = 1.4e-148
 Identities = 383/1132 (33%), Positives = 579/1132 (51%)

Query:   146 GREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKA 205
             GR EDK  ++ ++L+D        AVI +VGM G+GKTTL   V+ND  V +   F+VK 
Sbjct:   170 GRVEDKLALVNLLLSDDEISIGKPAVISVVGMPGVGKTTLTEIVFNDYRVTEH--FEVKM 227

Query:   206 WVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYS 265
             W+    +F+V +++KA+L+ ITS+  + + +  +Q+QLKK + GKRFLLVLDD W+E  S
Sbjct:   228 WISAGINFNVFTVTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDS 287

Query:   266 LWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDH-YNLEHLLDDDCWSIFKTHAFEGR 324
              W   +  F  A   SK+++TTR S + ST+   +  Y ++ + +++CW +    AF   
Sbjct:   288 EWESFQVAFTDAEEGSKIVLTTR-SEIVSTVAKAEKIYQMKLMTNEECWELISRFAFGNI 346

Query:   325 DHNALEIS-ESFRKKVVGKCGGLPLAAKTLGGLLRTTTY-DMWDDILDSKIWDLPRQSSI 382
                ++    E   K++  +C GLPLAA+ +   LR+    D W  +  SK +     +SI
Sbjct:   347 SVGSINQELEGIGKRIAEQCKGLPLAARAIASHLRSKPNPDDWYAV--SKNFS-SYTNSI 403

Query:   383 LPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGS 442
             LPVL+LSY  LP  LKRCFA C+IFPK   FD +ELV LW+A  ++ Q  ++ +L+D+G+
Sbjct:   404 LPVLKLSYDSLPPQLKRCFALCSIFPKGHVFDREELVLLWMAIDLLYQPRSSRRLEDIGN 463

Query:   443 QCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSS 502
                 DLV++S FQR     + F MHDL++ LA+ VSG+  FRLE+DN         RH S
Sbjct:   464 DYLGDLVAQSFFQRLDITMTSFVMHDLMNDLAKAVSGDFCFRLEDDNIPEIP-STTRHFS 522

Query:   503 YACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQG 562
             ++  + D    F+     E LRT LP +    + +  +T  VL  LL     LR+LSL  
Sbjct:   523 FSRSQCDASVAFRSICGAEFLRTILPFNSPTSLESLQLTEKVLNPLLNALSGLRILSLSH 582

Query:   563 YYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRL 622
             Y I  LP   + L+LLRYL+L+ T I+ LPE  C+L NL+ L+L NC  L  LP  I  L
Sbjct:   583 YQITNLPKSLKGLKLLRYLDLSSTKIKELPEFVCTLCNLQTLLLSNCRDLTSLPKSIAEL 642

Query:   623 INLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCI 682
             INL  LD+ G  L+ EMP G+K+L++LQ LSNFV+G+   + +GL +LK L  L G L I
Sbjct:   643 INLRLLDLVGTPLV-EMPPGIKKLRSLQKLSNFVIGR--LSGAGLHELKELSHLRGTLRI 699

Query:   683 SGLQNVNDSKNAREAALCEKLNLEALSLEW---GSQF-DNSRDEVA--EEQVLGVLQPYK 736
             S LQNV  +  A++A L  K  L+ L L+W   GS F   S + +A  +++VL +L+P+ 
Sbjct:   700 SELQNVAFASEAKDAGLKRKPFLDGLILKWTVKGSGFVPGSFNALACDQKEVLRMLEPHP 759

Query:   737 FVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTXXXXXXXXXXXXXXTIKRMTN 796
              +K   I+ Y G  FP W+GD  F  +  + L  C  C               +I++   
Sbjct:   760 HLKTFCIESYQGGAFPKWLGDSSFFGITSVTLSSCNLCISLPPVGQLPSLKYLSIEKFNI 819

Query:   797 LKSIGCEFF-GKCFSE--PFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVE 853
             L+ +G +FF G+  S   PFQSL+IL F  +P W+ W   +       IFP LQKL I  
Sbjct:   820 LQKVGLDFFFGENNSRGVPFQSLQILKFYGMPRWDEW---ICPELEDGIFPCLQKLIIQR 876

Query:   854 CPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKS 913
             CP L  K PE LPS   + +S C  L+ ++S      R       E     P  S+   S
Sbjct:   877 CPSLRKKFPEGLPSSTEVTISDCP-LR-AVSGGENSFRRSLTNIPESPASIPSMSRRELS 934

Query:   914 MTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEIST-LRSLPE 972
                 N   D +       AS + S+     T +++L   P++ +     +  T L SLP+
Sbjct:   935 SPTGNPKSDASTSAQPGFASSSQSNDDNEVTSTSSLSSLPKDRQTEDFDQYETQLGSLPQ 994

Query:   973 EIMDNNSRLESLYIGYCGSLK-----FVTKGKL---PSSLKSLQIENLTLE--SLKIRDC 1022
             +  +  + + + Y GY   +      ++++  L   P +  S+   + + +     I+  
Sbjct:   995 QF-EEPAVISARYSGYISDIPSTLSPYMSRTSLVPDPKNEGSILPGSSSYQYHQYGIKSS 1053

Query:  1023 PQLTCLSSGIHLLEALED------LHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAE- 1075
                   S  I   +  +D      L + +   L  +P+ L   +S++I  C  L SL E 
Sbjct:  1054 VPSPRSSEAIKPSQYDDDETDMEYLKVTDISHLMELPQNL---QSLHIDSCDGLTSLPEN 1110

Query:  1076 --KGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIR 1133
               +  PN +  + I  C  L++ P G H   +L+ L I++C   L+F+E   PT     +
Sbjct:  1111 LTESYPN-LHELLIIACHSLESFP-GSHPPTTLKTLYIRDCKK-LNFTESLQPTR-SYSQ 1166

Query:  1134 IGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFXXXXXXX 1193
             +           ++ + L     L  LSI +C   ESF             TF       
Sbjct:  1167 LEYLFIGSSCSNLVNFPLSLFPKLRSLSIRDC---ESFK------------TFSIHAG-- 1209

Query:  1194 XXXXXXXMGFQSLTSLEHLLIEDCPNLTSFPEVGLPS-SLLSLEIKNCPKLR 1244
                    +G   + +LE L I DCPNL +FP+ GLP+  L S+ + NC KL+
Sbjct:  1210 -------LGDDRI-ALESLEIRDCPNLETFPQGGLPTPKLSSMLLSNCKKLQ 1253

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|O48647 O48647 "XA1" [Oryza sativa (taxid:4530)]

 Score = 756 (271.2 bits), Expect = 1.7e-72, Sum P(2) = 1.7e-72
 Identities = 291/1028 (28%), Positives = 477/1028 (46%)

Query:   145 FGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVK 204
             +GR  +   I ++++++ +       V+PIVG GGIGKTTLA+ V  D  ++   +F+VK
Sbjct:   298 YGRAAEMETIKQLIMSNRSN---GITVLPIVGNGGIGKTTLAQLVCKDLVIKS--QFNVK 352

Query:   205 AWVCVSDDFDVLSISKALLESITSATCD-LKTVDEVQVQLKKAVDGKRFLLVLDDVWNED 263
              WV VSD FDV+ I++ +L+ +++ + + +  +D +Q  L++ +  K+FL+VLDDVW   
Sbjct:   353 IWVYVSDKFDVVKITRQILDHVSNQSHEGISNLDTLQQDLEEQMKSKKFLIVLDDVWEIR 412

Query:   264 YSLWVDLKAPFLA---------AAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWS 314
                W  L AP             A  + +I+TTR   +A ++G +    LE L DDD WS
Sbjct:   413 TDDWKKLLAPLRPNDQVNSSQEEATGNMIILTTRIQSIAKSLGTVQSIKLEALKDDDIWS 472

Query:   315 IFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTT-TYDMWDDILDSKI 373
             +FK HAF    H++    +   K++  +  G PLAAKT+G LL T  T D WD I+ S+ 
Sbjct:   473 LFKVHAFGNDKHDSSPGLQVLGKQIASELKGNPLAAKTVGSLLGTNLTIDHWDSIIKSEE 532

Query:   374 WDLPRQS-SILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSS 432
             W   +Q+  I+  L+LSY HL + L++C +YC++FPK + F + +L+ +WIA G + +SS
Sbjct:   533 WKSLQQAYGIMQALKLSYDHLSNPLQQCVSYCSLFPKGYSFSKAQLIQIWIAQGFVEESS 592

Query:   433 NNEQLKDLGSQCFHDLVSRSIFQR---TGFGSSKFAMHDLVHALAQLVSGETIFRLEEDN 489
               E+L+  G +   +LV+    Q+   T F S  F MHDL+H LAQ VS +T +   + +
Sbjct:   593 --EKLEQKGWKYLAELVNSGFLQQVESTRFSSEYFVMHDLMHDLAQKVS-QTEYATIDGS 649

Query:   490 SSSRRFERVRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTD------YIITCYITSM 543
               +     +RH S        + K++     E     L   K+        +I  Y +  
Sbjct:   650 ECTELAPSIRHLSIVTDSAYRKEKYRNISRNEVFEKRLMKVKSRSKLRSLVLIGQYDSHF 709

Query:   544 VLY--DLLPKFKKLRLLSLQGYYIGELPI--PFEDLRLLRYLNLADTDI-RSLPESSCSL 598
               Y  D   + + LRLL +   Y           +   LRYL +   +  R+LP S    
Sbjct:   710 FKYFKDAFKEAQHLRLLQITATYADSDSFLSSLVNSTHLRYLKIVTEESGRTLPRSLRKY 769

Query:   599 LNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVG 658
              +L++L +     + ++ + I  L++L HL     +       G  ++ +LQ L NF+V 
Sbjct:   770 YHLQVLDIGYRFGIPRISNDINNLLSLRHLVAYDEVCSSIANIG--KMTSLQELGNFIVQ 827

Query:   659 KGGETASGLE--DLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQF 716
                   SG E   LK +  L  +L +S L+NV   + A  A L +K +LE L L W   +
Sbjct:   828 NN---LSGFEVTQLKSMNKLV-QLSVSQLENVRTQEEACGAKLKDKQHLEKLHLSWKDAW 883

Query:   717 DN-SRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKM---NVLE-LDDC 771
             +    DE  E++    +      +EL++    GA+  L     + S++    VLE L+  
Sbjct:   884 NGYDSDESYEDEYGSDMNIETEGEELSVGDANGAQ-SLQHHSNISSELASSEVLEGLEPH 942

Query:   772 WNCTXXXXXXXXXXXXXXTI-KRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERW 830
                                +   +T L+++  E  GK    P + L +L    L +    
Sbjct:   943 HGLKYLRISGYNGSTSPTWLPSSLTCLQTLHLEKCGKWQILPLERLGLLVKLVLIKM--- 999

Query:   831 DTNVDRNEHVEIFPRLQKLSIVECPELSG----KVPELLPSLKTLVVSKCQKLK-FSLSS 885
                  RN      P L++L ++  P L+      +  L  SLK L +  C  LK F L  
Sbjct:  1000 -----RNATELSIPSLEELVLIALPSLNTCSCTSIRNLNSSLKVLKIKNCPVLKVFPL-- 1052

Query:   886 YPMLCRLEADECKELLCRTPIDSKL-IKSMTIS--NSSLDINGCEGMLHASRTSSSLLQT 942
             + +  + E +     L   P  SKL I +  +S  +SSL  +   G     R +      
Sbjct:  1053 FEISQKFEIERTSSWL---PHLSKLTIYNCPLSCVHSSLPPSAISGYGEYGRCTLPQSLE 1109

Query:   943 ETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLK--FVTKGKL 1000
             E   +  ++    L+      ++ LR L   ++  NS L SL +  C +L+   +   + 
Sbjct:  1110 ELYIH--EYSQETLQPCFSGNLTLLRKL--HVL-GNSNLVSLQLHSCTALEELIIQSCES 1164

Query:  1001 PSSLKSLQI-ENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPK--LESIPKG-L 1056
              SSL  LQ+  NL L  L+   C           L ++LE+L+I    +  L+    G L
Sbjct:  1165 LSSLDGLQLLGNLRL--LRAHRCLSGHGEDGRCILPQSLEELYIHEYSQETLQPCFSGNL 1222

Query:  1057 HKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPS 1116
               LR +++    +LVSL        +  + I  CE L +L +G+  L +L+ L+   C S
Sbjct:  1223 TLLRKLHVLGNSNLVSLQLHSC-TALEELIIQSCESLSSL-DGLQLLGNLRLLRAHRCLS 1280

Query:  1117 ILSFSEEG 1124
                  E+G
Sbjct:  1281 --GHGEDG 1286

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

TAIR|locus:2037639 AT1G58390 "AT1G58390" [Arabidopsis thaliana (taxid:3702)]

 Score = 493 (178.6 bits), Expect = 3.3e-52, Sum P(3) = 3.3e-52
 Identities = 159/523 (30%), Positives = 268/523 (51%)

Query:   165 DHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLE 224
             D  N  V+ I GMGG+GKTTLAR+V+N + V+   +FD  AWVCVS +F   ++ + +L+
Sbjct:   179 DEENVQVVSITGMGGLGKTTLARQVFNHEDVKH--QFDRLAWVCVSQEFTRKNVWQMILQ 236

Query:   225 SITSATC--DLKTVDEVQV--QLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPN 280
             ++TS     ++  ++E ++  +L + ++  + L+V DD+W ++   W DL  P       
Sbjct:   237 NLTSREKKDEILQMEEAELHDKLFQLLETSKSLIVFDDIWKDED--W-DLIKPIFPPNKG 293

Query:   281 SKMIITTRNSHVASTMGPIDHYNL--EHLLDDDCWSIFKTHAFEGRDHNALEISESFR-- 336
              K+++T++N  VA   G I + N   E L  +D W++F+  AF  +D +  ++ E     
Sbjct:   294 WKVLLTSQNESVA-VRGDIKYLNFKPECLAIEDSWTLFQRIAFPKKDASESKVDEEMEDM 352

Query:   337 -KKVVGKCGGLPLAAKTLGGLL--RTTTYDMWDDI---LDSKIWDLP--RQSSILPVLRL 388
              K+++  CGGLPLA K LGGLL  + T +D W+ +   + S I        SSI  VL +
Sbjct:   353 GKQMLKHCGGLPLAIKVLGGLLAAKYTMHD-WERLSVNIGSDIVGRTSSNNSSIYHVLSM 411

Query:   389 SYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSS--NNEQLKDLGSQCFH 446
             S+  LPS+LK CF Y A FP+D + + ++L + W A GI       N E ++D+G     
Sbjct:   412 SFEELPSYLKHCFLYLAHFPEDHKINVEKLSYCWAAEGISTAEDYHNGETIQDVGQSYLE 471

Query:   447 DLVSRS--IFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSSRRFERVRHSSYA 504
             +LV R+  I++R    S     H  +H + + V    +F+ +E+N      + V  +S +
Sbjct:   472 ELVRRNMIIWERDATASRFGTCH--LHDMMREVC---LFKAKEENFLQIAVKSVGVTSSS 526

Query:   505 CGELDG--RNKFKVFYEIE---HLRTFLPLHKTDYIITCYITSMVL-YDLL-PKFKKLRL 557
              G      R++ ++ Y+     H+   +   K   ++  +    V  + LL   F +L+L
Sbjct:   527 TGNSQSPCRSR-RLVYQCPTTLHVERDINNPKLRSLVVLWHDLWVENWKLLGTSFTRLKL 585

Query:   558 LS-LQGYYIG----ELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSL 612
             L  L  +Y+     +LP    +L  LRYL+L D  +  LP S  +L+ L  L L   +  
Sbjct:   586 LRVLDLFYVDFEGMKLPFGIGNLIHLRYLSLQDAKVSHLPSSLGNLMLLIYLNLDVDTEF 645

Query:   613 IKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNF 655
             I +P    R+  L +L +    + K+    ++ L  L+TL  F
Sbjct:   646 IFVPDVFMRMHELRYLKLP-LHMHKKTRLSLRNLVKLETLVYF 687

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2176486 RPP8 "RECOGNITION OF PERONOSPORA PARASITICA 8" [Arabidopsis thaliana (taxid:3702)]

 Score = 466 (169.1 bits), Expect = 5.4e-51, Sum P(3) = 5.4e-51
 Identities = 194/657 (29%), Positives = 296/657 (45%)

Query:    92 HKLMA--EGLDQPGSSKLCKQRIELGLQ-LIPGGTSSTAAAQRRXXXXXXXXXXXXFGRE 148
             HK+ +  EG+ +  S  + + +   G+Q +I GG S   + Q R               E
Sbjct:   106 HKVASDIEGITKRISEVIGEMQ-SFGIQQIIDGGRS--LSLQERQRVQREIRQTYPDSSE 162

Query:   149 EDKTKILEMV--LTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAW 206
              D   + + V  L     ++    V+ I GMGGIGKTTLAR+V++   V     FD  AW
Sbjct:   163 SDLVGVEQSVKELVGHLVENDVHQVVSIAGMGGIGKTTLARQVFHHDLVRRH--FDGFAW 220

Query:   207 VCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLK--KAVDGKRFLLVLDDVWNEDY 264
             VCVS  F    + + +L+ +     D+  +DE  +Q K  + ++  R+L+VLDDVW ++ 
Sbjct:   221 VCVSQQFTQKHVWQRILQELQPHDGDILQMDEYALQRKLFQLLEAGRYLVVLDDVWKKED 280

Query:   265 SLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPID-HYNLEHLLDDDCWSIFKTHAFEG 323
               W  +KA F       KM++T+RN  V     P    +    L  ++ W + +   F  
Sbjct:   281 --WDVIKAVF-PRKRGWKMLLTSRNEGVGIHADPTCLTFRASILNPEESWKLCERIVFPR 337

Query:   324 RDHNALEISESFR---KKVVGKCGGLPLAAKTLGGLLRTT-TYDMWDDILD---SKI--- 373
             RD   + + E      K++V  CGGLPLA K LGGLL    T   W  + D   S+I   
Sbjct:   338 RDETEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVFDNIGSQIVGG 397

Query:   374 -W-DLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQS 431
              W D    +S+  +L LSY  LP+HLK CF   A FP+D E     L + W A GI   S
Sbjct:   398 SWLDDNSLNSVYRILSLSYEDLPTHLKHCFLNLAHFPEDSEISTYSLFYYWAAEGIYDGS 457

Query:   432 SNNEQLKDLGSQCFHDLVSRS-IFQRTGFGS--SKFA-MHDLVHALA----------QLV 477
             +    ++D G     +LV R+ +     + S  SK+  MHD++  +           Q++
Sbjct:   458 T----IEDSGEYYLEELVRRNLVIADDNYLSWQSKYCQMHDMMREVCLSKAKEENFLQII 513

Query:   478 SGETIFRLEEDNSSSRRFERVRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIIT 537
                T        S SR      HS  A   L  +NK KV   I      +P  + DY I 
Sbjct:   514 IDPTCTSTINAQSPSRSRRLSIHSGKAFHILGHKNKTKVRSLI------VPRFEEDYWIR 567

Query:   538 CYITSMVLYDL-LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSC 596
                ++ V ++L L +   L  +  +G   G+LP     L  LRYL+L +  +  LP +  
Sbjct:   568 ---SASVFHNLTLLRVLDLSWVKFEG---GKLPCSIGGLIHLRYLSLYEAKVSHLPSTMR 621

Query:   597 SLLNLEILILR-NCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNF 655
             +L  L  L LR +    I +P+ ++ +I L +L +     LK       EL +L  L  +
Sbjct:   622 NLKLLLYLNLRVDTEEPIHVPNVLKEMIQLRYLSLP----LKMDDKTKLELGDLVNLE-Y 676

Query:   656 VVGKGGETASGLEDLKILKFLSGELCISGLQNVND-SKNAREAALCEKLNLEALSLE 711
             + G   + +S  + L++ K     + +S   N    S + RE    E LN    SLE
Sbjct:   677 LYGFSTQHSSVTDLLRMTKLRYLAVSLSERCNFETLSSSLRELRNLETLNF-LFSLE 732

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

GO:0043531 "ADP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=ISS

GO:0009416 "response to light stimulus" evidence=IMP

GO:0051607 "defense response to virus" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

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

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

TAIR|locus:504956184 AT1G58807 "AT1G58807" [Arabidopsis thaliana (taxid:3702)]

 Score = 444 (161.4 bits), Expect = 1.4e-50, Sum P(4) = 1.4e-50
 Identities = 168/601 (27%), Positives = 286/601 (47%)

Query:   105 SKLCKQRIELGLQ--LIPGGTSSTAA-AQRRXXXXXXXXXXXXF-GREEDKTKILEMVLT 160
             SK+ +     G+Q  ++ GG        QR             F G E +  K++  ++ 
Sbjct:   120 SKVIRDMQSFGVQQAIVDGGYKQPQGDKQREMRQKFSKDDDSDFVGLEANVKKLVGYLV- 178

Query:   161 DTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK 220
                 D AN  V+ I GMGG+GKTTLA++V+N + V+   +FD  +WVCVS DF  +++ +
Sbjct:   179 ----DEANVQVVSITGMGGLGKTTLAKQVFNHEDVKH--QFDGLSWVCVSQDFTRMNVWQ 232

Query:   221 ALLESITSATCDLK----TVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLA 276
              +L  +     + K    T D +Q +L + ++  + L+VLDD+W ++   W +L  P   
Sbjct:   233 KILRDLKPKEEEKKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKED--W-ELIKPIFP 289

Query:   277 AAPNSKMIITTRNSHVASTMGP-IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISES- 334
                  K+++T+RN  VA        ++  E L  +D W++F+  A   +D    +I E  
Sbjct:   290 PTKGWKVLLTSRNESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFKIDEEK 349

Query:   335 --FRKKVVGKCGGLPLAAKTLGGLL--RTTTYDMW---DDILDSKI------WDLPRQSS 381
                 K ++  CGGLPLA + LGG+L  + T++D W    + + S +      ++    ++
Sbjct:   350 EELGKLMIKHCGGLPLAIRVLGGMLAEKYTSHD-WRRLSENIGSHLVGGRTNFNDDNNNT 408

Query:   382 ILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIR-QSSNNEQLKDL 440
                VL LS+  LPS+LK CF Y A FP+D+E   + L + W A GI + +  + E ++D+
Sbjct:   409 CNNVLSLSFEELPSYLKHCFLYLAHFPEDYEIKVENLSYYWAAEGIFQPRHYDGETIRDV 468

Query:   441 GSQCFHDLVSRS-IFQRTGFGSSKFA---MHDLVHALAQLVSGETIFRLEEDNSSSRRFE 496
             G     +LV R+ +       +S+F    +HD++  +  L + E  F L+   +SSR   
Sbjct:   469 GDVYIEELVRRNMVISERDVKTSRFETCHLHDMMREVCLLKAKEENF-LQI--TSSRPST 525

Query:   497 RVRHSSYACGELDGRNKFKVFYEIE-HLRTFLPLHKTDYIITCYITSMVLY-DLLPKFKK 554
                 S+          +F   Y    H+   +   K   ++   + S  L      + + 
Sbjct:   526 ANLQSTVTS------RRFVYQYPTTLHVEKDINNPKLRALVVVTLGSWNLAGSSFTRLEL 579

Query:   555 LRLLSLQGYYI--GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSL 612
             LR+L L    I  G+L      L  LRYL+L   ++  +P S   L NL++LI  N +S 
Sbjct:   580 LRVLDLIEVKIKGGKLASCIGKLIHLRYLSLEYAEVTHIPYS---LGNLKLLIYLNLASF 636

Query:   613 IK---LPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLED 669
              +   +P+ +  +  L +L +    + ++    +  L  L+TL NF      E +S LED
Sbjct:   637 GRSTFVPNVLMGMQELRYLALPSD-MGRKTKLELSNLVKLETLENFST----ENSS-LED 690

Query:   670 L 670
             L
Sbjct:   691 L 691

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2827038 AT1G59124 "AT1G59124" [Arabidopsis thaliana (taxid:3702)]

 Score = 444 (161.4 bits), Expect = 1.4e-50, Sum P(4) = 1.4e-50
 Identities = 168/601 (27%), Positives = 286/601 (47%)

Query:   105 SKLCKQRIELGLQ--LIPGGTSSTAA-AQRRXXXXXXXXXXXXF-GREEDKTKILEMVLT 160
             SK+ +     G+Q  ++ GG        QR             F G E +  K++  ++ 
Sbjct:   120 SKVIRDMQSFGVQQAIVDGGYKQPQGDKQREMRQKFSKDDDSDFVGLEANVKKLVGYLV- 178

Query:   161 DTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK 220
                 D AN  V+ I GMGG+GKTTLA++V+N + V+   +FD  +WVCVS DF  +++ +
Sbjct:   179 ----DEANVQVVSITGMGGLGKTTLAKQVFNHEDVKH--QFDGLSWVCVSQDFTRMNVWQ 232

Query:   221 ALLESITSATCDLK----TVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLA 276
              +L  +     + K    T D +Q +L + ++  + L+VLDD+W ++   W +L  P   
Sbjct:   233 KILRDLKPKEEEKKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKED--W-ELIKPIFP 289

Query:   277 AAPNSKMIITTRNSHVASTMGP-IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISES- 334
                  K+++T+RN  VA        ++  E L  +D W++F+  A   +D    +I E  
Sbjct:   290 PTKGWKVLLTSRNESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFKIDEEK 349

Query:   335 --FRKKVVGKCGGLPLAAKTLGGLL--RTTTYDMW---DDILDSKI------WDLPRQSS 381
                 K ++  CGGLPLA + LGG+L  + T++D W    + + S +      ++    ++
Sbjct:   350 EELGKLMIKHCGGLPLAIRVLGGMLAEKYTSHD-WRRLSENIGSHLVGGRTNFNDDNNNT 408

Query:   382 ILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIR-QSSNNEQLKDL 440
                VL LS+  LPS+LK CF Y A FP+D+E   + L + W A GI + +  + E ++D+
Sbjct:   409 CNNVLSLSFEELPSYLKHCFLYLAHFPEDYEIKVENLSYYWAAEGIFQPRHYDGETIRDV 468

Query:   441 GSQCFHDLVSRS-IFQRTGFGSSKFA---MHDLVHALAQLVSGETIFRLEEDNSSSRRFE 496
             G     +LV R+ +       +S+F    +HD++  +  L + E  F L+   +SSR   
Sbjct:   469 GDVYIEELVRRNMVISERDVKTSRFETCHLHDMMREVCLLKAKEENF-LQI--TSSRPST 525

Query:   497 RVRHSSYACGELDGRNKFKVFYEIE-HLRTFLPLHKTDYIITCYITSMVLY-DLLPKFKK 554
                 S+          +F   Y    H+   +   K   ++   + S  L      + + 
Sbjct:   526 ANLQSTVTS------RRFVYQYPTTLHVEKDINNPKLRALVVVTLGSWNLAGSSFTRLEL 579

Query:   555 LRLLSLQGYYI--GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSL 612
             LR+L L    I  G+L      L  LRYL+L   ++  +P S   L NL++LI  N +S 
Sbjct:   580 LRVLDLIEVKIKGGKLASCIGKLIHLRYLSLEYAEVTHIPYS---LGNLKLLIYLNLASF 636

Query:   613 IK---LPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLED 669
              +   +P+ +  +  L +L +    + ++    +  L  L+TL NF      E +S LED
Sbjct:   637 GRSTFVPNVLMGMQELRYLALPSD-MGRKTKLELSNLVKLETLENFST----ENSS-LED 690

Query:   670 L 670
             L
Sbjct:   691 L 691

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2037623 AT1G58410 [Arabidopsis thaliana (taxid:3702)]

 Score = 496 (179.7 bits), Expect = 3.0e-49, Sum P(3) = 3.0e-49
 Identities = 196/730 (26%), Positives = 350/730 (47%)

Query:    82 LDEFATQALEHKLMAEGLDQPGS--SKLCKQRIELGLQ-LIPGGTSSTAAAQRRXXXXXX 138
             +  FA+  ++ + +A  +       SK+ +     G+Q +I  G+ S+   Q R      
Sbjct:    93 IKRFASTIMDRRELASDIGGISKRISKVIQDMQSFGVQQIITDGSRSSHPLQERQREMRH 152

Query:   139 XXXXXXFGREEDKTKI-LEM---VLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKA 194
                   F R+ +   + +E     L     +  ++ ++ + GMGG+GKTTLAR+V+N   
Sbjct:   153 T-----FSRDSENDFVGMEANVKKLVGYLVEKDDYQIVSLTGMGGLGKTTLARQVFNHDV 207

Query:   195 VEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATC--DLKTVDEVQVQ--LKKAVDGK 250
             V+D  +FD  AWV VS +F  +S+ + +L+++TS     +++ + E  +   L + ++  
Sbjct:   208 VKD--RFDGFAWVSVSQEFTRISVWQTILQNLTSKERKDEIQNMKEADLHDDLFRLLESS 265

Query:   251 RFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEH--LL 308
             + L+VLDD+W E+   W DL  P        K+++T+R   +A   G   + + +   L 
Sbjct:   266 KTLIVLDDIWKEED--W-DLIKPIFPPKKGWKVLLTSRTESIAMR-GDTTYISFKPKCLS 321

Query:   309 DDDCWSIFKTHAFEGRDHNALEISESFR---KKVVGKCGGLPLAAKTLGGLL--RTTTYD 363
               D W++F++ A   +D +  ++ E      KK++  CGGL LA K LGGLL  + T +D
Sbjct:   322 IPDSWTLFQSIAMPRKDTSEFKVDEEMENMGKKMIKHCGGLSLAVKVLGGLLAAKYTLHD 381

Query:   364 MWDDI---LDSKIWDLP--RQSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKEL 418
              W  +   + S I +      SSI  VL +S+  LP++LK CF Y A FP+D E D ++L
Sbjct:   382 -WKRLSENIGSHIVERTSGNNSSIDHVLSVSFEELPNYLKHCFLYLAHFPEDHEIDVEKL 440

Query:   419 VFLWIAGGII-RQSSNNEQLKDLGSQCFHDLVSRS-IFQRTGFGSSKFA---MHDLVHAL 473
              + W A GI  R+  + E ++D G     +LV R+ +       +S+F    +HD++  +
Sbjct:   441 HYYWAAEGISERRRYDGETIRDTGDSYIEELVRRNMVISERDVMTSRFETCRLHDMMREI 500

Query:   474 AQLVSGETIFRLEEDNSSSRRFERV--RHSSYACGELDGRNKFKVFYEIE--HLRTFLPL 529
                     +F+ +E+N     F ++   HS  +  +  G ++  V +     H+  +   
Sbjct:   501 C-------LFKAKEEN-----FLQIVSNHSPTSNPQTLGASRRFVLHNPTTLHVERYKNN 548

Query:   530 HKTDYIITCY--ITS---MVLYDLLPKFKKLRLLSL-QGYYIG-ELPIPFEDLRLLRYLN 582
              K   ++  Y  I +   M+   +  + K LR+L L Q  + G +LP     L  LRYL+
Sbjct:   549 PKLRSLVVVYDDIGNRRWMLSGSIFTRVKLLRVLDLVQAKFKGGKLPSDIGKLIHLRYLS 608

Query:   583 LADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFG 642
             L D  +  LP S  +L+ L  L +R   + I +P+    +  L +L++    + ++    
Sbjct:   609 LKDAKVSHLPSSLRNLVLLIYLDIRTDFTDIFVPNVFMGMRELRYLELP-RFMHEKTKLE 667

Query:   643 MKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEK 702
             +  L+ L+ L NF        +S LEDL+ +  L   L I  + +   S     A++C  
Sbjct:   668 LSNLEKLEALENF-----STKSSSLEDLRGMVRLR-TLVI--ILSEGTSLQTLSASVCGL 719

Query:   703 LNLEALSLEWGSQFDNSR-DEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFS 761
              +LE   +      +N+  + + EE++  VL  + ++K+LT+      R P     P  S
Sbjct:   720 RHLENFKI-----MENAGVNRMGEERM--VLD-FTYLKKLTLS-IEMPRLPKIQHLP--S 768

Query:   762 KMNVLELDDC 771
              + VL+L  C
Sbjct:   769 HLTVLDLSYC 778

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:504956182 AT1G58848 [Arabidopsis thaliana (taxid:3702)]

 Score = 479 (173.7 bits), Expect = 1.4e-48, Sum P(3) = 1.4e-48
 Identities = 209/765 (27%), Positives = 349/765 (45%)

Query:   105 SKLCKQRIELGLQ--LIPGGTSSTAA-AQRRXXXXXXXXXXXXF-GREEDKTKILEMVLT 160
             SK+ +     G+Q  ++ GG        QR             F G E +  K++  ++ 
Sbjct:   120 SKVIRDMQSFGVQQAIVDGGYKQPQGDKQREMRPRFSKDDDSDFVGLEANVKKLVGYLV- 178

Query:   161 DTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK 220
                 D AN  V+ I GMGG+GKTTLA++V+N + V+   +FD  +WVCVS DF  +++ +
Sbjct:   179 ----DEANVQVVSITGMGGLGKTTLAKQVFNHEDVKH--QFDGLSWVCVSQDFTRMNVWQ 232

Query:   221 ALLESITSATCDLK----TVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLA 276
              +L  +     + K    T D +Q +L + ++  + L+VLDD+W ++   W +L  P   
Sbjct:   233 KILRDLKPKEEEKKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKED--W-ELIKPIFP 289

Query:   277 AAPNSKMIITTRNSHVASTMGP-IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISES- 334
                  K+++T+RN  VA        ++  E L  +D W++F+  A   +D    +I E  
Sbjct:   290 PTKGWKVLLTSRNESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFKIDEEK 349

Query:   335 --FRKKVVGKCGGLPLAAKTLGGLL--RTTTYDMW---DDILDSKI------WDLPRQSS 381
                 K ++  CGGLPLA + LGG+L  + T++D W    + + S +      ++    ++
Sbjct:   350 EELGKLMIKHCGGLPLAIRVLGGMLAEKYTSHD-WRRLSENIGSHLVGGRTNFNDDNNNT 408

Query:   382 ILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIR-QSSNNEQLKDL 440
                VL LS+  LPS+LK CF Y A FP D+E + K L + W A GI + +  + E ++D+
Sbjct:   409 CNYVLSLSFEELPSYLKHCFLYLAHFPDDYEINVKNLSYYWAAEGIFQPRHYDGEIIRDV 468

Query:   441 GSQCFHDLVSRS-IFQRTGFGSSKFA---MHDLVHALAQLVSGETIF-RLEEDNSSSRRF 495
             G     +LV R+ +       +S+F    +HD++  +  L + E  F ++    +S+   
Sbjct:   469 GDVYIEELVRRNMVISERDVKTSRFETCHLHDMMREVCLLKAKEENFLQITSSRTSTGNS 528

Query:   496 ERVRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKL 555
               +  S     +       +       LR+ + +  T Y+     + M+L     + + L
Sbjct:   529 LSIVTSRRLVYQYPITLDVEKDINDPKLRSLVVVANT-YMFWGGWSWMLLGSSFIRLELL 587

Query:   556 RLLSLQGYYI--GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLI 613
             R+L +    +  G+L      L  LRYLNL   ++  +P S   L NL++LI  N   L+
Sbjct:   588 RVLDIHRAKLKGGKLASSIGQLIHLRYLNLKHAEVTHIPYS---LGNLKLLIYLNLVILV 644

Query:   614 KLPSKIRRLINLCHLDIRGAILLKEMPFGMK-ELKNL---QTLSNFVVGKGGETASGLED 669
                + +  ++      +R   L K+M    K EL NL   +TL NF      +  S LED
Sbjct:   645 SGSTLVPNVLKEMQ-QLRYLALPKDMGRKTKLELSNLVKLETLKNFST----KNCS-LED 698

Query:   670 LKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSL-EWGSQFDNSRDEVAEEQV 728
             L+ +  L   L I  L+    S     A++     LE+L++ + GS+    R + A    
Sbjct:   699 LRGMVRLR-TLTIE-LRK-ETSLETLAASIGGLKYLESLTITDLGSEM---RTKEA---- 748

Query:   729 LGVLQPYKFVKELTIKRYGGARFPLWIGDPLF-SKMNVLELDDCWNCTXXXXXXXXXXXX 787
              G++  + ++K LT+K Y     P    +  F S +  L L  C                
Sbjct:   749 -GIVFDFVYLKTLTLKLY----MPRLSKEQHFPSHLTTLYLQHC----RLEEDPMPILEK 799

Query:   788 XXTIKRMT-NLKSI-GCEFFGKCFSEPFQSLEILSFEYLPEWERW 830
                +K +    KS  G E    C S  F  L+ LS + L EWE W
Sbjct:   800 LHQLKELELRRKSFSGKEMV--CSSGGFPQLQKLSIKGLEEWEDW 842

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2826978 AT1G59218 [Arabidopsis thaliana (taxid:3702)]

 Score = 479 (173.7 bits), Expect = 1.4e-48, Sum P(3) = 1.4e-48
 Identities = 209/765 (27%), Positives = 349/765 (45%)

Query:   105 SKLCKQRIELGLQ--LIPGGTSSTAA-AQRRXXXXXXXXXXXXF-GREEDKTKILEMVLT 160
             SK+ +     G+Q  ++ GG        QR             F G E +  K++  ++ 
Sbjct:   120 SKVIRDMQSFGVQQAIVDGGYKQPQGDKQREMRPRFSKDDDSDFVGLEANVKKLVGYLV- 178

Query:   161 DTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK 220
                 D AN  V+ I GMGG+GKTTLA++V+N + V+   +FD  +WVCVS DF  +++ +
Sbjct:   179 ----DEANVQVVSITGMGGLGKTTLAKQVFNHEDVKH--QFDGLSWVCVSQDFTRMNVWQ 232

Query:   221 ALLESITSATCDLK----TVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLA 276
              +L  +     + K    T D +Q +L + ++  + L+VLDD+W ++   W +L  P   
Sbjct:   233 KILRDLKPKEEEKKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKED--W-ELIKPIFP 289

Query:   277 AAPNSKMIITTRNSHVASTMGP-IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISES- 334
                  K+++T+RN  VA        ++  E L  +D W++F+  A   +D    +I E  
Sbjct:   290 PTKGWKVLLTSRNESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFKIDEEK 349

Query:   335 --FRKKVVGKCGGLPLAAKTLGGLL--RTTTYDMW---DDILDSKI------WDLPRQSS 381
                 K ++  CGGLPLA + LGG+L  + T++D W    + + S +      ++    ++
Sbjct:   350 EELGKLMIKHCGGLPLAIRVLGGMLAEKYTSHD-WRRLSENIGSHLVGGRTNFNDDNNNT 408

Query:   382 ILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIR-QSSNNEQLKDL 440
                VL LS+  LPS+LK CF Y A FP D+E + K L + W A GI + +  + E ++D+
Sbjct:   409 CNYVLSLSFEELPSYLKHCFLYLAHFPDDYEINVKNLSYYWAAEGIFQPRHYDGEIIRDV 468

Query:   441 GSQCFHDLVSRS-IFQRTGFGSSKFA---MHDLVHALAQLVSGETIF-RLEEDNSSSRRF 495
             G     +LV R+ +       +S+F    +HD++  +  L + E  F ++    +S+   
Sbjct:   469 GDVYIEELVRRNMVISERDVKTSRFETCHLHDMMREVCLLKAKEENFLQITSSRTSTGNS 528

Query:   496 ERVRHSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKL 555
               +  S     +       +       LR+ + +  T Y+     + M+L     + + L
Sbjct:   529 LSIVTSRRLVYQYPITLDVEKDINDPKLRSLVVVANT-YMFWGGWSWMLLGSSFIRLELL 587

Query:   556 RLLSLQGYYI--GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLI 613
             R+L +    +  G+L      L  LRYLNL   ++  +P S   L NL++LI  N   L+
Sbjct:   588 RVLDIHRAKLKGGKLASSIGQLIHLRYLNLKHAEVTHIPYS---LGNLKLLIYLNLVILV 644

Query:   614 KLPSKIRRLINLCHLDIRGAILLKEMPFGMK-ELKNL---QTLSNFVVGKGGETASGLED 669
                + +  ++      +R   L K+M    K EL NL   +TL NF      +  S LED
Sbjct:   645 SGSTLVPNVLKEMQ-QLRYLALPKDMGRKTKLELSNLVKLETLKNFST----KNCS-LED 698

Query:   670 LKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSL-EWGSQFDNSRDEVAEEQV 728
             L+ +  L   L I  L+    S     A++     LE+L++ + GS+    R + A    
Sbjct:   699 LRGMVRLR-TLTIE-LRK-ETSLETLAASIGGLKYLESLTITDLGSEM---RTKEA---- 748

Query:   729 LGVLQPYKFVKELTIKRYGGARFPLWIGDPLF-SKMNVLELDDCWNCTXXXXXXXXXXXX 787
              G++  + ++K LT+K Y     P    +  F S +  L L  C                
Sbjct:   749 -GIVFDFVYLKTLTLKLY----MPRLSKEQHFPSHLTTLYLQHC----RLEEDPMPILEK 799

Query:   788 XXTIKRMT-NLKSI-GCEFFGKCFSEPFQSLEILSFEYLPEWERW 830
                +K +    KS  G E    C S  F  L+ LS + L EWE W
Sbjct:   800 LHQLKELELRRKSFSGKEMV--CSSGGFPQLQKLSIKGLEEWEDW 842

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.1.15	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

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	1277
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	4e-68
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-14
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-09
PLN03210	1153	PLN03210, PLN03210, Resistant to P	8e-06
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	1e-04
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	0.001

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

 Score =  230 bits (589), Expect = 4e-68
 Identities = 113/292 (38%), Positives = 166/292 (56%), Gaps = 16/292 (5%)

Query: 147 REEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAW 206
           RE+    ++E +L  +     N  V+ IVGMGG+GKTTLA+++YND +V   G FD  AW
Sbjct: 1   REDMIEALIEKLLEMSD----NLGVVGIVGMGGVGKTTLAKQIYNDDSVG--GHFDSVAW 54

Query: 207 VCVSDDFDVLSISKALLESITSATCDL--KTVDEVQVQLKKAVDGKRFLLVLDDVWNEDY 264
           V VS  +    + K +L+ +     D   K   E+ V++K+A+  KRFLLVLDDVW ++ 
Sbjct: 55  VVVSKTYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKN- 113

Query: 265 SLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDH-YNLEHLLDDDCWSIFKTHAFEG 323
             W  +  PF      S++I+TTR+  VA  MG     + +E L  ++ W +F    FE 
Sbjct: 114 -DWDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEK 172

Query: 324 RDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRT-TTYDMWDDILDSKIWDLPRQSS- 381
                 E+ E   K++V KC GLPLA K LGGLL   +T   W+ +L+    +L  +   
Sbjct: 173 ELPPCPEL-EEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGL 231

Query: 382 --ILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQS 431
             +L +L LSY +LP HLKRCF Y A+FP+D+   +++L+ LWIA G +  S
Sbjct: 232 NEVLSILSLSYDNLPMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFVIPS 283

Length = 285

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

 Score = 78.4 bits (193), Expect = 2e-14
 Identities = 91/320 (28%), Positives = 128/320 (40%), Gaps = 80/320 (25%)

Query: 945  ISNALDFFPRNLRYLIISEISTLRSLPEEIMDNN--------SRLESLYIGYCGSLKFVT 996
            +    D+ P  LR L   +   LR +P      N        S+LE L+ G   SL  + 
Sbjct: 580  LPEGFDYLPPKLRLLRW-DKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDG-VHSLTGLR 637

Query: 997  KGKLPSSLKSLQIENLT----LESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESI 1052
               L  S    +I +L+    LE+LK+ DC  L  L S I  L  LEDL +  C  LE +
Sbjct: 638  NIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEIL 697

Query: 1053 PKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIK 1112
            P G++ L+S+Y                     + +S C +L + P+            I 
Sbjct: 698  PTGIN-LKSLY--------------------RLNLSGCSRLKSFPD------------IS 724

Query: 1113 ECPSILSFSE---EGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAE 1169
               S L   E   E FP+NL                       RL +L  L + E    +
Sbjct: 725  TNISWLDLDETAIEEFPSNL-----------------------RLENLDELILCEMKSEK 761

Query: 1170 SFPDEEMRM----MLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPE 1225
             +   +       ML  SLT L L  +  L  L S   Q+L  LEHL IE+C NL + P 
Sbjct: 762  LWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPS-SIQNLHKLEHLEIENCINLETLPT 820

Query: 1226 -VGLPSSLLSLEIKNCPKLR 1244
             + L  SL SL++  C +LR
Sbjct: 821  GINLE-SLESLDLSGCSRLR 839

syringae 6; Provisional. Length = 1153

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

 Score = 61.8 bits (150), Expect = 2e-09
 Identities = 128/543 (23%), Positives = 219/543 (40%), Gaps = 112/543 (20%)

Query: 174 IVGMGGIGKTTLAREVYNDKAVE-DSGKFDVKAWVCVS---------DDFDV-LSISKAL 222
           I G  GIGKTT+AR +++  + +  S  F  +A++  S         DD+++ L + +A 
Sbjct: 212 IWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAF 271

Query: 223 LESITSATCDLKTVDEVQV-QLKKAVDGKRFLLVLDDVWNED-YSLWVDLKAPFLAAAPN 280
           L  I     D K +    +  +++ +  ++ L+ +DD+ ++D           F      
Sbjct: 272 LSEIL----DKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWF---GSG 324

Query: 281 SKMIITTRNSHVASTMGPIDH-YNLEHLLDDDCWSIFKTHAFEGRD--HNALEISESFRK 337
           S++I+ T++ H     G IDH Y +    ++    +F   AF+        +E++     
Sbjct: 325 SRIIVITKDKHFLRAHG-IDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELAS---- 379

Query: 338 KVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHL 397
           +V  + G LPL    LG  LR    + W D+L      L     I   LR+SY  L +  
Sbjct: 380 EVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGL--DGKIEKTLRVSYDGLNNK- 436

Query: 398 KRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQC-----FHDLVSRS 452
                      KD      + +F  IA     +  N+ +L    S         +LV +S
Sbjct: 437 -----------KD------KAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKS 479

Query: 453 -IFQRTGFGSSKFAMHDLVHALAQ---------------LVSGETIFRLEEDNSSSRRFE 496
            I  R         MH L+  + +               LV  + I  + EDN+ +++  
Sbjct: 480 LIHVR----EDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKK-- 533

Query: 497 RVRHSSYACGELDG----RNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKF 552
            V   +    E+D      N FK    +  L+ +         +  ++     +D LP  
Sbjct: 534 -VLGITLDIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEG--FDYLPP- 589

Query: 553 KKLRLLSLQGYYIGELPIPF----------------------EDLRLLRYLNL-ADTDIR 589
            KLRLL    Y +  +P  F                        L  LR ++L    +++
Sbjct: 590 -KLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLK 648

Query: 590 SLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNL 649
            +P+ S +  NLE L L +CSSL++LPS I+ L  L  LD+     L+ +P G+    NL
Sbjct: 649 EIPDLSMAT-NLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI----NL 703

Query: 650 QTL 652
           ++L
Sbjct: 704 KSL 706

syringae 6; Provisional. Length = 1153

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

 Score = 49.9 bits (119), Expect = 8e-06
 Identities = 72/276 (26%), Positives = 118/276 (42%), Gaps = 45/276 (16%)

Query: 853  ECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECK--ELLCRTPIDSKL 910
            E P+LS     +  +L+TL +S C  L    SS   L +LE  +    E L   P    L
Sbjct: 649  EIPDLS-----MATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGINL 703

Query: 911  IKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSL 970
             KS+      L+++GC  +        S     T          N+ +L + E + +   
Sbjct: 704  -KSL----YRLNLSGCSRL-------KSFPDIST----------NISWLDLDE-TAIEEF 740

Query: 971  PEEIMDNNSRLESLY-IGYC--GSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTC 1027
            P     +N RLE+L  +  C   S K   + +  + L  + + + +L  L + D P L  
Sbjct: 741  P-----SNLRLENLDELILCEMKSEKLWERVQPLTPL--MTMLSPSLTRLFLSDIPSLVE 793

Query: 1028 LSSGIHLLEALEDLHIRNCPKLESIPKG--LHKLRSIYIKKCPSLVSLAEKGLPNTISHV 1085
            L S I  L  LE L I NC  LE++P G  L  L S+ +  C  L +  +  +   IS +
Sbjct: 794  LPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPD--ISTNISDL 851

Query: 1086 TISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFS 1121
             +S    ++ +P  + K  +L +L +  C ++   S
Sbjct: 852  NLSR-TGIEEVPWWIEKFSNLSFLDMNGCNNLQRVS 886

syringae 6; Provisional. Length = 1153

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

 Score = 45.7 bits (108), Expect = 1e-04
 Identities = 49/188 (26%), Positives = 74/188 (39%), Gaps = 21/188 (11%)

Query: 525 TFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLA 584
           T L     D      I    L  LL     L+ L L    I  LP P  +L  L+ L+L+
Sbjct: 116 TNLTSLDLDNNNITDIPP--LIGLLKS--NLKELDLSDNKIESLPSPLRNLPNLKNLDLS 171

Query: 585 DTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMK 644
             D+  LP+   +L NL  L L   + +  LP +I  L  L  LD+    +++ +   + 
Sbjct: 172 FNDLSDLPKLLSNLSNLNNLDLSG-NKISDLPPEIELLSALEELDLSNNSIIELLS-SLS 229

Query: 645 ELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNARE--AALCEK 702
            LKNL  L              L + K+         +S L+ ++ S N     ++L   
Sbjct: 230 NLKNLSGLE-------------LSNNKLEDLPESIGNLSNLETLDLSNNQISSISSLGSL 276

Query: 703 LNLEALSL 710
            NL  L L
Sbjct: 277 TNLRELDL 284

Length = 394

>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 31/160 (19%), Positives = 60/160 (37%), Gaps = 26/160 (16%)

Query: 144 VFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDV 203
           + GREE+  ++L+ +     A       + + G  G GKT+L RE+  +  +  +GK D 
Sbjct: 2   LVGREEELERLLDAL---RRARSGGPPSVLLTGPSGTGKTSLLREL-LEGLLVAAGKCD- 56

Query: 204 KAWVCVSDDFDVLSISKALLESITSA-----------------TCDLKTVDEVQVQLKKA 246
                 +  +      + LL  +                       ++ + ++   L++ 
Sbjct: 57  --QAERNPPYAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERL 114

Query: 247 VDGKRFL-LVLDDVWNEDYSLWVDLKAPFLAAAPNSKMII 285
           +   R L LVLDD+   D      L A  L       +++
Sbjct: 115 LARARPLVLVLDDLQWADEESLDLLAA-LLRRLERLPLLV 153

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Length = 154

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	1277
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.92
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.88
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.88
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.85
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.84
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.84
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.82
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.81
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.8
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.59
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.49
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.47
PRK04841	903	transcriptional regulator MalT; Provisional	99.36
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.32
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.31
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.28
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.26
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.25
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.22
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.2
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.15
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.09
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.02
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.0
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.97
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.94
PF05729	166	NACHT: NACHT domain	98.9
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.79
PRK15386	426	type III secretion protein GogB; Provisional	98.7
COG3899	849	Predicted ATPase [General function prediction only	98.69
PRK06893	229	DNA replication initiation factor; Validated	98.58
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.56
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.55
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.47
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.46
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.45
PRK13342	413	recombination factor protein RarA; Reviewed	98.45
KOG4341	483	consensus F-box protein containing LRR [General fu	98.44
PTZ00202	550	tuzin; Provisional	98.42
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.42
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.38
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.38
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.37
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.35
PRK15386	426	type III secretion protein GogB; Provisional	98.35
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.34
PF13173	128	AAA_14: AAA domain	98.34
COG3903	414	Predicted ATPase [General function prediction only	98.34
PRK04195	482	replication factor C large subunit; Provisional	98.32
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.31
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.31
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.3
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.27
PRK12402	337	replication factor C small subunit 2; Reviewed	98.26
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.26
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.25
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.23
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.22
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.21
PLN03150	623	hypothetical protein; Provisional	98.2
KOG4341	483	consensus F-box protein containing LRR [General fu	98.19
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.19
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.18
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.17
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.17
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.15
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.14
PLN03025	319	replication factor C subunit; Provisional	98.14
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.13
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.13
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.13
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.12
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.12
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.12
PRK08084	235	DNA replication initiation factor; Provisional	98.12
PRK08727	233	hypothetical protein; Validated	98.12
cd01128	249	rho_factor Transcription termination factor rho is	98.11
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.1
PRK09087	226	hypothetical protein; Validated	98.08
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.07
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.07
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.06
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.05
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.05
PRK09376	416	rho transcription termination factor Rho; Provisio	98.05
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.04
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.03
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.02
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.01
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.01
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.0
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.0
PRK13341	725	recombination factor protein RarA/unknown domain f	97.99
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.98
PRK05642	234	DNA replication initiation factor; Validated	97.98
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.96
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	97.95
PF14516	331	AAA_35: AAA-like domain	97.94
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	97.88
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.87
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.87
KOG2028	554	consensus ATPase related to the helicase subunit o	97.86
PLN03150	623	hypothetical protein; Provisional	97.86
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.83
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.81
TIGR00767	415	rho transcription termination factor Rho. Members	97.81
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.8
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.79
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.79
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.79
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.78
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.78
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.78
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.77
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.76
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.76
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.76
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.75
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.74
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.71
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.65
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.64
PHA02544	316	44 clamp loader, small subunit; Provisional	97.64
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.62
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.62
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.61
PRK06620	214	hypothetical protein; Validated	97.61
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.6
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.6
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.6
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.56
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.55
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.51
CHL00095	821	clpC Clp protease ATP binding subunit	97.51
CHL00181	287	cbbX CbbX; Provisional	97.49
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.49
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.48
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.48
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.46
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.45
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.45
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.44
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.43
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.39
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.38
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.35
PRK12422	445	chromosomal replication initiation protein; Provis	97.33
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.32
PF00004	132	AAA: ATPase family associated with various cellula	97.3
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.29
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.28
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.27
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.26
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.21
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.19
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.18
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.17
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.14
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.12
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.06
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.04
PRK10865	857	protein disaggregation chaperone; Provisional	97.04
smart00382	148	AAA ATPases associated with a variety of cellular	97.04
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.01
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.0
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.98
PRK10536	262	hypothetical protein; Provisional	96.97
PRK08116	268	hypothetical protein; Validated	96.96
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.95
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.93
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	96.93
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	96.9
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.88
PRK08058	329	DNA polymerase III subunit delta'; Validated	96.87
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.87
PRK08118	167	topology modulation protein; Reviewed	96.84
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.73
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	96.73
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	96.71
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.7
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	96.7
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.69
PRK12608	380	transcription termination factor Rho; Provisional	96.67
CHL00176	638	ftsH cell division protein; Validated	96.64
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.64
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.64
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.62
PRK08181	269	transposase; Validated	96.58
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.57
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.57
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.57
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.56
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.56
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.53
PRK07952	244	DNA replication protein DnaC; Validated	96.5
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.5
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.5
PRK10865	857	protein disaggregation chaperone; Provisional	96.48
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	96.47
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.46
PRK07261	171	topology modulation protein; Provisional	96.43
PRK08939	306	primosomal protein DnaI; Reviewed	96.43
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.42
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.39
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.37
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.37
PRK13531	498	regulatory ATPase RavA; Provisional	96.37
PRK06526	254	transposase; Provisional	96.33
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.33
PRK12377	248	putative replication protein; Provisional	96.33
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.31
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.31
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	96.28
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.22
PRK06921	266	hypothetical protein; Provisional	96.19
PRK09183	259	transposase/IS protein; Provisional	96.17
CHL00095	821	clpC Clp protease ATP binding subunit	96.14
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.1
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.05
PRK04132	846	replication factor C small subunit; Provisional	96.02
CHL00195	489	ycf46 Ycf46; Provisional	96.01
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.99
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.96
PRK06835	329	DNA replication protein DnaC; Validated	95.91
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	95.91
PRK04296	190	thymidine kinase; Provisional	95.88
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.85
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	95.84
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.83
PRK06696	223	uridine kinase; Validated	95.79
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.79
KOG1969	877	consensus DNA replication checkpoint protein CHL12	95.78
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.77
TIGR02237	209	recomb_radB DNA repair and recombination protein R	95.75
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.75
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.72
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.72
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	95.71
PRK08699	325	DNA polymerase III subunit delta'; Validated	95.69
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.68
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	95.66
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.66
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.63
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	95.62
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.61
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.6
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.6
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	95.6
KOG1947	482	consensus Leucine rich repeat proteins, some prote	95.56
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.54
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.45
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	95.44
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.41
PRK05541	176	adenylylsulfate kinase; Provisional	95.39
COG2884	223	FtsE Predicted ATPase involved in cell division [C	95.38
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.34
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.31
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.3
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.29
PTZ00494	664	tuzin-like protein; Provisional	95.29
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.28
PRK13695	174	putative NTPase; Provisional	95.25
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.24
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	95.24
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	95.23
PRK15455	644	PrkA family serine protein kinase; Provisional	95.23
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.23
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.21
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.19
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	95.17
PRK08233	182	hypothetical protein; Provisional	95.15
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	95.12
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.08
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.07
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	95.06
PRK06067	234	flagellar accessory protein FlaH; Validated	95.03
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	94.98
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	94.96
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.96
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	94.92
PRK14974	336	cell division protein FtsY; Provisional	94.92
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	94.86
KOG2123	388	consensus Uncharacterized conserved protein [Funct	94.86
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	94.85
PRK09354	349	recA recombinase A; Provisional	94.82
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	94.82
PRK05439	311	pantothenate kinase; Provisional	94.76
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	94.76
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	94.75
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	94.74
PRK07667	193	uridine kinase; Provisional	94.68
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	94.67
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.65
KOG2982	418	consensus Uncharacterized conserved protein [Funct	94.61
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	94.61
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.59
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	94.57
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	94.55
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	94.54
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	94.48
PRK10867	433	signal recognition particle protein; Provisional	94.46
PHA02244	383	ATPase-like protein	94.45
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	94.45
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	94.45
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	94.43
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	94.42
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	94.41
PRK00771	437	signal recognition particle protein Srp54; Provisi	94.4
TIGR00959	428	ffh signal recognition particle protein. This mode	94.38
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	94.3
PRK04301	317	radA DNA repair and recombination protein RadA; Va	94.29
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	94.29
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	94.28
PRK07132	299	DNA polymerase III subunit delta'; Validated	94.25
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	94.22
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	94.21
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	94.19
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	94.19
PTZ00301	210	uridine kinase; Provisional	94.19
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	94.19
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	94.17
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.15
PRK11608	326	pspF phage shock protein operon transcriptional ac	94.14
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	94.14
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	94.13
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	94.12
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	94.09
cd03216	163	ABC_Carb_Monos_I This family represents the domain	94.07
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	94.02
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	94.02
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	94.01
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	93.98
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	93.98
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	93.97
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	93.97
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	93.97
KOG0473	326	consensus Leucine-rich repeat protein [Function un	93.97
TIGR00235	207	udk uridine kinase. Model contains a number of lon	93.95
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	93.92
TIGR02236	310	recomb_radA DNA repair and recombination protein R	93.91
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	93.91
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	93.91
PRK05480	209	uridine/cytidine kinase; Provisional	93.9
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	93.82
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	93.82
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	93.74
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	93.71
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	93.7
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	93.62
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	93.62
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	93.6
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	93.59
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	93.54
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	93.54
PRK06547	172	hypothetical protein; Provisional	93.51
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	93.51
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	93.48
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	93.43
PRK06762	166	hypothetical protein; Provisional	93.4
TIGR00064	272	ftsY signal recognition particle-docking protein F	93.39
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	93.39
PRK08533	230	flagellar accessory protein FlaH; Reviewed	93.39
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	93.38
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	93.38
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	93.36
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	93.35
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	93.34
PTZ00035	337	Rad51 protein; Provisional	93.33
KOG0473	326	consensus Leucine-rich repeat protein [Function un	93.28
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	93.26
PHA00729	226	NTP-binding motif containing protein	93.25
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	93.25
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	93.25
PRK05917	290	DNA polymerase III subunit delta'; Validated	93.15
cd03246	173	ABCC_Protease_Secretion This family represents the	93.1
KOG2123	388	consensus Uncharacterized conserved protein [Funct	93.07
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	93.02
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	93.02
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	92.95
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	92.94
PRK03839	180	putative kinase; Provisional	92.92
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	92.91
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.9
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	92.89
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	92.86
PTZ00088	229	adenylate kinase 1; Provisional	92.85
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	92.81
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	92.76
PRK04040	188	adenylate kinase; Provisional	92.75
PF00154	322	RecA: recA bacterial DNA recombination protein; In	92.73
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	92.7
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	92.68
PRK08149	428	ATP synthase SpaL; Validated	92.68
PLN02348	395	phosphoribulokinase	92.67
PRK00625	173	shikimate kinase; Provisional	92.64
PRK05022	509	anaerobic nitric oxide reductase transcription reg	92.62
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	92.59
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	92.55
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	92.53
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	92.53
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	92.52
PRK15453	290	phosphoribulokinase; Provisional	92.44
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	92.43
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	92.39
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	92.37
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	92.37
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	92.36
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	92.34
PTZ00185	574	ATPase alpha subunit; Provisional	92.27
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	92.24
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	92.24
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	92.23
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	92.23
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	92.22
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	92.19
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	92.19
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	92.19
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	92.18
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	92.18
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	92.17
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	92.14
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	92.12
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	92.09
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	92.08
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	92.07
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	91.96
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	91.94
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	91.94
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	91.92
PRK05973	237	replicative DNA helicase; Provisional	91.91
PRK07594	433	type III secretion system ATPase SsaN; Validated	91.84
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	91.81
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	91.8
PRK06936	439	type III secretion system ATPase; Provisional	91.79
KOG4252	246	consensus GTP-binding protein [Signal transduction	91.78
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	91.72
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	91.72
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	91.71
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	91.69
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	91.67
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	91.62
PRK00131	175	aroK shikimate kinase; Reviewed	91.62
PRK00889	175	adenylylsulfate kinase; Provisional	91.62
PRK12678	672	transcription termination factor Rho; Provisional	91.6
PRK04328	249	hypothetical protein; Provisional	91.6
CHL00206	2281	ycf2 Ycf2; Provisional	91.57
PRK10416	318	signal recognition particle-docking protein FtsY;	91.53
) 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	91.51
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	91.5
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	91.49
PRK09099	441	type III secretion system ATPase; Provisional	91.48
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	91.48
PRK06217	183	hypothetical protein; Validated	91.44
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	91.43
PRK13765	637	ATP-dependent protease Lon; Provisional	91.4
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	91.37
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	91.34
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	91.33
PRK03846	198	adenylylsulfate kinase; Provisional	91.31
PRK05922	434	type III secretion system ATPase; Validated	91.29
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	91.29
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	91.27
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	91.2
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	91.15
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	91.11
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	91.1
PF07726	131	AAA_3: ATPase family associated with various cellu	91.1
PRK13949	169	shikimate kinase; Provisional	91.08
PRK07276	290	DNA polymerase III subunit delta'; Validated	91.06
PRK14738	206	gmk guanylate kinase; Provisional	91.03
PRK10875	615	recD exonuclease V subunit alpha; Provisional	91.01
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	91.01
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	90.98
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	90.93
PRK12339	197	2-phosphoglycerate kinase; Provisional	90.91
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	90.89
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	90.88
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	90.86
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	90.86
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	90.82
COG0714	329	MoxR-like ATPases [General function prediction onl	90.78
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	90.77
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	90.76
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	90.75
PRK13947	171	shikimate kinase; Provisional	90.71
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	90.7
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	90.7
COG4240	300	Predicted kinase [General function prediction only	90.66
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	90.65
PRK14737	186	gmk guanylate kinase; Provisional	90.62
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	90.62
PRK00300	205	gmk guanylate kinase; Provisional	90.57
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	90.52
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	90.49
PHA02774	613	E1; Provisional	90.46

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=6.4e-84  Score=785.19  Aligned_cols=629  Identities=30%  Similarity=0.450  Sum_probs=492.7

Q ss_pred             hhHHHHHHHHHHHHhcChHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHhchHHHH
Q 000803            3 ELLLSAFLDVLFDRLASPDLFNFIRQLQGGVSSELRKWERKLKLIQAVLRDAEEKQLTDEAVKMWLDDLQDLACDAEDIL   82 (1277)
Q Consensus         3 ~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~l~~a~~~~~~~~~~~~w~~~~~~~~~d~ed~l   82 (1277)
                      ++.+|..++++...+..    ++..-.++  ++.+..|+++|..++++++||++++.+...++.|.+.+++++|++||.+
T Consensus         2 ~~~~s~~~~~~~~~l~~----~~~~~~~~--~~~i~~Lk~~L~~l~~~l~d~~a~~~~~~~~~~~~e~~~~~~~~~e~~~   75 (889)
T KOG4658|consen    2 GACVSFGVEKLDQLLNR----ESECLDGK--DNYILELKENLKALQSALEDLDAKRDDLERRVNWEEDVGDLVYLAEDII   75 (889)
T ss_pred             CeEEEEehhhHHHHHHH----HHHHHhch--HHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555443322    22222333  7889999999999999999999999888999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcCCCC----------CCc--------------hHHHHHhhhcCccccCCCCCCcccccCCCCCCCC
Q 000803           83 DEFATQALEHKLMAEGLDQ----------PGS--------------SKLCKQRIELGLQLIPGGTSSTAAAQRRPPSSSV  138 (1277)
Q Consensus        83 d~~~~~~~~~~~~~~~~~~----------~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (1277)
                      +.|.......+........          ...              .++.+....++.+.................+.+.
T Consensus        76 ~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~  155 (889)
T KOG4658|consen   76 WLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPI  155 (889)
T ss_pred             HHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCC
Confidence            9998876544322111000          000              0122222233322211100000011111122222


Q ss_pred             CCCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccc-ccccCCcceEEEEEeCCCcCHHH
Q 000803          139 PTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKA-VEDSGKFDVKAWVCVSDDFDVLS  217 (1277)
Q Consensus       139 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~-~~~~~~f~~~~wv~~s~~~~~~~  217 (1277)
                      ..... ||.+..++++.+.|..++      ..+++|+||||+||||||++++|+.. ++.  +|+.++||.||+.++...
T Consensus       156 ~~~~~-VG~e~~~~kl~~~L~~d~------~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~--~Fd~~iWV~VSk~f~~~~  226 (889)
T KOG4658|consen  156 QSESD-VGLETMLEKLWNRLMEDD------VGIVGIYGMGGVGKTTLARQIFNKFDEVGN--HFDGVIWVVVSKEFTTRK  226 (889)
T ss_pred             Ccccc-ccHHHHHHHHHHHhccCC------CCEEEEECCCcccHHHHHHHHhcccchhcc--cCceEEEEEEcccccHHh
Confidence            22333 999999999999998864      28999999999999999999999987 666  999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCC--CcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccccccccc
Q 000803          218 ISKALLESITSATCDL--KTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVAST  295 (1277)
Q Consensus       218 ~~~~il~~l~~~~~~~--~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~~  295 (1277)
                      ++++|++.++......  ...++.+..|.+.|++|||+||+||||+.  .+|+.+..++|...+||+|++|||+++|+..
T Consensus       227 iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~--~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~  304 (889)
T KOG4658|consen  227 IQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEE--VDWDKIGVPFPSRENGSKVVLTTRSEEVCGR  304 (889)
T ss_pred             HHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEeccccc--ccHHhcCCCCCCccCCeEEEEEeccHhhhhc
Confidence            9999999998754432  33478899999999999999999999998  6799999999999999999999999999998


Q ss_pred             -cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhhhcCC-ChhhHHHHHhhcc
Q 000803          296 -MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTT-TYDMWDDILDSKI  373 (1277)
Q Consensus       296 -~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~-~~~~w~~~l~~~~  373 (1277)
                       ++....++++.|+.+|||.||++.+|..... ..+.++++|++|+++|+|+|||++++|+.|+.+ +..+|+++.+...
T Consensus       305 ~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~-~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~  383 (889)
T KOG4658|consen  305 AMGVDYPIEVECLTPEEAWDLFQKKVGPNTLG-SHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLK  383 (889)
T ss_pred             cccCCccccccccCccccHHHHHHhhcccccc-ccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHcccc
Confidence             7777889999999999999999999875332 233489999999999999999999999999999 8889999998765


Q ss_pred             cCCC----C-CCChHHHHHHhhhcCChhhhHHHhHhcccCCCceeChHHHHHHHHhCCccccCCChhhHHHHHHHHHHHH
Q 000803          374 WDLP----R-QSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDL  448 (1277)
Q Consensus       374 ~~~~----~-~~~i~~~l~~sy~~L~~~~k~cf~~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~~L  448 (1277)
                      +...    . .+.+.++|++||+.||+++|.||+|||+||+||.|+++.++.+|+||||+.+..++..+++.|..|+.+|
T Consensus       384 s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~L  463 (889)
T KOG4658|consen  384 SSLAADFSGMEESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEEL  463 (889)
T ss_pred             ccccCCCCchhhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHH
Confidence            4422    1 4679999999999999999999999999999999999999999999999998777889999999999999


Q ss_pred             HhCCCccccC--CCCCccchhHHHHHHHHHhcc-----ccEEEeccC-----CccccccCceeEEEeEcCccCccccchh
Q 000803          449 VSRSIFQRTG--FGSSKFAMHDLVHALAQLVSG-----ETIFRLEED-----NSSSRRFERVRHSSYACGELDGRNKFKV  516 (1277)
Q Consensus       449 ~~~~li~~~~--~~~~~~~mhdlv~~~~~~~~~-----~~~~~~~~~-----~~~~~~~~~~r~l~~~~~~~~~~~~~~~  516 (1277)
                      |+++|++..+  ....+|+|||+||++|.++++     ++..++..+     ......+..+|+++++.+....   ...
T Consensus       464 V~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~---~~~  540 (889)
T KOG4658|consen  464 VRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEENQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEH---IAG  540 (889)
T ss_pred             HHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccceEEECCcCccccccccchhheeEEEEeccchhh---ccC
Confidence            9999999876  355789999999999999999     444443332     1122334678999998875432   223


Q ss_pred             hcccccccccccccCcccceeehhhhhhhhhhcCCCCeeeEEecCCCC-CCCCCcCCCCCCccceeeccCCccccccccc
Q 000803          517 FYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYY-IGELPIPFEDLRLLRYLNLADTDIRSLPESS  595 (1277)
Q Consensus       517 ~~~~~~lrsl~~~~~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~-i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i  595 (1277)
                      ...+++++||+...+..      ....+..++|..++.||||||++|. +..+|+.|+.|.|||||+|+++.|..+|..+
T Consensus       541 ~~~~~~L~tLll~~n~~------~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l  614 (889)
T KOG4658|consen  541 SSENPKLRTLLLQRNSD------WLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGL  614 (889)
T ss_pred             CCCCCccceEEEeecch------hhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHH
Confidence            34566899999876542      1344566789999999999999875 8999999999999999999999999999999


Q ss_pred             cccccCcEEEecCCcCccccchhhccccCcCeeeecCccccccCCCCCCCCCCCcccCceeeCC
Q 000803          596 CSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGK  659 (1277)
Q Consensus       596 ~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~~p~~i~~L~~L~~L~~~~~~~  659 (1277)
                      ++|+.|.+||+..+..+..+|..+..|++||+|.+.... ...-...++.+.+|++|.......
T Consensus       615 ~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~-~~~~~~~l~el~~Le~L~~ls~~~  677 (889)
T KOG4658|consen  615 GNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSA-LSNDKLLLKELENLEHLENLSITI  677 (889)
T ss_pred             HHHHhhheeccccccccccccchhhhcccccEEEeeccc-cccchhhHHhhhcccchhhheeec
Confidence            999999999999987777787777889999999997654 111122255556666665555543

>PLN03210 Resistant to P

Probab=100.00  E-value=2.3e-62  Score=635.98  Aligned_cols=475  Identities=20%  Similarity=0.282  Sum_probs=332.0

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEe---CCC-----
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCV---SDD-----  212 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~---s~~-----  212 (1277)
                      ...+|||+..++++..+|....    +++++|+|+||||+||||||+++|+..  ..  +|+..+|+..   +..     
T Consensus       183 ~~~~vG~~~~l~~l~~lL~l~~----~~~~vvgI~G~gGiGKTTLA~~l~~~l--~~--~F~g~vfv~~~~v~~~~~~~~  254 (1153)
T PLN03210        183 FEDFVGIEDHIAKMSSLLHLES----EEVRMVGIWGSSGIGKTTIARALFSRL--SR--QFQSSVFIDRAFISKSMEIYS  254 (1153)
T ss_pred             cccccchHHHHHHHHHHHcccc----CceEEEEEEcCCCCchHHHHHHHHHHH--hh--cCCeEEEeeccccccchhhcc
Confidence            4569999999999998885432    568999999999999999999999854  33  7888877642   111     


Q ss_pred             ------cC-HHHHHHHHHHHhcCCCC-CCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEE
Q 000803          213 ------FD-VLSISKALLESITSATC-DLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMI  284 (1277)
Q Consensus       213 ------~~-~~~~~~~il~~l~~~~~-~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~ii  284 (1277)
                            +. ...++++++.++..... .....    ..+++.++++|+||||||||+.  ..|+.+.......++||+||
T Consensus       255 ~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~----~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrII  328 (1153)
T PLN03210        255 SANPDDYNMKLHLQRAFLSEILDKKDIKIYHL----GAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRII  328 (1153)
T ss_pred             cccccccchhHHHHHHHHHHHhCCCCcccCCH----HHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEE
Confidence                  01 12344555555433221 11111    3567778999999999999976  67888877666668899999


Q ss_pred             EEccccccccccCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhhhcCCChhh
Q 000803          285 ITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDM  364 (1277)
Q Consensus       285 vTtr~~~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~~~~~  364 (1277)
                      ||||+.+++..++....|+++.+++++||+||+++||+..  .+++...+++++|+++|+|+|||++++|+.|++++..+
T Consensus       329 iTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~--~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~  406 (1153)
T PLN03210        329 VITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKN--SPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKED  406 (1153)
T ss_pred             EEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCC--CCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHH
Confidence            9999999998777778999999999999999999999653  23456789999999999999999999999999999999


Q ss_pred             HHHHHhhcccCCCCCCChHHHHHHhhhcCCh-hhhHHHhHhcccCCCceeChHHHHHHHHhCCccccCCChhhHHHHHHH
Q 000803          365 WDDILDSKIWDLPRQSSILPVLRLSYHHLPS-HLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQ  443 (1277)
Q Consensus       365 w~~~l~~~~~~~~~~~~i~~~l~~sy~~L~~-~~k~cf~~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~  443 (1277)
                      |+.++++.....  +..|.++|++||++|++ ..|.||+++|+|++++.++   .+..|+|.+....           +.
T Consensus       407 W~~~l~~L~~~~--~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~~-----------~~  470 (1153)
T PLN03210        407 WMDMLPRLRNGL--DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLDV-----------NI  470 (1153)
T ss_pred             HHHHHHHHHhCc--cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCCc-----------hh
Confidence            999998755432  35799999999999987 5999999999999886553   4778888765532           12


Q ss_pred             HHHHHHhCCCccccCCCCCccchhHHHHHHHHHhccccE-------EEeccCC-----ccccccCceeEEEeEcCccCcc
Q 000803          444 CFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETI-------FRLEEDN-----SSSRRFERVRHSSYACGELDGR  511 (1277)
Q Consensus       444 ~~~~L~~~~li~~~~~~~~~~~mhdlv~~~~~~~~~~~~-------~~~~~~~-----~~~~~~~~~r~l~~~~~~~~~~  511 (1277)
                      .++.|+++||++...   .++.|||++|++|+.++.++.       +.+....     ........++++++........
T Consensus       471 ~l~~L~~ksLi~~~~---~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~  547 (1153)
T PLN03210        471 GLKNLVDKSLIHVRE---DIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDEL  547 (1153)
T ss_pred             ChHHHHhcCCEEEcC---CeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCcccee
Confidence            388999999998753   469999999999999986553       1111000     0111224566666554332211


Q ss_pred             c-cchhhcccccccccccccCcccceeehhhhhhhhhhcCCC-CeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccc
Q 000803          512 N-KFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKF-KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIR  589 (1277)
Q Consensus       512 ~-~~~~~~~~~~lrsl~~~~~~~~~~~~~~~~~~~~~~~~~l-~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~  589 (1277)
                      . ....|.++.+||.|......... .......++.+ |..+ ..||.|++.++.+..+|..| ...+|++|+|+++.+.
T Consensus       548 ~i~~~aF~~m~~L~~L~~~~~~~~~-~~~~~~~lp~~-~~~lp~~Lr~L~~~~~~l~~lP~~f-~~~~L~~L~L~~s~l~  624 (1153)
T PLN03210        548 HIHENAFKGMRNLLFLKFYTKKWDQ-KKEVRWHLPEG-FDYLPPKLRLLRWDKYPLRCMPSNF-RPENLVKLQMQGSKLE  624 (1153)
T ss_pred             eecHHHHhcCccccEEEEecccccc-cccceeecCcc-hhhcCcccEEEEecCCCCCCCCCcC-CccCCcEEECcCcccc
Confidence            0 12345566666666543321000 00000111111 2222 45777777777777777666 3567777777777777


Q ss_pred             cccccccccccCcEEEecCCcCccccchhhccccCcCeeeecCccccccCCCCCCCCCCCcccCc
Q 000803          590 SLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSN  654 (1277)
Q Consensus       590 ~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~~p~~i~~L~~L~~L~~  654 (1277)
                      .+|..+..+.+|++|+|++|+.+..+|. ++.+++|++|++++|..+..+|..++++++|+.|++
T Consensus       625 ~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L  688 (1153)
T PLN03210        625 KLWDGVHSLTGLRNIDLRGSKNLKEIPD-LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDM  688 (1153)
T ss_pred             ccccccccCCCCCEEECCCCCCcCcCCc-cccCCcccEEEecCCCCccccchhhhccCCCCEEeC
Confidence            7777777777777777777666666664 666777777777776656666665555555555543

syringae 6; Provisional

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

Probab=100.00  E-value=1.3e-41  Score=379.96  Aligned_cols=276  Identities=37%  Similarity=0.650  Sum_probs=223.7

Q ss_pred             chhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHh
Q 000803          147 REEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESI  226 (1277)
Q Consensus       147 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l  226 (1277)
                      ||.++++|.++|....    ++.++|+|+||||+||||||.+++++...+.  +|+.++|+.++...+...+++.|+.++
T Consensus         1 re~~~~~l~~~L~~~~----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~--~f~~v~wv~~~~~~~~~~~~~~i~~~l   74 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS----NEVRVVAIVGMGGIGKTTLARQVARDLRIKN--RFDGVIWVSLSKNPSLEQLLEQILRQL   74 (287)
T ss_dssp             -HHHHHHHHHHHHTTT----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCC--CCTEEEEEEEES-SCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhCCC----CCeEEEEEEcCCcCCcceeeeeccccccccc--ccccccccccccccccccccccccccc
Confidence            7899999999998754    4679999999999999999999999866555  999999999999999999999999999


Q ss_pred             cCCCC---CCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccccccccccCC-Ccee
Q 000803          227 TSATC---DLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGP-IDHY  302 (1277)
Q Consensus       227 ~~~~~---~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~~~~~-~~~~  302 (1277)
                      +....   ...+.++....+++.++++++||||||||+.  ..|+.+...++....|++||||||+..++..++. ...+
T Consensus        75 ~~~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~  152 (287)
T PF00931_consen   75 GEPDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDE--EDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVI  152 (287)
T ss_dssp             TCC-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SH--HHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEE
T ss_pred             cccccccccccccccccccchhhhccccceeeeeeeccc--ccccccccccccccccccccccccccccccccccccccc
Confidence            87743   4567888999999999999999999999987  5888888888777789999999999999887654 5789


Q ss_pred             ecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhhhcCC-ChhhHHHHHhhcccCCCC---
Q 000803          303 NLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTT-TYDMWDDILDSKIWDLPR---  378 (1277)
Q Consensus       303 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~-~~~~w~~~l~~~~~~~~~---  378 (1277)
                      ++++|+.+||++||.+.++... ....+..++.+++|+++|+|+||||+++|++|+.+ +..+|..+++...+....   
T Consensus       153 ~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~  231 (287)
T PF00931_consen  153 ELEPLSEEEALELFKKRAGRKE-SESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRD  231 (287)
T ss_dssp             ECSS--HHHHHHHHHHHHTSHS-----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSG
T ss_pred             cccccccccccccccccccccc-ccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999999999999997544 12234456788999999999999999999999776 788999988764443321   


Q ss_pred             -CCChHHHHHHhhhcCChhhhHHHhHhcccCCCceeChHHHHHHHHhCCccccC
Q 000803          379 -QSSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQS  431 (1277)
Q Consensus       379 -~~~i~~~l~~sy~~L~~~~k~cf~~~s~fp~~~~i~~~~li~~w~a~g~i~~~  431 (1277)
                       ...+..++.+||+.||+++|+||+|||+||+++.|+++.++++|+|+|+|...
T Consensus       232 ~~~~~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  232 YDRSVFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             SCHHHHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             ccccccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence             35689999999999999999999999999999999999999999999999753

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

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

Probab=100.00  E-value=1.3e-34  Score=379.90  Aligned_cols=511  Identities=20%  Similarity=0.208  Sum_probs=252.4

Q ss_pred             cCCCCeeeEEecCCCCCC-CCCcCC-CCCCccceeeccCCccc-cccccccccccCcEEEecCCcCccccchhhccccCc
Q 000803          549 LPKFKKLRLLSLQGYYIG-ELPIPF-EDLRLLRYLNLADTDIR-SLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINL  625 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~i~-~lp~~~-~~l~~Lr~L~L~~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L  625 (1277)
                      |..+++|++|+|++|.+. .+|..+ ..+.+||+|+|++|.+. .+|.  +.+.+|++|+|++|.....+|..++++++|
T Consensus        89 ~~~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~--~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L  166 (968)
T PLN00113         89 IFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPR--GSIPNLETLDLSNNMLSGEIPNDIGSFSSL  166 (968)
T ss_pred             HhCCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCccccccCc--cccCCCCEEECcCCcccccCChHHhcCCCC
Confidence            455666666666666654 455443 36666666666666665 3343  456666666666654444566666666666


Q ss_pred             CeeeecCccccccCCCCCCCCCCCcccCceeeCCCCCCCCChhccccccccCceeeecCccCCCChhhhhhhccccCCCC
Q 000803          626 CHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNL  705 (1277)
Q Consensus       626 ~~L~l~~~~~l~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L  705 (1277)
                      ++|++++|.....+|..++++++|++|++..+......+..+..+.+|+.|.  +..+.+      .......+..+   
T Consensus       167 ~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~--L~~n~l------~~~~p~~l~~l---  235 (968)
T PLN00113        167 KVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIY--LGYNNL------SGEIPYEIGGL---  235 (968)
T ss_pred             CEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEE--CcCCcc------CCcCChhHhcC---
Confidence            6666666654445666666666666666666554443344444444433332  100000      00011112233   


Q ss_pred             CceEEEecCCCCCCcchHHHHHhhhcCCCccCccEEEEeeeCCC-CCCcccCCCCCCCccEEEEcCCCCCCCCC-CCCCC
Q 000803          706 EALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGA-RFPLWIGDPLFSKMNVLELDDCWNCTSLP-SLGLL  783 (1277)
Q Consensus       706 ~~L~l~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~-~~p~~~~~~~l~~L~~L~L~~~~~~~~l~-~l~~l  783 (1277)
                                                    ++|+.|++.++... .+|..+..  +++|+.|++++|...+.+| .+..+
T Consensus       236 ------------------------------~~L~~L~L~~n~l~~~~p~~l~~--l~~L~~L~L~~n~l~~~~p~~l~~l  283 (968)
T PLN00113        236 ------------------------------TSLNHLDLVYNNLTGPIPSSLGN--LKNLQYLFLYQNKLSGPIPPSIFSL  283 (968)
T ss_pred             ------------------------------CCCCEEECcCceeccccChhHhC--CCCCCEEECcCCeeeccCchhHhhc
Confidence                                          33444444433322 23444433  4555555555554433444 44455


Q ss_pred             CCCceeeeccCCCceEeccccccccccCCCcccceeeeccCccccccccccccccccccCCcccEEeeecCCCCccCCCC
Q 000803          784 SSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPE  863 (1277)
Q Consensus       784 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~f~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~p~L~~L~l~~c~~L~~~~p~  863 (1277)
                      ++|++|+++++. +....+..+     ..+++|+.|++.++.-......      .+..+++|+.|++++| .+.+.+|.
T Consensus       284 ~~L~~L~Ls~n~-l~~~~p~~~-----~~l~~L~~L~l~~n~~~~~~~~------~~~~l~~L~~L~L~~n-~l~~~~p~  350 (968)
T PLN00113        284 QKLISLDLSDNS-LSGEIPELV-----IQLQNLEILHLFSNNFTGKIPV------ALTSLPRLQVLQLWSN-KFSGEIPK  350 (968)
T ss_pred             cCcCEEECcCCe-eccCCChhH-----cCCCCCcEEECCCCccCCcCCh------hHhcCCCCCEEECcCC-CCcCcCCh
Confidence            555555555431 111110000     1122333333322211000000      0113566666666666 44444443


Q ss_pred             C---CCCccEEEEecccccccccCCCCcceEEEeccccccccccCCchhhhhhhcccccceeecCCCCccccccCccccc
Q 000803          864 L---LPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLL  940 (1277)
Q Consensus       864 ~---l~~L~~L~l~~~~~l~~~~~~~~~L~~L~~~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~~~~~~l~~l  940 (1277)
                      .   +++|+.|++++|.....                        .+.                        .+.     
T Consensus       351 ~l~~~~~L~~L~Ls~n~l~~~------------------------~p~------------------------~~~-----  377 (968)
T PLN00113        351 NLGKHNNLTVLDLSTNNLTGE------------------------IPE------------------------GLC-----  377 (968)
T ss_pred             HHhCCCCCcEEECCCCeeEee------------------------CCh------------------------hHh-----
Confidence            2   23344444433311000                        000                        000     


Q ss_pred             cccccccccccccCcceEEEEccCCCcCCChhhhhccccccceeEeeccCCcccccCCCCCCcccceeeccccccceecc
Q 000803          941 QTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIR 1020 (1277)
Q Consensus       941 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~sL~~L~l~~~~L~~L~l~ 1020 (1277)
                                 ..++|+.|++++|.....+|. .+..+++|+.|++++|....     ..|..+..+.    .|+.|+++
T Consensus       378 -----------~~~~L~~L~l~~n~l~~~~p~-~~~~~~~L~~L~L~~n~l~~-----~~p~~~~~l~----~L~~L~Ls  436 (968)
T PLN00113        378 -----------SSGNLFKLILFSNSLEGEIPK-SLGACRSLRRVRLQDNSFSG-----ELPSEFTKLP----LVYFLDIS  436 (968)
T ss_pred             -----------CcCCCCEEECcCCEecccCCH-HHhCCCCCCEEECcCCEeee-----ECChhHhcCC----CCCEEECc
Confidence                       014566666766664444554 34556667777776664221     2222222222    33444444


Q ss_pred             CCCCCccccCcCccccccCceeeecCCCccccccccccccEEEecccCCcccccccCccCcccEEEeecccccccCcCCC
Q 000803         1021 DCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGM 1100 (1277)
Q Consensus      1021 ~~~~l~~l~~~~~~l~~L~~L~l~~c~~l~~~p~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~l~~lp~~l 1100 (1277)
                      +|...+.++..+..+++|+.|++++|...+.+|.                     ....++|+.|++++|...+.+|..+
T Consensus       437 ~N~l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p~---------------------~~~~~~L~~L~ls~n~l~~~~~~~~  495 (968)
T PLN00113        437 NNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPD---------------------SFGSKRLENLDLSRNQFSGAVPRKL  495 (968)
T ss_pred             CCcccCccChhhccCCCCcEEECcCceeeeecCc---------------------ccccccceEEECcCCccCCccChhh
Confidence            4443334443333444555555555543333332                     2223467777888877667777777


Q ss_pred             CCCCCcCEEeccCCCCcccccCCCCCCCCceEEEccccCccchhhhhhhcccccCCcccccccccCCCccCchhhhhccC
Q 000803         1101 HKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMML 1180 (1277)
Q Consensus      1101 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~~~ 1180 (1277)
                      .++++|++|++++|.....+|.                           .+.++++|+.|++++|.....+|...   ..
T Consensus       496 ~~l~~L~~L~Ls~N~l~~~~p~---------------------------~~~~l~~L~~L~Ls~N~l~~~~p~~~---~~  545 (968)
T PLN00113        496 GSLSELMQLKLSENKLSGEIPD---------------------------ELSSCKKLVSLDLSHNQLSGQIPASF---SE  545 (968)
T ss_pred             hhhhccCEEECcCCcceeeCCh---------------------------HHcCccCCCEEECCCCcccccCChhH---hC
Confidence            7788888888887654444443                           34455556666666655444454432   33


Q ss_pred             CcccceeeecccccccccCccCCCCCCCCCceeccCCCCCCCCCCCCCCCccceeeccCChhh
Q 000803         1181 PASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKL 1243 (1277)
Q Consensus      1181 ~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~~~L~~L~i~~c~~L 1243 (1277)
                      +++|++|++++|.....+| ..+.++++|+.|++++|+....+|..+.+.++....+.++|.+
T Consensus       546 l~~L~~L~Ls~N~l~~~~p-~~l~~l~~L~~l~ls~N~l~~~~p~~~~~~~~~~~~~~~n~~l  607 (968)
T PLN00113        546 MPVLSQLDLSQNQLSGEIP-KNLGNVESLVQVNISHNHLHGSLPSTGAFLAINASAVAGNIDL  607 (968)
T ss_pred             cccCCEEECCCCcccccCC-hhHhcCcccCEEeccCCcceeeCCCcchhcccChhhhcCCccc
Confidence            4556666666665444555 4566777777777777766666776555545555555565544

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

Probab=100.00  E-value=1.9e-33  Score=368.76  Aligned_cols=507  Identities=19%  Similarity=0.209  Sum_probs=326.5

Q ss_pred             CeeeEEecCCCCCC-CCCcCCCCCCccceeeccCCccc-ccccccc-ccccCcEEEecCCcCccccchhhccccCcCeee
Q 000803          553 KKLRLLSLQGYYIG-ELPIPFEDLRLLRYLNLADTDIR-SLPESSC-SLLNLEILILRNCSSLIKLPSKIRRLINLCHLD  629 (1277)
Q Consensus       553 ~~Lr~L~L~~~~i~-~lp~~~~~l~~Lr~L~L~~~~i~-~lp~~i~-~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~  629 (1277)
                      .+++.|+|+++.+. .+|..|..+++|++|+|++|.+. .+|..+. .+.+|++|+|++|.....+|.  +.+++|++|+
T Consensus        69 ~~v~~L~L~~~~i~~~~~~~~~~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~--~~l~~L~~L~  146 (968)
T PLN00113         69 SRVVSIDLSGKNISGKISSAIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPR--GSIPNLETLD  146 (968)
T ss_pred             CcEEEEEecCCCccccCChHHhCCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCccccccCc--cccCCCCEEE
Confidence            47899999999875 45788999999999999999997 7898776 999999999999766566775  6789999999


Q ss_pred             ecCccccccCCCCCCCCCCCcccCceeeCCCCCCCCChhccccccccCceeeecCccCCCChhhhhhhccccCCCCCceE
Q 000803          630 IRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALS  709 (1277)
Q Consensus       630 l~~~~~l~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L~  709 (1277)
                      +++|.....+|..++++++|++|++.++......+..+.++++|+.|                                +
T Consensus       147 Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L--------------------------------~  194 (968)
T PLN00113        147 LSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFL--------------------------------T  194 (968)
T ss_pred             CcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCee--------------------------------e
Confidence            99998555788889999999999998887655444445544444443                                3


Q ss_pred             EEecCCCCCCcchHHHHHhhhcCCCccCccEEEEeeeCCC-CCCcccCCCCCCCccEEEEcCCCCCCCCC-CCCCCCCCc
Q 000803          710 LEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGA-RFPLWIGDPLFSKMNVLELDDCWNCTSLP-SLGLLSSLR  787 (1277)
Q Consensus       710 l~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~-~~p~~~~~~~l~~L~~L~L~~~~~~~~l~-~l~~l~~L~  787 (1277)
                      ++.+...         ......+..+++|+.|++.++... .+|.++..  +++|+.|++++|...+.+| .++.+++|+
T Consensus       195 L~~n~l~---------~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~--l~~L~~L~L~~n~l~~~~p~~l~~l~~L~  263 (968)
T PLN00113        195 LASNQLV---------GQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGG--LTSLNHLDLVYNNLTGPIPSSLGNLKNLQ  263 (968)
T ss_pred             ccCCCCc---------CcCChHHcCcCCccEEECcCCccCCcCChhHhc--CCCCCEEECcCceeccccChhHhCCCCCC
Confidence            3222100         011122334455555555555443 35555544  6666777776665544555 566666666


Q ss_pred             eeeeccCCCceEeccccccccccCCCcccceeeeccCccccccccccccccccccCCcccEEeeecCCCCccCCCCC---
Q 000803          788 DLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPEL---  864 (1277)
Q Consensus       788 ~L~l~~~~~l~~i~~~~~~~~~~~~f~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~p~L~~L~l~~c~~L~~~~p~~---  864 (1277)
                      .|.++++.-...++..                                    +..+++|+.|++++| .+.+.+|..   
T Consensus       264 ~L~L~~n~l~~~~p~~------------------------------------l~~l~~L~~L~Ls~n-~l~~~~p~~~~~  306 (968)
T PLN00113        264 YLFLYQNKLSGPIPPS------------------------------------IFSLQKLISLDLSDN-SLSGEIPELVIQ  306 (968)
T ss_pred             EEECcCCeeeccCchh------------------------------------HhhccCcCEEECcCC-eeccCCChhHcC
Confidence            6666553211111100                                    113566677777666 454455532   


Q ss_pred             CCCccEEEEecccccccccCCCCcceEEEeccccccccccCCchhhhhhhcccccceeecCCCCccccccCccccccccc
Q 000803          865 LPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTET  944 (1277)
Q Consensus       865 l~~L~~L~l~~~~~l~~~~~~~~~L~~L~~~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~~~~~~l~~l~~~~  944 (1277)
                      +++|+.|++.+|......                                                +..+..        
T Consensus       307 l~~L~~L~l~~n~~~~~~------------------------------------------------~~~~~~--------  330 (968)
T PLN00113        307 LQNLEILHLFSNNFTGKI------------------------------------------------PVALTS--------  330 (968)
T ss_pred             CCCCcEEECCCCccCCcC------------------------------------------------ChhHhc--------
Confidence            344444444443211100                                                000000        


Q ss_pred             cccccccccCcceEEEEccCCCcCCChhhhhccccccceeEeeccCCcccccCCCCCCcccceeeccccccceeccCCCC
Q 000803          945 ISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQ 1024 (1277)
Q Consensus       945 ~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~sL~~L~l~~~~L~~L~l~~~~~ 1024 (1277)
                              .++|+.|++++|.....+|. .+..+++|+.|++++|....     ..|..+..+.    +++.|++++|..
T Consensus       331 --------l~~L~~L~L~~n~l~~~~p~-~l~~~~~L~~L~Ls~n~l~~-----~~p~~~~~~~----~L~~L~l~~n~l  392 (968)
T PLN00113        331 --------LPRLQVLQLWSNKFSGEIPK-NLGKHNNLTVLDLSTNNLTG-----EIPEGLCSSG----NLFKLILFSNSL  392 (968)
T ss_pred             --------CCCCCEEECcCCCCcCcCCh-HHhCCCCCcEEECCCCeeEe-----eCChhHhCcC----CCCEEECcCCEe
Confidence                    14566666666664444554 34556667777776654221     2222222222    344555555554


Q ss_pred             CccccCcCccccccCceeeecCCCccccccccccccEEEecccCCcccccccCccCcccEEEeecccccccCcCCCCCCC
Q 000803         1025 LTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQ 1104 (1277)
Q Consensus      1025 l~~l~~~~~~l~~L~~L~l~~c~~l~~~p~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~l~~lp~~l~~l~ 1104 (1277)
                      .+.+|..+..+++|+.|++++|+..+.+|..+.+                    .++|+.|++++|...+.+|..+..++
T Consensus       393 ~~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~--------------------l~~L~~L~Ls~N~l~~~~~~~~~~l~  452 (968)
T PLN00113        393 EGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTK--------------------LPLVYFLDISNNNLQGRINSRKWDMP  452 (968)
T ss_pred             cccCCHHHhCCCCCCEEECcCCEeeeECChhHhc--------------------CCCCCEEECcCCcccCccChhhccCC
Confidence            4555555556666666776666554444443322                    23456777777766666666667778


Q ss_pred             CcCEEeccCCCCcccccCCCCCCCCceEEEccccCccchhhhhhhcccccCCcccccccccCCCccCchhhhhccCCccc
Q 000803         1105 SLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASL 1184 (1277)
Q Consensus      1105 ~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~~~~~~L 1184 (1277)
                      +|+.|++++|.....+|......+|+.|++++    +.+....+..+.++++|+.|++++|.....+|...   ..+++|
T Consensus       453 ~L~~L~L~~n~~~~~~p~~~~~~~L~~L~ls~----n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~p~~~---~~l~~L  525 (968)
T PLN00113        453 SLQMLSLARNKFFGGLPDSFGSKRLENLDLSR----NQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDEL---SSCKKL  525 (968)
T ss_pred             CCcEEECcCceeeeecCcccccccceEEECcC----CccCCccChhhhhhhccCEEECcCCcceeeCChHH---cCccCC
Confidence            88888888877666666655556788888743    44554555568899999999999998777888754   567899


Q ss_pred             ceeeecccccccccCccCCCCCCCCCceeccCCCCCCCCCCC-CCCCccceeeccCChhh
Q 000803         1185 TFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEV-GLPSSLLSLEIKNCPKL 1243 (1277)
Q Consensus      1185 ~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~lp~~-~~~~~L~~L~i~~c~~L 1243 (1277)
                      ++|++++|.....+| ..+..+++|+.|++++|.....+|.. .-.++|+.+++++|+..
T Consensus       526 ~~L~Ls~N~l~~~~p-~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~l~ls~N~l~  584 (968)
T PLN00113        526 VSLDLSHNQLSGQIP-ASFSEMPVLSQLDLSQNQLSGEIPKNLGNVESLVQVNISHNHLH  584 (968)
T ss_pred             CEEECCCCcccccCC-hhHhCcccCCEEECCCCcccccCChhHhcCcccCEEeccCCcce
Confidence            999999997666666 67899999999999999777778863 23578999999999754

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

Probab=99.92  E-value=2e-28  Score=253.28  Aligned_cols=262  Identities=23%  Similarity=0.275  Sum_probs=143.5

Q ss_pred             CeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCeeeecC
Q 000803          553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRG  632 (1277)
Q Consensus       553 ~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~  632 (1277)
                      ..|..|.+++|.+..+-+.+.++..|.+|++++|.+.++|.+|+.+..++.|+.++ +++.++|+.++.+.+|++|++++
T Consensus        45 v~l~~lils~N~l~~l~~dl~nL~~l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~-n~ls~lp~~i~s~~~l~~l~~s~  123 (565)
T KOG0472|consen   45 VDLQKLILSHNDLEVLREDLKNLACLTVLNVHDNKLSQLPAAIGELEALKSLNVSH-NKLSELPEQIGSLISLVKLDCSS  123 (565)
T ss_pred             cchhhhhhccCchhhccHhhhcccceeEEEeccchhhhCCHHHHHHHHHHHhhccc-chHhhccHHHhhhhhhhhhhccc
Confidence            34555666666666665566666666666666666666666666666666666666 35666666666666666666666


Q ss_pred             ccccccCCCCCCCCCCCcccCceeeCCCCCCCCChhccccccccCceeeecCccCCCChhhhhhhccccCCCCCceEEEe
Q 000803          633 AILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEW  712 (1277)
Q Consensus       633 ~~~l~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L~l~~  712 (1277)
                      |. +..+|.+|+.+..|..|+..++.+.+. +..+..+.++..+.  +..+                    +++      
T Consensus       124 n~-~~el~~~i~~~~~l~dl~~~~N~i~sl-p~~~~~~~~l~~l~--~~~n--------------------~l~------  173 (565)
T KOG0472|consen  124 NE-LKELPDSIGRLLDLEDLDATNNQISSL-PEDMVNLSKLSKLD--LEGN--------------------KLK------  173 (565)
T ss_pred             cc-eeecCchHHHHhhhhhhhccccccccC-chHHHHHHHHHHhh--cccc--------------------chh------
Confidence            65 566666666666666666666555543 44444454444432  0000                    000      


Q ss_pred             cCCCCCCcchHHHHHhhhcCCCccCccEEEEeeeCCCCCCcccCCCCCCCccEEEEcCCCCCCCCCCCCCCCCCceeeec
Q 000803          713 GSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIK  792 (1277)
Q Consensus       713 ~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~l~  792 (1277)
                                    ...+..-.+..|++|+...+....+|..++.  +.+|..|++..| .+..+|.++.+..|++|.+.
T Consensus       174 --------------~l~~~~i~m~~L~~ld~~~N~L~tlP~~lg~--l~~L~~LyL~~N-ki~~lPef~gcs~L~Elh~g  236 (565)
T KOG0472|consen  174 --------------ALPENHIAMKRLKHLDCNSNLLETLPPELGG--LESLELLYLRRN-KIRFLPEFPGCSLLKELHVG  236 (565)
T ss_pred             --------------hCCHHHHHHHHHHhcccchhhhhcCChhhcc--hhhhHHHHhhhc-ccccCCCCCccHHHHHHHhc
Confidence                          0001111134455555555666667776665  677777777776 45566777777777777775


Q ss_pred             cCCCceEeccccccccccCCCcccceeeeccCccccccccccccccccccCCcccEEeeecCCCCccCCCCCCCC--ccE
Q 000803          793 RMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPS--LKT  870 (1277)
Q Consensus       793 ~~~~l~~i~~~~~~~~~~~~f~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~p~L~~L~l~~c~~L~~~~p~~l~~--L~~  870 (1277)
                      . +.++.++.+...     .+++|.+|++.+. ++.+...+..      .+.+|+.|+++++ .++ .+|..+.+  |+.
T Consensus       237 ~-N~i~~lpae~~~-----~L~~l~vLDLRdN-klke~Pde~c------lLrsL~rLDlSNN-~is-~Lp~sLgnlhL~~  301 (565)
T KOG0472|consen  237 E-NQIEMLPAEHLK-----HLNSLLVLDLRDN-KLKEVPDEIC------LLRSLERLDLSNN-DIS-SLPYSLGNLHLKF  301 (565)
T ss_pred             c-cHHHhhHHHHhc-----ccccceeeecccc-ccccCchHHH------HhhhhhhhcccCC-ccc-cCCcccccceeee
Confidence            4 566665554432     2444444444432 1222221111      3455666666666 454 44443333  344


Q ss_pred             EEEeccc
Q 000803          871 LVVSKCQ  877 (1277)
Q Consensus       871 L~l~~~~  877 (1277)
                      |.+.|++
T Consensus       302 L~leGNP  308 (565)
T KOG0472|consen  302 LALEGNP  308 (565)
T ss_pred             hhhcCCc
Confidence            4444443

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

Probab=99.88  E-value=6.3e-25  Score=251.54  Aligned_cols=459  Identities=24%  Similarity=0.261  Sum_probs=272.5

Q ss_pred             cCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCee
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHL  628 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L  628 (1277)
                      ..+.-+|++||+++|.+..+|..+..+.+|+.|+++.|.|...|.+++++.+|++|+|.+ +.+..+|.++..+++|++|
T Consensus        41 ~~~~v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~-n~l~~lP~~~~~lknl~~L  119 (1081)
T KOG0618|consen   41 VEKRVKLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKN-NRLQSLPASISELKNLQYL  119 (1081)
T ss_pred             hhheeeeEEeeccccccccCCchhhhHHHHhhcccchhhHhhCchhhhhhhcchhheecc-chhhcCchhHHhhhccccc
Confidence            333445999999999999999999999999999999999999999999999999999987 6889999999999999999


Q ss_pred             eecCccccccCCCCCCCCCCCcccCceeeCCCCCCCCChhccccccccCceeeecCccCCCChhhhhhhccccCCCCCce
Q 000803          629 DIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEAL  708 (1277)
Q Consensus       629 ~l~~~~~l~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L  708 (1277)
                      ++++|. ...+|.-+..++.+..+...+|....    .+++..                                 ++.+
T Consensus       120 dlS~N~-f~~~Pl~i~~lt~~~~~~~s~N~~~~----~lg~~~---------------------------------ik~~  161 (1081)
T KOG0618|consen  120 DLSFNH-FGPIPLVIEVLTAEEELAASNNEKIQ----RLGQTS---------------------------------IKKL  161 (1081)
T ss_pred             ccchhc-cCCCchhHHhhhHHHHHhhhcchhhh----hhcccc---------------------------------chhh
Confidence            999987 77788888888887777665551110    011110                                 1111


Q ss_pred             EEEecCCCCCCcchHHHHHhhhcCCCccCccEEEEeeeCCCCCCcccCCCCCCCcc-EEEEcCCCCCCCCCCCCCCCCCc
Q 000803          709 SLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMN-VLELDDCWNCTSLPSLGLLSSLR  787 (1277)
Q Consensus       709 ~l~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~-~L~L~~~~~~~~l~~l~~l~~L~  787 (1277)
                      ++..+.                            +.    ..++..+     .+++ .|+|+.|...  .-.+..+++|+
T Consensus       162 ~l~~n~----------------------------l~----~~~~~~i-----~~l~~~ldLr~N~~~--~~dls~~~~l~  202 (1081)
T KOG0618|consen  162 DLRLNV----------------------------LG----GSFLIDI-----YNLTHQLDLRYNEME--VLDLSNLANLE  202 (1081)
T ss_pred             hhhhhh----------------------------cc----cchhcch-----hhhheeeecccchhh--hhhhhhccchh
Confidence            111000                            00    0111111     1222 3566555322  11233333444


Q ss_pred             eeeeccCCCceEeccccccccccCCCcccceeeeccCccccccccccccccccccCCcccEEeeecCCCCccCCCCCCCC
Q 000803          788 DLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPS  867 (1277)
Q Consensus       788 ~L~l~~~~~l~~i~~~~~~~~~~~~f~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~p~L~~L~l~~c~~L~~~~p~~l~~  867 (1277)
                      .|.... +.+..+                   .+                    .-|+|+.|+..+|+-.+ ..+     
T Consensus       203 ~l~c~r-n~ls~l-------------------~~--------------------~g~~l~~L~a~~n~l~~-~~~-----  236 (1081)
T KOG0618|consen  203 VLHCER-NQLSEL-------------------EI--------------------SGPSLTALYADHNPLTT-LDV-----  236 (1081)
T ss_pred             hhhhhh-cccceE-------------------Ee--------------------cCcchheeeeccCccee-ecc-----
Confidence            333321 111111                   11                    23455555555552211 110     


Q ss_pred             ccEEEEecccccccccCCCCcceEEEeccccccccccCCchhhhhhhcccccceeecCCCCccccccCcccccccccccc
Q 000803          868 LKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISN  947 (1277)
Q Consensus       868 L~~L~l~~~~~l~~~~~~~~~L~~L~~~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~~~~~~l~~l~~~~~~~  947 (1277)
                                                                                                      
T Consensus       237 --------------------------------------------------------------------------------  236 (1081)
T KOG0618|consen  237 --------------------------------------------------------------------------------  236 (1081)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             ccccccCcceEEEEccCCCcCCChhhhhccccccceeEeeccCCcccccCCCC-CCcccceeeccccccceeccCCCCCc
Q 000803          948 ALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKL-PSSLKSLQIENLTLESLKIRDCPQLT 1026 (1277)
Q Consensus       948 ~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~-~~sL~~L~l~~~~L~~L~l~~~~~l~ 1026 (1277)
                        .+.|.+|++++++.+. +..+| ++...+.+|+.|++.+|.. ..++.... ..+|+.|.+.+|           .++
T Consensus       237 --~p~p~nl~~~dis~n~-l~~lp-~wi~~~~nle~l~~n~N~l-~~lp~ri~~~~~L~~l~~~~n-----------el~  300 (1081)
T KOG0618|consen  237 --HPVPLNLQYLDISHNN-LSNLP-EWIGACANLEALNANHNRL-VALPLRISRITSLVSLSAAYN-----------ELE  300 (1081)
T ss_pred             --ccccccceeeecchhh-hhcch-HHHHhcccceEecccchhH-HhhHHHHhhhhhHHHHHhhhh-----------hhh
Confidence              0113566777777766 66677 4556677777777776542 22221111 123333332222           233


Q ss_pred             cccCcCccccccCceeeecCCCcccccccccc-----ccEEEecccCCcccccc--cCccCcccEEEeecccccccCcCC
Q 000803         1027 CLSSGIHLLEALEDLHIRNCPKLESIPKGLHK-----LRSIYIKKCPSLVSLAE--KGLPNTISHVTISYCEKLDALPNG 1099 (1277)
Q Consensus      1027 ~l~~~~~~l~~L~~L~l~~c~~l~~~p~~l~~-----L~~L~l~~c~~l~~l~~--~~~~~~L~~L~l~~~~~l~~lp~~ 1099 (1277)
                      .+|.....+.+|++|++..| .+..+|..+-.     |+.|..+. ..+...+.  +.....|+.|.+.+|..-...-..
T Consensus       301 yip~~le~~~sL~tLdL~~N-~L~~lp~~~l~v~~~~l~~ln~s~-n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~  378 (1081)
T KOG0618|consen  301 YIPPFLEGLKSLRTLDLQSN-NLPSLPDNFLAVLNASLNTLNVSS-NKLSTLPSYEENNHAALQELYLANNHLTDSCFPV  378 (1081)
T ss_pred             hCCCcccccceeeeeeehhc-cccccchHHHhhhhHHHHHHhhhh-ccccccccccchhhHHHHHHHHhcCcccccchhh
Confidence            34555545667777777776 35555542111     22222221 22333321  122235666666666555555555


Q ss_pred             CCCCCCcCEEeccCCCCcccccCCCCCCCCceEEEccccCccchhhhhhhcccccCCcccccccccCCCccCchhhhhcc
Q 000803         1100 MHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMM 1179 (1277)
Q Consensus      1100 l~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~~ 1179 (1277)
                      +.++.+||.|++++ +.+.+||.                          ..++++..|+.|++||| .+..+|...   .
T Consensus       379 l~~~~hLKVLhLsy-NrL~~fpa--------------------------s~~~kle~LeeL~LSGN-kL~~Lp~tv---a  427 (1081)
T KOG0618|consen  379 LVNFKHLKVLHLSY-NRLNSFPA--------------------------SKLRKLEELEELNLSGN-KLTTLPDTV---A  427 (1081)
T ss_pred             hccccceeeeeecc-cccccCCH--------------------------HHHhchHHhHHHhcccc-hhhhhhHHH---H
Confidence            66677777777766 45555554                          35778888899999986 677777644   5


Q ss_pred             CCcccceeeecccccccccCccCCCCCCCCCceeccCCCCCCCCC-CCCCC-CccceeeccCChhhHHHhccCCCCCccc
Q 000803         1180 LPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFP-EVGLP-SSLLSLEIKNCPKLRKQCKRDRGKEWSK 1257 (1277)
Q Consensus      1180 ~~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~lp-~~~~~-~~L~~L~i~~c~~L~~~~~~~~~~~w~~ 1257 (1277)
                      .+..|++|...++ ++..+|  .+..+++|+.+|++.| +++.+. ....| ++|+.||++|++.+.-     .....+.
T Consensus       428 ~~~~L~tL~ahsN-~l~~fP--e~~~l~qL~~lDlS~N-~L~~~~l~~~~p~p~LkyLdlSGN~~l~~-----d~~~l~~  498 (1081)
T KOG0618|consen  428 NLGRLHTLRAHSN-QLLSFP--ELAQLPQLKVLDLSCN-NLSEVTLPEALPSPNLKYLDLSGNTRLVF-----DHKTLKV  498 (1081)
T ss_pred             hhhhhHHHhhcCC-ceeech--hhhhcCcceEEecccc-hhhhhhhhhhCCCcccceeeccCCccccc-----chhhhHH
Confidence            6777888887775 577777  5889999999999977 566543 33457 8999999999986421     1234556


Q ss_pred             eeccceeEECCc
Q 000803         1258 IARIPCVKIDDK 1269 (1277)
Q Consensus      1258 ~~~i~~~~i~~~ 1269 (1277)
                      .+++...+|+-+
T Consensus       499 l~~l~~~~i~~~  510 (1081)
T KOG0618|consen  499 LKSLSQMDITLN  510 (1081)
T ss_pred             hhhhhheecccC
Confidence            666666666544

>PLN03210 Resistant to P

Probab=99.88  E-value=1.4e-21  Score=255.20  Aligned_cols=106  Identities=22%  Similarity=0.423  Sum_probs=60.8

Q ss_pred             cEEEeecccccccCcCCCCCCCCcCEEeccCCCCcccccCCCCCCCCceEEEccccCccchhhhhhhcccccCCcccccc
Q 000803         1083 SHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSI 1162 (1277)
Q Consensus      1083 ~~L~l~~~~~l~~lp~~l~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~l~~L~~L~l 1162 (1277)
                      +.|++++|..++.+|..+ ++++|+.|++++|+.+..+|.  .+.+|+.|++++    +.++.+ |..+.++++|+.|++
T Consensus       805 ~~L~Ls~C~~L~~LP~~~-~L~sL~~L~Ls~c~~L~~~p~--~~~nL~~L~Ls~----n~i~~i-P~si~~l~~L~~L~L  876 (1153)
T PLN03210        805 EHLEIENCINLETLPTGI-NLESLESLDLSGCSRLRTFPD--ISTNISDLNLSR----TGIEEV-PWWIEKFSNLSFLDM  876 (1153)
T ss_pred             CEEECCCCCCcCeeCCCC-CccccCEEECCCCCccccccc--cccccCEeECCC----CCCccC-hHHHhcCCCCCEEEC
Confidence            444444444444454443 455555666665555555443  234455555522    233322 224667788888888


Q ss_pred             cccCCCccCchhhhhccCCcccceeeecccccccccC
Q 000803         1163 EECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLS 1199 (1277)
Q Consensus      1163 ~~~~~l~~lp~~~~~~~~~~~L~~L~l~~~~~l~~l~ 1199 (1277)
                      ++|+.+..+|...   ..+++|+.+++++|.+|..++
T Consensus       877 ~~C~~L~~l~~~~---~~L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        877 NGCNNLQRVSLNI---SKLKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             CCCCCcCccCccc---ccccCCCeeecCCCccccccc
Confidence            8888887777632   345667777777777776554

syringae 6; Provisional

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

Probab=99.85  E-value=2.7e-22  Score=217.64  Aligned_cols=263  Identities=21%  Similarity=0.236  Sum_probs=178.0

Q ss_pred             CcceEEEEccCCCcCCChhhhhccccccceeEeeccCCccc--ccCCCCCCcccceeeccccccceeccCCCCCccccCc
Q 000803          954 RNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKF--VTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSG 1031 (1277)
Q Consensus       954 ~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~--~~~~~~~~sL~~L~l~~~~L~~L~l~~~~~l~~l~~~ 1031 (1277)
                      .+|.+|.|+.|. ++.+|...|.+++.|+.|++..|..-..  ..-.+ ..||++|.+..|.+..|+          -..
T Consensus       197 nsL~tlkLsrNr-ittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqg-L~Sl~nlklqrN~I~kL~----------DG~  264 (873)
T KOG4194|consen  197 NSLLTLKLSRNR-ITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQG-LPSLQNLKLQRNDISKLD----------DGA  264 (873)
T ss_pred             chheeeecccCc-ccccCHHHhhhcchhhhhhccccceeeehhhhhcC-chhhhhhhhhhcCccccc----------Ccc
Confidence            478888899988 8899988898899999999988753211  11112 235555555554433332          123


Q ss_pred             CccccccCceeeecCCCccccc-cccccccEEEecccCCcccccccCccCcccEEEeecccccccCcCCCCCCCCcCEEe
Q 000803         1032 IHLLEALEDLHIRNCPKLESIP-KGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLK 1110 (1277)
Q Consensus      1032 ~~~l~~L~~L~l~~c~~l~~~p-~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~l~~lp~~l~~l~~L~~L~ 1110 (1277)
                      |..+.+++.|+++.|+ +..+. .++..                    .++|+.|++|+|..-..-+.++..+++|++|+
T Consensus       265 Fy~l~kme~l~L~~N~-l~~vn~g~lfg--------------------Lt~L~~L~lS~NaI~rih~d~WsftqkL~~Ld  323 (873)
T KOG4194|consen  265 FYGLEKMEHLNLETNR-LQAVNEGWLFG--------------------LTSLEQLDLSYNAIQRIHIDSWSFTQKLKELD  323 (873)
T ss_pred             eeeecccceeecccch-hhhhhcccccc--------------------cchhhhhccchhhhheeecchhhhcccceeEe
Confidence            3456677777777764 22221 12222                    23557777777755444466777788888888


Q ss_pred             ccCCCCcccccCCCC--CCCCceEEEccccCccchhhhhhhcccccCCcccccccccCCCccCchhhhhccCCcccceee
Q 000803         1111 IKECPSILSFSEEGF--PTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLI 1188 (1277)
Q Consensus      1111 l~~c~~l~~l~~~~~--~~~L~~L~l~~~~~~~~l~~~~~~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~~~~~~L~~L~ 1188 (1277)
                      +++ +.++.++++.+  +..|++|.+    ..|.+..+.+..|..+.+|+.|++++|.....+.+....+..+++|+.|+
T Consensus       324 Ls~-N~i~~l~~~sf~~L~~Le~LnL----s~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~  398 (873)
T KOG4194|consen  324 LSS-NRITRLDEGSFRVLSQLEELNL----SHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLR  398 (873)
T ss_pred             ccc-cccccCChhHHHHHHHhhhhcc----cccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhhee
Confidence            877 67888877665  467888888    44788888888899999999999999765443333332345588899999


Q ss_pred             ecccccccccCccCCCCCCCCCceeccCCCCCCCCCCCCCCCccceeeccCChhhHHHhccCCCCCcc
Q 000803         1189 LRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWS 1256 (1277)
Q Consensus      1189 l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~w~ 1256 (1277)
                      +.++ +++.++..+|..|.+||+|++.+|+-.+.-|+..-+..|++|.+..-.-| +.|+-.|...|.
T Consensus       399 l~gN-qlk~I~krAfsgl~~LE~LdL~~NaiaSIq~nAFe~m~Lk~Lv~nSssfl-CDCql~Wl~qWl  464 (873)
T KOG4194|consen  399 LTGN-QLKSIPKRAFSGLEALEHLDLGDNAIASIQPNAFEPMELKELVMNSSSFL-CDCQLKWLAQWL  464 (873)
T ss_pred             ecCc-eeeecchhhhccCcccceecCCCCcceeecccccccchhhhhhhcccceE-EeccHHHHHHHH
Confidence            9997 79999999999999999999999954443354444567888876554333 356666666664

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

Probab=99.84  E-value=6.4e-23  Score=223.30  Aligned_cols=184  Identities=22%  Similarity=0.285  Sum_probs=117.4

Q ss_pred             ccccceeEeeccCCcccccCCCCCCcccceeeccccccceeccCCCCCccccCcCccccccCceeeecCCCccccccccc
Q 000803          978 NSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLH 1057 (1277)
Q Consensus       978 l~~L~~L~l~~c~~l~~~~~~~~~~sL~~L~l~~~~L~~L~l~~~~~l~~l~~~~~~l~~L~~L~l~~c~~l~~~p~~l~ 1057 (1277)
                      +++|+.|++++....    ...+|.+|..|.    +|..++++.+ ++..+|..+..+++|+.|++|+|. ++.+...  
T Consensus       196 mtsL~vLhms~TqRT----l~N~Ptsld~l~----NL~dvDlS~N-~Lp~vPecly~l~~LrrLNLS~N~-iteL~~~--  263 (1255)
T KOG0444|consen  196 MTSLSVLHMSNTQRT----LDNIPTSLDDLH----NLRDVDLSEN-NLPIVPECLYKLRNLRRLNLSGNK-ITELNMT--  263 (1255)
T ss_pred             chhhhhhhcccccch----hhcCCCchhhhh----hhhhcccccc-CCCcchHHHhhhhhhheeccCcCc-eeeeecc--
Confidence            444555555543211    123455555444    4445555432 455566666677778888888874 2221110  


Q ss_pred             cccEEEecccCCcccccccCccCcccEEEeecccccccCcCCCCCCCCcCEEeccCCCCcccccCCCCCCCCceEEEccc
Q 000803         1058 KLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGG 1137 (1277)
Q Consensus      1058 ~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~l~~lp~~l~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~ 1137 (1277)
                                        .+.-.+|++|++|.| .++.+|..+..++.|+.|.+.+ ++++   ..+             
T Consensus       264 ------------------~~~W~~lEtLNlSrN-QLt~LP~avcKL~kL~kLy~n~-NkL~---FeG-------------  307 (1255)
T KOG0444|consen  264 ------------------EGEWENLETLNLSRN-QLTVLPDAVCKLTKLTKLYANN-NKLT---FEG-------------  307 (1255)
T ss_pred             ------------------HHHHhhhhhhccccc-hhccchHHHhhhHHHHHHHhcc-Cccc---ccC-------------
Confidence                              111235677788887 6888999999999999998866 3432   112             


Q ss_pred             cCccchhhhhhhcccccCCcccccccccCCCccCchhhhhccCCcccceeeecccccccccCccCCCCCCCCCceeccCC
Q 000803         1138 VDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDC 1217 (1277)
Q Consensus      1138 ~~~~~l~~~~~~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c 1217 (1277)
                               +|.+++.+..|+.+...+| .++-+|++.   .-+..|+.|.+.++ .|-.+| .++.-|+.|+.||+.+|
T Consensus       308 ---------iPSGIGKL~~Levf~aanN-~LElVPEgl---cRC~kL~kL~L~~N-rLiTLP-eaIHlL~~l~vLDlreN  372 (1255)
T KOG0444|consen  308 ---------IPSGIGKLIQLEVFHAANN-KLELVPEGL---CRCVKLQKLKLDHN-RLITLP-EAIHLLPDLKVLDLREN  372 (1255)
T ss_pred             ---------CccchhhhhhhHHHHhhcc-ccccCchhh---hhhHHHHHhccccc-ceeech-hhhhhcCCcceeeccCC
Confidence                     2346888899999998875 677788764   45667888877765 577777 57888888888888888


Q ss_pred             CCCCCCC
Q 000803         1218 PNLTSFP 1224 (1277)
Q Consensus      1218 ~~l~~lp 1224 (1277)
                      |++-.-|
T Consensus       373 pnLVMPP  379 (1255)
T KOG0444|consen  373 PNLVMPP  379 (1255)
T ss_pred             cCccCCC
Confidence            8875433

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

Probab=99.84  E-value=6.8e-24  Score=219.97  Aligned_cols=238  Identities=25%  Similarity=0.298  Sum_probs=157.9

Q ss_pred             cCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCee
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHL  628 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L  628 (1277)
                      +.++..|.||++++|.+..+|.+++.+..++.|+.++|++.++|+.++.+.+|..|+.++ +.+.++|++|+.+..|..|
T Consensus        64 l~nL~~l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~-n~~~el~~~i~~~~~l~dl  142 (565)
T KOG0472|consen   64 LKNLACLTVLNVHDNKLSQLPAAIGELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSS-NELKELPDSIGRLLDLEDL  142 (565)
T ss_pred             hhcccceeEEEeccchhhhCCHHHHHHHHHHHhhcccchHhhccHHHhhhhhhhhhhccc-cceeecCchHHHHhhhhhh
Confidence            456777888888888888888888888888888888888888888888888888888887 4677778888888888888


Q ss_pred             eecCccccccCCCCCCCCCCCcccCceeeCCCCCCCCChhccccccccCceeeecCccCCCChhhhhhhccccCCCCCce
Q 000803          629 DIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEAL  708 (1277)
Q Consensus       629 ~l~~~~~l~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L  708 (1277)
                      +..+|. +.++|.+++.+.+|..|.+.++......+..+. ++.|++|.  .+       ...-+..+..++.+.+|+.|
T Consensus       143 ~~~~N~-i~slp~~~~~~~~l~~l~~~~n~l~~l~~~~i~-m~~L~~ld--~~-------~N~L~tlP~~lg~l~~L~~L  211 (565)
T KOG0472|consen  143 DATNNQ-ISSLPEDMVNLSKLSKLDLEGNKLKALPENHIA-MKRLKHLD--CN-------SNLLETLPPELGGLESLELL  211 (565)
T ss_pred             hccccc-cccCchHHHHHHHHHHhhccccchhhCCHHHHH-HHHHHhcc--cc-------hhhhhcCChhhcchhhhHHH
Confidence            777776 777777777777777777776665554333333 66666664  11       11122333445555556555


Q ss_pred             EEEecCC-----CCCC--------cchHHHHHhhhcCCCccCccEEEEeeeCCCCCCcccCCCCCCCccEEEEcCCCCCC
Q 000803          709 SLEWGSQ-----FDNS--------RDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCT  775 (1277)
Q Consensus       709 ~l~~~~~-----~~~~--------~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~~~  775 (1277)
                      ++..+..     +...        ..+..+....+.+..++++..|++..++...+|..+..  +.+|++|++++| .+.
T Consensus       212 yL~~Nki~~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~cl--LrsL~rLDlSNN-~is  288 (565)
T KOG0472|consen  212 YLRRNKIRFLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICL--LRSLERLDLSNN-DIS  288 (565)
T ss_pred             HhhhcccccCCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeeeccccccccCchHHHH--hhhhhhhcccCC-ccc
Confidence            5543321     1000        01122223334455677888888888888888887765  677888888887 445


Q ss_pred             CCC-CCCCCCCCceeeeccCCCceEeccc
Q 000803          776 SLP-SLGLLSSLRDLTIKRMTNLKSIGCE  803 (1277)
Q Consensus       776 ~l~-~l~~l~~L~~L~l~~~~~l~~i~~~  803 (1277)
                      .+| .+|++ .|+.|.+.+ +-++.+-.+
T Consensus       289 ~Lp~sLgnl-hL~~L~leG-NPlrTiRr~  315 (565)
T KOG0472|consen  289 SLPYSLGNL-HLKFLALEG-NPLRTIRRE  315 (565)
T ss_pred             cCCcccccc-eeeehhhcC-CchHHHHHH
Confidence            555 78888 888888877 345544433

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

Probab=99.82  E-value=3.7e-22  Score=229.06  Aligned_cols=106  Identities=26%  Similarity=0.340  Sum_probs=86.9

Q ss_pred             cCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCee
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHL  628 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L  628 (1277)
                      +..+.+|+.|+++.|.|..+|.+++++++|+||.|.+|.+..+|.++..+++|++||+++ +.....|..+..+..+..+
T Consensus        64 it~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~-N~f~~~Pl~i~~lt~~~~~  142 (1081)
T KOG0618|consen   64 ITLLSHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSF-NHFGPIPLVIEVLTAEEEL  142 (1081)
T ss_pred             hhhHHHHhhcccchhhHhhCchhhhhhhcchhheeccchhhcCchhHHhhhcccccccch-hccCCCchhHHhhhHHHHH
Confidence            556789999999999999999999999999999999999999999999999999999999 4788899999999999999


Q ss_pred             eecCccccccCCCCCCCCCCCcccCceeeCCC
Q 000803          629 DIRGAILLKEMPFGMKELKNLQTLSNFVVGKG  660 (1277)
Q Consensus       629 ~l~~~~~l~~~p~~i~~L~~L~~L~~~~~~~~  660 (1277)
                      ..++|..+..++.    +. ++.+++..+...
T Consensus       143 ~~s~N~~~~~lg~----~~-ik~~~l~~n~l~  169 (1081)
T KOG0618|consen  143 AASNNEKIQRLGQ----TS-IKKLDLRLNVLG  169 (1081)
T ss_pred             hhhcchhhhhhcc----cc-chhhhhhhhhcc
Confidence            8888843444432    22 455554444433

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

Probab=99.81  E-value=1.9e-22  Score=219.73  Aligned_cols=108  Identities=22%  Similarity=0.305  Sum_probs=82.8

Q ss_pred             CCeeeEEecCCCCC--CCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCeee
Q 000803          552 FKKLRLLSLQGYYI--GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLD  629 (1277)
Q Consensus       552 l~~Lr~L~L~~~~i--~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~  629 (1277)
                      ++-.|-.|+++|.+  ..+|.++..+..++.|.|..+.+..+|+.++.|++|+.|.+++ +.+..+...+..|+.||.+.
T Consensus         6 LpFVrGvDfsgNDFsg~~FP~~v~qMt~~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~H-N~L~~vhGELs~Lp~LRsv~   84 (1255)
T KOG0444|consen    6 LPFVRGVDFSGNDFSGDRFPHDVEQMTQMTWLKLNRTKLEQVPEELSRLQKLEHLSMAH-NQLISVHGELSDLPRLRSVI   84 (1255)
T ss_pred             cceeecccccCCcCCCCcCchhHHHhhheeEEEechhhhhhChHHHHHHhhhhhhhhhh-hhhHhhhhhhccchhhHHHh
Confidence            45567778888876  3578888888888888888888888888888888888888888 46777777788888888888


Q ss_pred             ecCccc-cccCCCCCCCCCCCcccCceeeCCC
Q 000803          630 IRGAIL-LKEMPFGMKELKNLQTLSNFVVGKG  660 (1277)
Q Consensus       630 l~~~~~-l~~~p~~i~~L~~L~~L~~~~~~~~  660 (1277)
                      +..|+. -..+|.+|.+|..|.+|++++|...
T Consensus        85 ~R~N~LKnsGiP~diF~l~dLt~lDLShNqL~  116 (1255)
T KOG0444|consen   85 VRDNNLKNSGIPTDIFRLKDLTILDLSHNQLR  116 (1255)
T ss_pred             hhccccccCCCCchhcccccceeeecchhhhh
Confidence            877751 2357777888888888877766543

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

Probab=99.80  E-value=1.3e-20  Score=204.59  Aligned_cols=339  Identities=18%  Similarity=0.181  Sum_probs=176.4

Q ss_pred             eEEecCCCCCCCC-CcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccc-hhhccccCcCeeeecCc
Q 000803          556 RLLSLQGYYIGEL-PIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLP-SKIRRLINLCHLDIRGA  633 (1277)
Q Consensus       556 r~L~L~~~~i~~l-p~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp-~~i~~L~~L~~L~l~~~  633 (1277)
                      +.||+++|.+.++ +..|.++.+|+.+++.+|.++.+|...+-..+|+.|+|.+| .+..+- +.+..++.||.|||+.|
T Consensus        81 ~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N-~I~sv~se~L~~l~alrslDLSrN  159 (873)
T KOG4194|consen   81 QTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHN-LISSVTSEELSALPALRSLDLSRN  159 (873)
T ss_pred             eeeeccccccccCcHHHHhcCCcceeeeeccchhhhcccccccccceeEEeeecc-ccccccHHHHHhHhhhhhhhhhhc
Confidence            4455555555444 34445555555555555555555554444445555555552 333332 23444555555555555


Q ss_pred             cccccCCCC-CCCCCCCcccCceeeCCCCCCCCChhccccccccCceeeecCccCCCChhhhhhhccccCCCCCceEEEe
Q 000803          634 ILLKEMPFG-MKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEW  712 (1277)
Q Consensus       634 ~~l~~~p~~-i~~L~~L~~L~~~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L~l~~  712 (1277)
                      . +.++|.. +..-.++++|++..|.+.......|..+.+|..|+  +.-+.+      .......++++++|++|++..
T Consensus       160 ~-is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlk--LsrNri------ttLp~r~Fk~L~~L~~LdLnr  230 (873)
T KOG4194|consen  160 L-ISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLK--LSRNRI------TTLPQRSFKRLPKLESLDLNR  230 (873)
T ss_pred             h-hhcccCCCCCCCCCceEEeeccccccccccccccccchheeee--cccCcc------cccCHHHhhhcchhhhhhccc
Confidence            4 4444432 33334455555555554444334444444443332  111111      111112244455555555544


Q ss_pred             cCCCCCCcchHHHHHhhhcCCCccCccEEEEeeeCCCCCCcccCCCCCCCccEEEEcCCCCCC-CCCCCCCCCCCceeee
Q 000803          713 GSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCT-SLPSLGLLSSLRDLTI  791 (1277)
Q Consensus       713 ~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~~~-~l~~l~~l~~L~~L~l  791 (1277)
                      +..         .....-.+..+++|+.|.+..|+...+.+..+. -+.++++|+|+.|.... .-.++-.+..|+.|++
T Consensus       231 N~i---------rive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy-~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~l  300 (873)
T KOG4194|consen  231 NRI---------RIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFY-GLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDL  300 (873)
T ss_pred             cce---------eeehhhhhcCchhhhhhhhhhcCcccccCccee-eecccceeecccchhhhhhcccccccchhhhhcc
Confidence            321         011122456677788888888777766554432 26788888888874422 1226777888888888


Q ss_pred             ccCCCceEeccccccccccCCCcccceeeeccCccccccccccccccccccCCcccEEeeecCCCCccCCCC----CCCC
Q 000803          792 KRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPE----LLPS  867 (1277)
Q Consensus       792 ~~~~~l~~i~~~~~~~~~~~~f~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~p~L~~L~l~~c~~L~~~~p~----~l~~  867 (1277)
                      ++ +.++.|..+.+.                                   ..++|+.|+++++ .++ .+++    .+..
T Consensus       301 S~-NaI~rih~d~Ws-----------------------------------ftqkL~~LdLs~N-~i~-~l~~~sf~~L~~  342 (873)
T KOG4194|consen  301 SY-NAIQRIHIDSWS-----------------------------------FTQKLKELDLSSN-RIT-RLDEGSFRVLSQ  342 (873)
T ss_pred             ch-hhhheeecchhh-----------------------------------hcccceeEecccc-ccc-cCChhHHHHHHH
Confidence            76 667666544322                                   2455555666555 444 3332    1345


Q ss_pred             ccEEEEecccccc---cccCCCCcceEEEeccccccccccCCchhhhhhhcccccceeecCCCCccccccCccccccccc
Q 000803          868 LKTLVVSKCQKLK---FSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTET  944 (1277)
Q Consensus       868 L~~L~l~~~~~l~---~~~~~~~~L~~L~~~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~~~~~~l~~l~~~~  944 (1277)
                      |++|.++++..-.   ..+..+.+|++|++....-.....                    .    ....+..        
T Consensus       343 Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IE--------------------D----aa~~f~g--------  390 (873)
T KOG4194|consen  343 LEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIE--------------------D----AAVAFNG--------  390 (873)
T ss_pred             hhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEe--------------------c----chhhhcc--------
Confidence            5555555554322   122233444444433211100000                    0    0000111        


Q ss_pred             cccccccccCcceEEEEccCCCcCCChhhhhccccccceeEeeccCCcc
Q 000803          945 ISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLK  993 (1277)
Q Consensus       945 ~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~  993 (1277)
                              .++|+.|++.+|+ ++.+|...|..+.+|++|++.+|....
T Consensus       391 --------l~~LrkL~l~gNq-lk~I~krAfsgl~~LE~LdL~~NaiaS  430 (873)
T KOG4194|consen  391 --------LPSLRKLRLTGNQ-LKSIPKRAFSGLEALEHLDLGDNAIAS  430 (873)
T ss_pred             --------chhhhheeecCce-eeecchhhhccCcccceecCCCCccee
Confidence                    2689999999998 999999999999999999999986544

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

Probab=99.59  E-value=2.8e-17  Score=171.32  Aligned_cols=123  Identities=22%  Similarity=0.290  Sum_probs=94.3

Q ss_pred             eeeEEecCCCCCCCCC-cCCCCCCccceeeccCCccccc-cccccccccCcEEEecCCcCccccchh-hccccCcCeeee
Q 000803          554 KLRLLSLQGYYIGELP-IPFEDLRLLRYLNLADTDIRSL-PESSCSLLNLEILILRNCSSLIKLPSK-IRRLINLCHLDI  630 (1277)
Q Consensus       554 ~Lr~L~L~~~~i~~lp-~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~L~~L~~L~L~~~~~l~~lp~~-i~~L~~L~~L~l  630 (1277)
                      .-..++|..|.|+.+| .+|+.+++||.||||+|.|+.+ |..|..|..|-.|-+.++++|+.+|.. |+.|..|+.|.+
T Consensus        68 ~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLll  147 (498)
T KOG4237|consen   68 ETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLL  147 (498)
T ss_pred             cceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhc
Confidence            4456788888888886 5688888888888888888877 888888888888877776788888875 688888888888


Q ss_pred             cCccccccCCCC-CCCCCCCcccCceeeCCCCCCCCChhccccccccC
Q 000803          631 RGAILLKEMPFG-MKELKNLQTLSNFVVGKGGETASGLEDLKILKFLS  677 (1277)
Q Consensus       631 ~~~~~l~~~p~~-i~~L~~L~~L~~~~~~~~~~~~~~~~~L~~L~~L~  677 (1277)
                      .-|. +.-++.+ +..|.+|..|.++.+.+.......+..+..++.+.
T Consensus       148 Nan~-i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlh  194 (498)
T KOG4237|consen  148 NANH-INCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLH  194 (498)
T ss_pred             Chhh-hcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHh
Confidence            7776 5555554 77788888888888877665445666666666553

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.49  E-value=1.3e-13  Score=165.97  Aligned_cols=79  Identities=23%  Similarity=0.243  Sum_probs=62.2

Q ss_pred             CeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCeeeecC
Q 000803          553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRG  632 (1277)
Q Consensus       553 ~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~  632 (1277)
                      ..-.+|+|+++.++.+|..+.  .+|+.|++++|+++.+|..   +++|++|++++| .++.+|..   .++|++|++++
T Consensus       201 ~~~~~LdLs~~~LtsLP~~l~--~~L~~L~L~~N~Lt~LP~l---p~~Lk~LdLs~N-~LtsLP~l---p~sL~~L~Ls~  271 (788)
T PRK15387        201 NGNAVLNVGESGLTTLPDCLP--AHITTLVIPDNNLTSLPAL---PPELRTLEVSGN-QLTSLPVL---PPGLLELSIFS  271 (788)
T ss_pred             CCCcEEEcCCCCCCcCCcchh--cCCCEEEccCCcCCCCCCC---CCCCcEEEecCC-ccCcccCc---ccccceeeccC
Confidence            346688999999999998776  4899999999999999863   578899999885 77788753   35778888888


Q ss_pred             ccccccCCC
Q 000803          633 AILLKEMPF  641 (1277)
Q Consensus       633 ~~~l~~~p~  641 (1277)
                      |. +..+|.
T Consensus       272 N~-L~~Lp~  279 (788)
T PRK15387        272 NP-LTHLPA  279 (788)
T ss_pred             Cc-hhhhhh
Confidence            76 666654

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.47  E-value=2.9e-13  Score=163.09  Aligned_cols=255  Identities=27%  Similarity=0.323  Sum_probs=146.9

Q ss_pred             ccEEEEeeeCCCCCCcccCCCCCCCccEEEEcCCCCCCCCCCCCCCCCCceeeeccCCCceEeccccccccccCCCcccc
Q 000803          738 VKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLE  817 (1277)
Q Consensus       738 L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~f~~L~  817 (1277)
                      -..|+++++....+|..+.    ++|+.|.+.+| .++.+|.+  +++|++|++++ +.++.++.         .+++|+
T Consensus       203 ~~~LdLs~~~LtsLP~~l~----~~L~~L~L~~N-~Lt~LP~l--p~~Lk~LdLs~-N~LtsLP~---------lp~sL~  265 (788)
T PRK15387        203 NAVLNVGESGLTTLPDCLP----AHITTLVIPDN-NLTSLPAL--PPELRTLEVSG-NQLTSLPV---------LPPGLL  265 (788)
T ss_pred             CcEEEcCCCCCCcCCcchh----cCCCEEEccCC-cCCCCCCC--CCCCcEEEecC-CccCcccC---------cccccc
Confidence            4456677776777776552    46778888776 45556643  47788888876 45555431         134555


Q ss_pred             eeeeccCccccccccccccccccccCCcccEEeeecCCCCccCCCCCCCCccEEEEecccccccccCCCCcceEEEeccc
Q 000803          818 ILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADEC  897 (1277)
Q Consensus       818 ~L~l~~~~~l~~~~~~~~~~~~~~~~p~L~~L~l~~c~~L~~~~p~~l~~L~~L~l~~~~~l~~~~~~~~~L~~L~~~~~  897 (1277)
                      .|.+.++. +..+.    .     .++.|+.|++++| +++ .+|..+++|+.|++++|.....  +.            
T Consensus       266 ~L~Ls~N~-L~~Lp----~-----lp~~L~~L~Ls~N-~Lt-~LP~~p~~L~~LdLS~N~L~~L--p~------------  319 (788)
T PRK15387        266 ELSIFSNP-LTHLP----A-----LPSGLCKLWIFGN-QLT-SLPVLPPGLQELSVSDNQLASL--PA------------  319 (788)
T ss_pred             eeeccCCc-hhhhh----h-----chhhcCEEECcCC-ccc-cccccccccceeECCCCccccC--CC------------
Confidence            55554431 21111    0     2345666777666 565 5565556666666665521110  00            


Q ss_pred             cccccccCCchhhhhhhcccccceeecCCCCccccccCccccccccccccccccccCcceEEEEccCCCcCCChhhhhcc
Q 000803          898 KELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDN  977 (1277)
Q Consensus       898 ~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~  977 (1277)
                                                                            .|.+|+.|++++|. +..+|.    .
T Consensus       320 ------------------------------------------------------lp~~L~~L~Ls~N~-L~~LP~----l  340 (788)
T PRK15387        320 ------------------------------------------------------LPSELCKLWAYNNQ-LTSLPT----L  340 (788)
T ss_pred             ------------------------------------------------------CcccccccccccCc-cccccc----c
Confidence                                                                  02345555555554 445553    1


Q ss_pred             ccccceeEeeccCCcccccCCCCCCcccceeeccccccceeccCCCCCccccCcCccccccCceeeecCCCccccccccc
Q 000803          978 NSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLH 1057 (1277)
Q Consensus       978 l~~L~~L~l~~c~~l~~~~~~~~~~sL~~L~l~~~~L~~L~l~~~~~l~~l~~~~~~l~~L~~L~l~~c~~l~~~p~~l~ 1057 (1277)
                      ..+|+.|++++|. ++.++  .+|.+|+.|.+.+|.|.           .+|.   .+++|+.|++++|. +..+|....
T Consensus       341 p~~Lq~LdLS~N~-Ls~LP--~lp~~L~~L~Ls~N~L~-----------~LP~---l~~~L~~LdLs~N~-Lt~LP~l~s  402 (788)
T PRK15387        341 PSGLQELSVSDNQ-LASLP--TLPSELYKLWAYNNRLT-----------SLPA---LPSGLKELIVSGNR-LTSLPVLPS  402 (788)
T ss_pred             ccccceEecCCCc-cCCCC--CCCcccceehhhccccc-----------cCcc---cccccceEEecCCc-ccCCCCccc
Confidence            2356666666643 33333  23444444444443322           2332   23457777777764 555666666


Q ss_pred             cccEEEecccCCcccccccCccCcccEEEeecccccccCcCCCCCCCCcCEEeccCCCC
Q 000803         1058 KLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPS 1116 (1277)
Q Consensus      1058 ~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~l~~lp~~l~~l~~L~~L~l~~c~~ 1116 (1277)
                      +|+.|+++++ .++.+|.  .+.+|+.|++++| .++.+|..+.++++|+.|++++|+.
T Consensus       403 ~L~~LdLS~N-~LssIP~--l~~~L~~L~Ls~N-qLt~LP~sl~~L~~L~~LdLs~N~L  457 (788)
T PRK15387        403 ELKELMVSGN-RLTSLPM--LPSGLLSLSVYRN-QLTRLPESLIHLSSETTVNLEGNPL  457 (788)
T ss_pred             CCCEEEccCC-cCCCCCc--chhhhhhhhhccC-cccccChHHhhccCCCeEECCCCCC
Confidence            6777777774 3566653  3457788888887 5678888888899999999988653

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.36  E-value=6e-11  Score=155.80  Aligned_cols=292  Identities=15%  Similarity=0.181  Sum_probs=181.6

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC-CcCHHHHH
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-DFDVLSIS  219 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~~~  219 (1277)
                      .+.+|-|+.-.+.+    ...     ...+++.|+|++|.||||++.++...        ++.++|+++.. +.+...+.
T Consensus        13 ~~~~~~R~rl~~~l----~~~-----~~~~~~~v~apaG~GKTtl~~~~~~~--------~~~~~w~~l~~~d~~~~~f~   75 (903)
T PRK04841         13 LHNTVVRERLLAKL----SGA-----NNYRLVLVTSPAGYGKTTLISQWAAG--------KNNLGWYSLDESDNQPERFA   75 (903)
T ss_pred             ccccCcchHHHHHH----hcc-----cCCCeEEEECCCCCCHHHHHHHHHHh--------CCCeEEEecCcccCCHHHHH
Confidence            34567777555544    221     34689999999999999999998752        22689999864 44666677


Q ss_pred             HHHHHHhcCCCCC-------------CCcHHHHHHHHHHhhc--CceEEEEecCcccccHHhHHhhhccccc-CCCCcEE
Q 000803          220 KALLESITSATCD-------------LKTVDEVQVQLKKAVD--GKRFLLVLDDVWNEDYSLWVDLKAPFLA-AAPNSKM  283 (1277)
Q Consensus       220 ~~il~~l~~~~~~-------------~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~~~~~~l~~~l~~-~~~~s~i  283 (1277)
                      ..++..+......             ..+...+...+-..+.  +.+++||+||+...+......+...+.. ...+.++
T Consensus        76 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~l  155 (903)
T PRK04841         76 SYLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTL  155 (903)
T ss_pred             HHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEE
Confidence            7777777422111             0122223333323332  6799999999976543333434444443 3456788


Q ss_pred             EEEccccccccc--c-CCCceeecC----CCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhh
Q 000803          284 IITTRNSHVAST--M-GPIDHYNLE----HLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGL  356 (1277)
Q Consensus       284 ivTtr~~~v~~~--~-~~~~~~~l~----~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~  356 (1277)
                      |||||...-...  . .......++    +|+.+|+.++|......       +...+...+|++.|+|.|+++..++..
T Consensus       156 v~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~-------~~~~~~~~~l~~~t~Gwp~~l~l~~~~  228 (903)
T PRK04841        156 VVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSS-------PIEAAESSRLCDDVEGWATALQLIALS  228 (903)
T ss_pred             EEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCC-------CCCHHHHHHHHHHhCChHHHHHHHHHH
Confidence            899998422111  0 111234555    99999999999765531       112455678999999999999998877


Q ss_pred             hcCCChhhHHHHHhhcccCCCC--CCChHHHHH-HhhhcCChhhhHHHhHhcccCCCceeChHHHHHHHHhCCccccCCC
Q 000803          357 LRTTTYDMWDDILDSKIWDLPR--QSSILPVLR-LSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSN  433 (1277)
Q Consensus       357 L~~~~~~~w~~~l~~~~~~~~~--~~~i~~~l~-~sy~~L~~~~k~cf~~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~  433 (1277)
                      ++..... .....    +.+..  ...+...+. -.|+.||++.+..+...|+++   .|+.+..-      .+...   
T Consensus       229 ~~~~~~~-~~~~~----~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~---~~~~~l~~------~l~~~---  291 (903)
T PRK04841        229 ARQNNSS-LHDSA----RRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR---SMNDALIV------RVTGE---  291 (903)
T ss_pred             HhhCCCc-hhhhh----HhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc---cCCHHHHH------HHcCC---
Confidence            6544210 00111    11111  134555543 348999999999999999996   33432221      11111   


Q ss_pred             hhhHHHHHHHHHHHHHhCCCccc-cCCCCCccchhHHHHHHHHHhc
Q 000803          434 NEQLKDLGSQCFHDLVSRSIFQR-TGFGSSKFAMHDLVHALAQLVS  478 (1277)
Q Consensus       434 ~~~~~~~~~~~~~~L~~~~li~~-~~~~~~~~~mhdlv~~~~~~~~  478 (1277)
                           +.+...+++|.+.+++.. .+.+...|+.|++++++.+...
T Consensus       292 -----~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        292 -----ENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRC  332 (903)
T ss_pred             -----CcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHH
Confidence                 124567999999999653 3334457889999999987664

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.32  E-value=8.3e-13  Score=163.14  Aligned_cols=300  Identities=26%  Similarity=0.302  Sum_probs=187.9

Q ss_pred             CCCeeeEEecCCCC--CCCCCc-CCCCCCccceeeccCC-ccccccccccccccCcEEEecCCcCccccchhhccccCcC
Q 000803          551 KFKKLRLLSLQGYY--IGELPI-PFEDLRLLRYLNLADT-DIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLC  626 (1277)
Q Consensus       551 ~l~~Lr~L~L~~~~--i~~lp~-~~~~l~~Lr~L~L~~~-~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~  626 (1277)
                      ..+.|+.|-+.+|.  +..++. .|..+++||+|||++| .+.+||++|+.|.+||+|++++ +.+..+|.++++|.+|.
T Consensus       543 ~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~-t~I~~LP~~l~~Lk~L~  621 (889)
T KOG4658|consen  543 ENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSD-TGISHLPSGLGNLKKLI  621 (889)
T ss_pred             CCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccC-CCccccchHHHHHHhhh
Confidence            34479999999886  667764 4788999999999977 6789999999999999999999 68999999999999999


Q ss_pred             eeeecCccccccCCCCCCCCCCCcccCceeeCCCCCCCCChhccccccccCceeeecCccCCCChhhhhhhccccCCCCC
Q 000803          627 HLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLE  706 (1277)
Q Consensus       627 ~L~l~~~~~l~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~  706 (1277)
                      ||++..+..+..+|..+..|.+|++|.++..... .....+.++.+|+.|. .+.+.....      .....+..+..|.
T Consensus       622 ~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~-~~~~~l~el~~Le~L~-~ls~~~~s~------~~~e~l~~~~~L~  693 (889)
T KOG4658|consen  622 YLNLEVTGRLESIPGILLELQSLRVLRLPRSALS-NDKLLLKELENLEHLE-NLSITISSV------LLLEDLLGMTRLR  693 (889)
T ss_pred             eeccccccccccccchhhhcccccEEEeeccccc-cchhhHHhhhcccchh-hheeecchh------HhHhhhhhhHHHH
Confidence            9999998866677666777999999998877622 2245566777777665 343321110      0111122223333


Q ss_pred             ceEEEecCCCCCCcchHHHHHhhhcCCCccCccEEEEeeeCCCCCCc-ccCC---CC-CCCccEEEEcCCCCCCCCCCCC
Q 000803          707 ALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPL-WIGD---PL-FSKMNVLELDDCWNCTSLPSLG  781 (1277)
Q Consensus       707 ~L~l~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~-~~~~---~~-l~~L~~L~L~~~~~~~~l~~l~  781 (1277)
                      ++...-..      ...........+..+.+|+.|.+.++.+..... |...   .. |+++.++.+.+|.....+.+..
T Consensus       694 ~~~~~l~~------~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~~  767 (889)
T KOG4658|consen  694 SLLQSLSI------EGCSKRTLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTWLL  767 (889)
T ss_pred             HHhHhhhh------cccccceeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccchhh
Confidence            22111100      000112233455667888888888887754332 3221   11 4567777777776666666666


Q ss_pred             CCCCCceeeeccCCCceEeccccccc----cccCCCccccee-eeccCccccccccccccccccccCCcccEEeeecCCC
Q 000803          782 LLSSLRDLTIKRMTNLKSIGCEFFGK----CFSEPFQSLEIL-SFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPE  856 (1277)
Q Consensus       782 ~l~~L~~L~l~~~~~l~~i~~~~~~~----~~~~~f~~L~~L-~l~~~~~l~~~~~~~~~~~~~~~~p~L~~L~l~~c~~  856 (1277)
                      ..|+|+.|.+..|..++.+.+..-..    ....+|+++..+ .+.+.+++..+.....      .+++|+.+.+..||+
T Consensus       768 f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~l------~~~~l~~~~ve~~p~  841 (889)
T KOG4658|consen  768 FAPHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLEGLRMLCSLGGLPQLYWLPL------SFLKLEELIVEECPK  841 (889)
T ss_pred             ccCcccEEEEecccccccCCCHHHHhhhcccEEecccccccceeeecCCCCceeEeccc------CccchhheehhcCcc
Confidence            77888888888887776654332110    012345555555 3555554444431111      355566666666665


Q ss_pred             CccCCCCCCCCccEEEEecc
Q 000803          857 LSGKVPELLPSLKTLVVSKC  876 (1277)
Q Consensus       857 L~~~~p~~l~~L~~L~l~~~  876 (1277)
                      +. .    +|.+.++.+.+|
T Consensus       842 l~-~----~P~~~~~~i~~~  856 (889)
T KOG4658|consen  842 LG-K----LPLLSTLTIVGC  856 (889)
T ss_pred             cc-c----Cccccccceecc
Confidence            54 2    334444444444

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.31  E-value=4.5e-12  Score=154.28  Aligned_cols=180  Identities=19%  Similarity=0.325  Sum_probs=87.2

Q ss_pred             ccCceeeecCCCccccccccc-cccEEEecccCCcccccccCccCcccEEEeecccccccCcCCCCCCCCcCEEeccCCC
Q 000803         1037 ALEDLHIRNCPKLESIPKGLH-KLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECP 1115 (1277)
Q Consensus      1037 ~L~~L~l~~c~~l~~~p~~l~-~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~l~~lp~~l~~l~~L~~L~l~~c~ 1115 (1277)
                      +|+.|++++|. +..+|..++ +|+.|++++ +.+..+|. .++++|+.|++++| .+..+|..+.  ++|+.|++++ +
T Consensus       242 ~L~~L~Ls~N~-L~~LP~~l~s~L~~L~Ls~-N~L~~LP~-~l~~sL~~L~Ls~N-~Lt~LP~~lp--~sL~~L~Ls~-N  314 (754)
T PRK15370        242 TIQEMELSINR-ITELPERLPSALQSLDLFH-NKISCLPE-NLPEELRYLSVYDN-SIRTLPAHLP--SGITHLNVQS-N  314 (754)
T ss_pred             cccEEECcCCc-cCcCChhHhCCCCEEECcC-CccCcccc-ccCCCCcEEECCCC-ccccCcccch--hhHHHHHhcC-C
Confidence            45555555543 233443222 345555542 34444432 23345555555555 3444444332  3455555555 2


Q ss_pred             CcccccCCCCCCCCceEEEccccCccchhhhhhhcccccCCcccccccccCCCccCchhhhhccCCcccceeeecccccc
Q 000803         1116 SILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKL 1195 (1277)
Q Consensus      1116 ~l~~l~~~~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~~~~~~L~~L~l~~~~~l 1195 (1277)
                      .+..+|. ..+++|+.|++++    +.++.++.. +  .++|+.|++++| .+..+|..     .+++|++|++++| ++
T Consensus       315 ~Lt~LP~-~l~~sL~~L~Ls~----N~Lt~LP~~-l--~~sL~~L~Ls~N-~L~~LP~~-----lp~~L~~LdLs~N-~L  379 (754)
T PRK15370        315 SLTALPE-TLPPGLKTLEAGE----NALTSLPAS-L--PPELQVLDVSKN-QITVLPET-----LPPTITTLDVSRN-AL  379 (754)
T ss_pred             ccccCCc-cccccceeccccC----CccccCChh-h--cCcccEEECCCC-CCCcCChh-----hcCCcCEEECCCC-cC
Confidence            3444443 2334555555522    223322211 1  246666666665 34455542     3456777777766 45


Q ss_pred             cccCccCCCCCCCCCceeccCCCCCCCCCCCC-----CCCccceeeccCChh
Q 000803         1196 KYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVG-----LPSSLLSLEIKNCPK 1242 (1277)
Q Consensus      1196 ~~l~~~~~~~l~~L~~L~l~~c~~l~~lp~~~-----~~~~L~~L~i~~c~~ 1242 (1277)
                      ..+|. .+.  .+|+.|++++| +++.+|...     ..+++..|++.++|-
T Consensus       380 t~LP~-~l~--~sL~~LdLs~N-~L~~LP~sl~~~~~~~~~l~~L~L~~Npl  427 (754)
T PRK15370        380 TNLPE-NLP--AALQIMQASRN-NLVRLPESLPHFRGEGPQPTRIIVEYNPF  427 (754)
T ss_pred             CCCCH-hHH--HHHHHHhhccC-CcccCchhHHHHhhcCCCccEEEeeCCCc
Confidence            55652 222  35677777776 555665411     124566677776663

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

Probab=99.28  E-value=8.5e-14  Score=128.17  Aligned_cols=127  Identities=28%  Similarity=0.288  Sum_probs=106.0

Q ss_pred             cCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCc-cccchhhccccCcCe
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSL-IKLPSKIRRLINLCH  627 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l-~~lp~~i~~L~~L~~  627 (1277)
                      +..+.+|.+|++.+|.++++|.+++.+..||.|+++-|++..+|..|+.++-|++|||.+|+.- ..+|..|..|+.|+-
T Consensus        52 ia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~levldltynnl~e~~lpgnff~m~tlra  131 (264)
T KOG0617|consen   52 IAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFPALEVLDLTYNNLNENSLPGNFFYMTTLRA  131 (264)
T ss_pred             HHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccCCCchhhhhhccccccccccCCcchhHHHHHHH
Confidence            5678889999999999999999999999999999999999999999999999999999885432 468888888999999


Q ss_pred             eeecCccccccCCCCCCCCCCCcccCceeeCCCCCCCCChhccccccccC
Q 000803          628 LDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLS  677 (1277)
Q Consensus       628 L~l~~~~~l~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~~~L~~L~~L~  677 (1277)
                      |++++|. .+.+|.++++|++||.|.+..+...+. |..++.|..|+.|.
T Consensus       132 lyl~dnd-fe~lp~dvg~lt~lqil~lrdndll~l-pkeig~lt~lrelh  179 (264)
T KOG0617|consen  132 LYLGDND-FEILPPDVGKLTNLQILSLRDNDLLSL-PKEIGDLTRLRELH  179 (264)
T ss_pred             HHhcCCC-cccCChhhhhhcceeEEeeccCchhhC-cHHHHHHHHHHHHh
Confidence            9999887 788899999999999998887776553 66677777666654

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.26  E-value=1.8e-11  Score=149.10  Aligned_cols=94  Identities=20%  Similarity=0.298  Sum_probs=75.3

Q ss_pred             CeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCeeeecC
Q 000803          553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRG  632 (1277)
Q Consensus       553 ~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~  632 (1277)
                      .+..+|+++++.++.+|..+.  .+|+.|+|++|.++.+|..+.  .+|++|++++| .++.+|..+.  .+|+.|++++
T Consensus       178 ~~~~~L~L~~~~LtsLP~~Ip--~~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N-~LtsLP~~l~--~~L~~L~Ls~  250 (754)
T PRK15370        178 NNKTELRLKILGLTTIPACIP--EQITTLILDNNELKSLPENLQ--GNIKTLYANSN-QLTSIPATLP--DTIQEMELSI  250 (754)
T ss_pred             cCceEEEeCCCCcCcCCcccc--cCCcEEEecCCCCCcCChhhc--cCCCEEECCCC-ccccCChhhh--ccccEEECcC
Confidence            457889999999999998775  589999999999999998775  59999999985 6888998664  4799999999


Q ss_pred             ccccccCCCCCCCCCCCcccCcee
Q 000803          633 AILLKEMPFGMKELKNLQTLSNFV  656 (1277)
Q Consensus       633 ~~~l~~~p~~i~~L~~L~~L~~~~  656 (1277)
                      |. +..+|..+.  ++|++|++..
T Consensus       251 N~-L~~LP~~l~--s~L~~L~Ls~  271 (754)
T PRK15370        251 NR-ITELPERLP--SALQSLDLFH  271 (754)
T ss_pred             Cc-cCcCChhHh--CCCCEEECcC
Confidence            87 777876553  3566665543

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.25  E-value=1.8e-09  Score=126.41  Aligned_cols=299  Identities=14%  Similarity=0.081  Sum_probs=174.6

Q ss_pred             CCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHH
Q 000803          140 TEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       140 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~  219 (1277)
                      .+..++||+++++++...+......  .....+.|+|++|+|||++++.++++.....  ..-..+++++....+...++
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~--~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~--~~~~~v~in~~~~~~~~~~~  103 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRG--SRPLNVLIYGPPGTGKTTTVKKVFEELEEIA--VKVVYVYINCQIDRTRYAIF  103 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCC--CCCCeEEEECCCCCCHHHHHHHHHHHHHHhc--CCcEEEEEECCcCCCHHHHH
Confidence            3457999999999999988543211  3345678999999999999999998653322  22346777777777788899


Q ss_pred             HHHHHHhcCCCC--CCCcHHHHHHHHHHhhc--CceEEEEecCccccc----HHhHHhhhcccccCCCCcE--EEEEccc
Q 000803          220 KALLESITSATC--DLKTVDEVQVQLKKAVD--GKRFLLVLDDVWNED----YSLWVDLKAPFLAAAPNSK--MIITTRN  289 (1277)
Q Consensus       220 ~~il~~l~~~~~--~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~----~~~~~~l~~~l~~~~~~s~--iivTtr~  289 (1277)
                      .+++.++.....  ...+.+++...+.+.+.  +++.+||||+++.-.    .+.+..+...+.. ..+++  +|.++..
T Consensus       104 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~  182 (394)
T PRK00411        104 SEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSD  182 (394)
T ss_pred             HHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECC
Confidence            999999875322  22345666667777664  457899999997632    1223333332222 22333  5666665


Q ss_pred             cccccccC-------CCceeecCCCCHHHHHHHHHHhhcCCC--CCCchhhHHHHHHHHHhhcCCchHHHHHHHhhh--c
Q 000803          290 SHVASTMG-------PIDHYNLEHLLDDDCWSIFKTHAFEGR--DHNALEISESFRKKVVGKCGGLPLAAKTLGGLL--R  358 (1277)
Q Consensus       290 ~~v~~~~~-------~~~~~~l~~L~~~~~~~Lf~~~~~~~~--~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L--~  358 (1277)
                      ..+.....       ....+.+.+++.++..+++..++-.+.  ..-.....+.+++......|..+.|+.++-...  +
T Consensus       183 ~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a  262 (394)
T PRK00411        183 LTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIA  262 (394)
T ss_pred             cchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHH
Confidence            44332211       124578999999999999988763221  112223334444444444566778877764322  1


Q ss_pred             ---C--C-ChhhHHHHHhhcccCCCCCCChHHHHHHhhhcCChhhhHHHhHhccc-CC-CceeChHHHHH--HHHhCCcc
Q 000803          359 ---T--T-TYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIF-PK-DFEFDEKELVF--LWIAGGII  428 (1277)
Q Consensus       359 ---~--~-~~~~w~~~l~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~~s~f-p~-~~~i~~~~li~--~w~a~g~i  428 (1277)
                         +  . +.+++..+.+..         -.....-.+..||.+.|..+..++-. .. ...+....+..  ..+++.+-
T Consensus       263 ~~~~~~~I~~~~v~~a~~~~---------~~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~  333 (394)
T PRK00411        263 EREGSRKVTEEDVRKAYEKS---------EIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELG  333 (394)
T ss_pred             HHcCCCCcCHHHHHHHHHHH---------HHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcC
Confidence               1  1 455665555432         12234556889999988776655422 21 12344444432  22332211


Q ss_pred             ccCCChhhHHHHHHHHHHHHHhCCCccc
Q 000803          429 RQSSNNEQLKDLGSQCFHDLVSRSIFQR  456 (1277)
Q Consensus       429 ~~~~~~~~~~~~~~~~~~~L~~~~li~~  456 (1277)
                      ...-    -......|+.+|...++|..
T Consensus       334 ~~~~----~~~~~~~~l~~L~~~glI~~  357 (394)
T PRK00411        334 YEPR----THTRFYEYINKLDMLGIINT  357 (394)
T ss_pred             CCcC----cHHHHHHHHHHHHhcCCeEE
Confidence            1100    11223557788888888764

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

Probab=99.22  E-value=9.8e-13  Score=121.27  Aligned_cols=108  Identities=25%  Similarity=0.253  Sum_probs=68.3

Q ss_pred             CCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCeeee
Q 000803          551 KFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDI  630 (1277)
Q Consensus       551 ~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l  630 (1277)
                      .+.++..|.|++|.++.+|..|..|.+|++|++++|+|+++|.+|+.|++|+.|+++- +.+..+|.+||.++.|+.||+
T Consensus        31 ~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgm-nrl~~lprgfgs~p~levldl  109 (264)
T KOG0617|consen   31 NMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGM-NRLNILPRGFGSFPALEVLDL  109 (264)
T ss_pred             chhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecch-hhhhcCccccCCCchhhhhhc
Confidence            3455666667777777777777777777777777777777777777777777777765 456666777777777777776


Q ss_pred             cCcccc-ccCCCCCCCCCCCcccCceeeCC
Q 000803          631 RGAILL-KEMPFGMKELKNLQTLSNFVVGK  659 (1277)
Q Consensus       631 ~~~~~l-~~~p~~i~~L~~L~~L~~~~~~~  659 (1277)
                      .+|..- ..+|..|..|+.|+.|.+..+.+
T Consensus       110 tynnl~e~~lpgnff~m~tlralyl~dndf  139 (264)
T KOG0617|consen  110 TYNNLNENSLPGNFFYMTTLRALYLGDNDF  139 (264)
T ss_pred             cccccccccCCcchhHHHHHHHHHhcCCCc
Confidence            666521 23454455555555555444433

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

Probab=99.20  E-value=2.9e-13  Score=141.81  Aligned_cols=286  Identities=19%  Similarity=0.223  Sum_probs=172.1

Q ss_pred             ccCcceEEEEccCCCcCCChhhhhccccccceeEeeccCCcccccCCCCCCcccceeeccccccceeccCCCCCccccC-
Q 000803          952 FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSS- 1030 (1277)
Q Consensus       952 ~~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~sL~~L~l~~~~L~~L~l~~~~~l~~l~~- 1030 (1277)
                      +|+....++|..|. ++.+|.+.|..+++|+.|+|++|. ++.+    .|..++.|.    ++..|.+.++..++.+|. 
T Consensus        65 LP~~tveirLdqN~-I~~iP~~aF~~l~~LRrLdLS~N~-Is~I----~p~AF~GL~----~l~~Lvlyg~NkI~~l~k~  134 (498)
T KOG4237|consen   65 LPPETVEIRLDQNQ-ISSIPPGAFKTLHRLRRLDLSKNN-ISFI----APDAFKGLA----SLLSLVLYGNNKITDLPKG  134 (498)
T ss_pred             CCCcceEEEeccCC-cccCChhhccchhhhceecccccc-hhhc----ChHhhhhhH----hhhHHHhhcCCchhhhhhh
Confidence            47888999999998 999999999999999999999975 3322    233334343    455666666667777764 


Q ss_pred             cCccccccCceeeecCCCccccc----cccccccEEEecccCCcccccccCcc--CcccEEEeecccccc----------
Q 000803         1031 GIHLLEALEDLHIRNCPKLESIP----KGLHKLRSIYIKKCPSLVSLAEKGLP--NTISHVTISYCEKLD---------- 1094 (1277)
Q Consensus      1031 ~~~~l~~L~~L~l~~c~~l~~~p----~~l~~L~~L~l~~c~~l~~l~~~~~~--~~L~~L~l~~~~~l~---------- 1094 (1277)
                      .+..+.+|+.|.+.-|+ +..++    ..+++|..|.+.+ +.+..++...+.  .+++.+.+..|+.+.          
T Consensus       135 ~F~gL~slqrLllNan~-i~Cir~~al~dL~~l~lLslyD-n~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~  212 (498)
T KOG4237|consen  135 AFGGLSSLQRLLLNANH-INCIRQDALRDLPSLSLLSLYD-NKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADD  212 (498)
T ss_pred             HhhhHHHHHHHhcChhh-hcchhHHHHHHhhhcchhcccc-hhhhhhccccccchhccchHhhhcCccccccccchhhhH
Confidence            34566777777776553 33332    2344444444443 223333322221  244444444443211          


Q ss_pred             --cCcCCCCCCCCcCEEeccCCCCcccccCCCCCCCCceEEEccccCccchhhhhhhcccccCCcccccccccCCCccCc
Q 000803         1095 --ALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFP 1172 (1277)
Q Consensus      1095 --~lp~~l~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~l~~L~~L~l~~~~~l~~lp 1172 (1277)
                        ..|..++.+.......+.+ ..+..+....+.-+++.+--.-...|+.....+...|+.+++|+.|++++| .+..+.
T Consensus       213 ~a~~~ietsgarc~~p~rl~~-~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN-~i~~i~  290 (498)
T KOG4237|consen  213 LAMNPIETSGARCVSPYRLYY-KRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNN-KITRIE  290 (498)
T ss_pred             HhhchhhcccceecchHHHHH-HHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCC-ccchhh
Confidence              1111111111111111111 111111111111122222111113444444445556899999999999987 455554


Q ss_pred             hhhhhccCCcccceeeecccccccccCccCCCCCCCCCceeccCCCCCCCCCCCCC--CCccceeeccCChhhHHHhccC
Q 000803         1173 DEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGL--PSSLLSLEIKNCPKLRKQCKRD 1250 (1277)
Q Consensus      1173 ~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~--~~~L~~L~i~~c~~L~~~~~~~ 1250 (1277)
                      +.+  +.-.+.+++|.+..+ +++.+....|.++..|+.|++++| +|+.+....+  ..+|.+|++-++|- .+.|+-.
T Consensus       291 ~~a--Fe~~a~l~eL~L~~N-~l~~v~~~~f~~ls~L~tL~L~~N-~it~~~~~aF~~~~~l~~l~l~~Np~-~CnC~l~  365 (498)
T KOG4237|consen  291 DGA--FEGAAELQELYLTRN-KLEFVSSGMFQGLSGLKTLSLYDN-QITTVAPGAFQTLFSLSTLNLLSNPF-NCNCRLA  365 (498)
T ss_pred             hhh--hcchhhhhhhhcCcc-hHHHHHHHhhhccccceeeeecCC-eeEEEecccccccceeeeeehccCcc-cCccchH
Confidence            433  345788999999997 789988788999999999999999 7877755444  36899999999984 4568877


Q ss_pred             CCCCcc
Q 000803         1251 RGKEWS 1256 (1277)
Q Consensus      1251 ~~~~w~ 1256 (1277)
                      |-.+|-
T Consensus       366 wl~~Wl  371 (498)
T KOG4237|consen  366 WLGEWL  371 (498)
T ss_pred             HHHHHH
Confidence            777775

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

Probab=99.15  E-value=3.5e-09  Score=116.90  Aligned_cols=182  Identities=21%  Similarity=0.208  Sum_probs=116.0

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh--
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA--  246 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~--  246 (1277)
                      ..++.|+|++|+||||+++.+++.....   .+ ..+|+ +....+..++++.++..++..... .+.......+.+.  
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~---~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~-~~~~~~~~~l~~~l~  116 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQE---RV-VAAKL-VNTRVDAEDLLRMVAADFGLETEG-RDKAALLRELEDFLI  116 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCC---Ce-EEeee-eCCCCCHHHHHHHHHHHcCCCCCC-CCHHHHHHHHHHHHH
Confidence            3588999999999999999999864321   11 22343 233456778888888888654332 2223333333322  


Q ss_pred             ---hcCceEEEEecCcccccHHhHHhhhcccc---cCCCCcEEEEEcccccccccc----------CCCceeecCCCCHH
Q 000803          247 ---VDGKRFLLVLDDVWNEDYSLWVDLKAPFL---AAAPNSKMIITTRNSHVASTM----------GPIDHYNLEHLLDD  310 (1277)
Q Consensus       247 ---l~~kr~LlVlDdv~~~~~~~~~~l~~~l~---~~~~~s~iivTtr~~~v~~~~----------~~~~~~~l~~L~~~  310 (1277)
                         ..+++.+||+||+|......++.+.....   .......|++|.... ....+          .....+.+++++.+
T Consensus       117 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~  195 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDRE  195 (269)
T ss_pred             HHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHH
Confidence               26788999999999876666666543221   112233455555432 11111          11235789999999


Q ss_pred             HHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhhh
Q 000803          311 DCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLL  357 (1277)
Q Consensus       311 ~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L  357 (1277)
                      |..+++...+............++..+.|++.++|.|..|..++..+
T Consensus       196 e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       196 ETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            99999987764332211223446788899999999999999988766

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.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.09  E-value=3.5e-08  Score=114.33  Aligned_cols=302  Identities=14%  Similarity=0.070  Sum_probs=170.1

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccccc--CCcceEEEEEeCCCcCHHHH
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS--GKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~--~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      +..++||++++++|...+......  .....+.|+|++|+|||++++.++++......  +.--..+|+++....+...+
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~--~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~   91 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRG--SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQV   91 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcC--CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHH
Confidence            347999999999999998653211  33457899999999999999999975432110  00024578887777777889


Q ss_pred             HHHHHHHhc---CCCC-CCCcHHHHHHHHHHhhc--CceEEEEecCccccc---HHhHHhhhccc-ccCC--CCcEEEEE
Q 000803          219 SKALLESIT---SATC-DLKTVDEVQVQLKKAVD--GKRFLLVLDDVWNED---YSLWVDLKAPF-LAAA--PNSKMIIT  286 (1277)
Q Consensus       219 ~~~il~~l~---~~~~-~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~---~~~~~~l~~~l-~~~~--~~s~iivT  286 (1277)
                      +.+++.++.   .... ...+.++....+.+.+.  +++++||||+++.-.   ......+.... ....  ....+|.+
T Consensus        92 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i  171 (365)
T TIGR02928        92 LVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGI  171 (365)
T ss_pred             HHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEE
Confidence            999999884   2211 12234455555555553  568999999997641   11122222211 1111  23345555


Q ss_pred             cccccccccc-----C--CCceeecCCCCHHHHHHHHHHhhcCC-CCCCchhhHHHHHHHHHhhcCCchHH-HHHHHhhh
Q 000803          287 TRNSHVASTM-----G--PIDHYNLEHLLDDDCWSIFKTHAFEG-RDHNALEISESFRKKVVGKCGGLPLA-AKTLGGLL  357 (1277)
Q Consensus       287 tr~~~v~~~~-----~--~~~~~~l~~L~~~~~~~Lf~~~~~~~-~~~~~~~~~~~~~~~i~~~c~glPLa-i~~~~~~L  357 (1277)
                      |........+     .  ....+.+++.+.++..+++..++-.. ......+...+...+++....|.|-. +.++-...
T Consensus       172 ~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~  251 (365)
T TIGR02928       172 SNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAG  251 (365)
T ss_pred             ECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            5444321111     0  12458899999999999998886311 11112223334455577777788844 33332211


Q ss_pred             --c---C--C-ChhhHHHHHhhcccCCCCCCChHHHHHHhhhcCChhhhHHHhHhccc--CCCceeChHHHHHHH--HhC
Q 000803          358 --R---T--T-TYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYCAIF--PKDFEFDEKELVFLW--IAG  425 (1277)
Q Consensus       358 --~---~--~-~~~~w~~~l~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~~s~f--p~~~~i~~~~li~~w--~a~  425 (1277)
                        .   .  . +.+....+.+..         -.....-+...||.+.|..+..++..  .++..+...++...+  +++
T Consensus       252 ~~a~~~~~~~it~~~v~~a~~~~---------~~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~~~  322 (365)
T TIGR02928       252 EIAEREGAERVTEDHVEKAQEKI---------EKDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEVCE  322 (365)
T ss_pred             HHHHHcCCCCCCHHHHHHHHHHH---------HHHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHH
Confidence              1   1  1 444444444321         12334556788999888766655422  133345555555432  122


Q ss_pred             CccccCCChhhHHHHHHHHHHHHHhCCCcccc
Q 000803          426 GIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRT  457 (1277)
Q Consensus       426 g~i~~~~~~~~~~~~~~~~~~~L~~~~li~~~  457 (1277)
                      .+ ..   ....+.....++..|...|+|...
T Consensus       323 ~~-~~---~~~~~~~~~~~l~~l~~~gli~~~  350 (365)
T TIGR02928       323 DI-GV---DPLTQRRISDLLNELDMLGLVEAE  350 (365)
T ss_pred             hc-CC---CCCcHHHHHHHHHHHHhcCCeEEE
Confidence            11 10   011234556778888888888764

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

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

Probab=99.02  E-value=1.5e-09  Score=117.43  Aligned_cols=193  Identities=20%  Similarity=0.297  Sum_probs=99.1

Q ss_pred             cccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHH-
Q 000803          144 VFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKAL-  222 (1277)
Q Consensus       144 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i-  222 (1277)
                      |+||++|+++|.+++...      ..+.+.|+|+.|+|||+|++++.+.....   .+ .++|+...+..... ....+ 
T Consensus         1 F~gR~~el~~l~~~l~~~------~~~~~~l~G~rg~GKTsLl~~~~~~~~~~---~~-~~~y~~~~~~~~~~-~~~~~~   69 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG------PSQHILLYGPRGSGKTSLLKEFINELKEK---GY-KVVYIDFLEESNES-SLRSFI   69 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--------SSEEEEEESTTSSHHHHHHHHHHHCT-----EE-CCCHHCCTTBSHHH-HHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhh------cCcEEEEEcCCcCCHHHHHHHHHHHhhhc---CC-cEEEEecccchhhh-HHHHHH
Confidence            789999999999988653      23689999999999999999998854221   11 34444443333221 11111 


Q ss_pred             ---------HHHhc----CCCC------C----CCcHHHHHHHHHHhhcCceEEEEecCccccc------HHhHHhhhcc
Q 000803          223 ---------LESIT----SATC------D----LKTVDEVQVQLKKAVDGKRFLLVLDDVWNED------YSLWVDLKAP  273 (1277)
Q Consensus       223 ---------l~~l~----~~~~------~----~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~------~~~~~~l~~~  273 (1277)
                               ...+.    ....      .    ......+.+.+.+  .+++++||+||+....      ......+...
T Consensus        70 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~--~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~  147 (234)
T PF01637_consen   70 EETSLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKK--KGKKVIIVIDEFQYLAIASEEDKDFLKSLRSL  147 (234)
T ss_dssp             HHHHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHH--CHCCEEEEEETGGGGGBCTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHh--cCCcEEEEEecHHHHhhcccchHHHHHHHHHH
Confidence                     11121    1110      0    1112222233322  2345999999996654      1111222222


Q ss_pred             ccc--CCCCcEEEEEcccccccc--------ccCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhc
Q 000803          274 FLA--AAPNSKMIITTRNSHVAS--------TMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKC  343 (1277)
Q Consensus       274 l~~--~~~~s~iivTtr~~~v~~--------~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c  343 (1277)
                      +..  ...+-.+|++.....+..        ..+....+.+++|+.+++++++...+-..  ... +..++..++|+..+
T Consensus       148 ~~~~~~~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~--~~~-~~~~~~~~~i~~~~  224 (234)
T PF01637_consen  148 LDSLLSQQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL--IKL-PFSDEDIEEIYSLT  224 (234)
T ss_dssp             HHH----TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC---------HHHHHHHHHHH
T ss_pred             HhhccccCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh--hcc-cCCHHHHHHHHHHh
Confidence            222  123334444443332221        12333459999999999999998866322  111 22355668999999


Q ss_pred             CCchHHHHH
Q 000803          344 GGLPLAAKT  352 (1277)
Q Consensus       344 ~glPLai~~  352 (1277)
                      ||+|..|..
T Consensus       225 gG~P~~l~~  233 (234)
T PF01637_consen  225 GGNPRYLQE  233 (234)
T ss_dssp             TT-HHHHHH
T ss_pred             CCCHHHHhc
Confidence            999998864

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

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.00  E-value=2.6e-08  Score=116.50  Aligned_cols=293  Identities=17%  Similarity=0.189  Sum_probs=186.5

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC-cCHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD-FDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~  220 (1277)
                      ...|-|..    +++.|...     .+.+++.|..++|.|||||+.+...  ...   .-..+.|.+..+. -++....+
T Consensus        19 ~~~v~R~r----L~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~--~~~---~~~~v~Wlslde~dndp~rF~~   84 (894)
T COG2909          19 DNYVVRPR----LLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWRE--LAA---DGAAVAWLSLDESDNDPARFLS   84 (894)
T ss_pred             ccccccHH----HHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHH--hcC---cccceeEeecCCccCCHHHHHH
Confidence            34555554    44555443     4579999999999999999999976  222   2246899998764 56778888


Q ss_pred             HHHHHhcCCCCCC-------------CcHHHHHHHHHHhhc--CceEEEEecCcccccHHhHHhhhccc-ccCCCCcEEE
Q 000803          221 ALLESITSATCDL-------------KTVDEVQVQLKKAVD--GKRFLLVLDDVWNEDYSLWVDLKAPF-LAAAPNSKMI  284 (1277)
Q Consensus       221 ~il~~l~~~~~~~-------------~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~~~~~~l~~~l-~~~~~~s~ii  284 (1277)
                      .++..+....++.             .+...+...+..-+.  .++..+||||..-........-...| .....+-..|
T Consensus        85 yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lv  164 (894)
T COG2909          85 YLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLV  164 (894)
T ss_pred             HHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEE
Confidence            8888887433221             223334444444332  46899999998554333333333333 3445688999


Q ss_pred             EEcccccc---ccccCCCceeecC----CCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhhh
Q 000803          285 ITTRNSHV---ASTMGPIDHYNLE----HLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLL  357 (1277)
Q Consensus       285 vTtr~~~v---~~~~~~~~~~~l~----~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L  357 (1277)
                      ||||...-   +...-....++++    .++.+|+.++|.....       .+..+...+.+.+...|-+-|+..++=.+
T Consensus       165 v~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~-------l~Ld~~~~~~L~~~teGW~~al~L~aLa~  237 (894)
T COG2909         165 VTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGS-------LPLDAADLKALYDRTEGWAAALQLIALAL  237 (894)
T ss_pred             EEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCC-------CCCChHHHHHHHhhcccHHHHHHHHHHHc
Confidence            99998742   2221112234443    6899999999986652       12234566789999999999999998888


Q ss_pred             cCC-ChhhHHHHHhhcccCCCCCCChHH-HHHHhhhcCChhhhHHHhHhcccCCCceeChHHHHHHHHhCCccccCCChh
Q 000803          358 RTT-TYDMWDDILDSKIWDLPRQSSILP-VLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNE  435 (1277)
Q Consensus       358 ~~~-~~~~w~~~l~~~~~~~~~~~~i~~-~l~~sy~~L~~~~k~cf~~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~  435 (1277)
                      +.+ +.+.-...+.-.      .+.+.+ ...--++.||+++|.-++-+|+++.-   . ..|+..             -
T Consensus       238 ~~~~~~~q~~~~LsG~------~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~~f---~-~eL~~~-------------L  294 (894)
T COG2909         238 RNNTSAEQSLRGLSGA------ASHLSDYLVEEVLDRLPPELRDFLLQTSVLSRF---N-DELCNA-------------L  294 (894)
T ss_pred             cCCCcHHHHhhhccch------HHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh---h-HHHHHH-------------H
Confidence            844 333222222100      011111 23445799999999999999998431   1 222221             1


Q ss_pred             hHHHHHHHHHHHHHhCCCcc-ccCCCCCccchhHHHHHHHHHhc
Q 000803          436 QLKDLGSQCFHDLVSRSIFQ-RTGFGSSKFAMHDLVHALAQLVS  478 (1277)
Q Consensus       436 ~~~~~~~~~~~~L~~~~li~-~~~~~~~~~~mhdlv~~~~~~~~  478 (1277)
                      +-++.+..++++|.+++++- +-++....|+.|.+..+|.+.--
T Consensus       295 tg~~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~  338 (894)
T COG2909         295 TGEENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRL  338 (894)
T ss_pred             hcCCcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhh
Confidence            12345677899999999875 44556678999999999976543

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.97  E-value=1.1e-08  Score=115.53  Aligned_cols=277  Identities=17%  Similarity=0.152  Sum_probs=148.4

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHH
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      -..|+|+++.++.+..++....... .....+.|+|++|+||||+|+.+++....    .+   .++... .......+.
T Consensus        24 ~~~~vG~~~~~~~l~~~l~~~~~~~-~~~~~~ll~GppG~GKT~la~~ia~~l~~----~~---~~~~~~-~~~~~~~l~   94 (328)
T PRK00080         24 LDEFIGQEKVKENLKIFIEAAKKRG-EALDHVLLYGPPGLGKTTLANIIANEMGV----NI---RITSGP-ALEKPGDLA   94 (328)
T ss_pred             HHHhcCcHHHHHHHHHHHHHHHhcC-CCCCcEEEECCCCccHHHHHHHHHHHhCC----Ce---EEEecc-cccChHHHH
Confidence            3569999999999888775432111 34567889999999999999999885432    11   112211 111112222


Q ss_pred             HHHHHhcCCCC-CCCcH----HHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccccccccc
Q 000803          221 ALLESITSATC-DLKTV----DEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVAST  295 (1277)
Q Consensus       221 ~il~~l~~~~~-~~~~~----~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~~  295 (1277)
                      .++..+..... -.++.    ....+.+...+.+.+..+|+|+..+...     +...+   .+.+-|..||+...+...
T Consensus        95 ~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~-----~~~~l---~~~~li~at~~~~~l~~~  166 (328)
T PRK00080         95 AILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARS-----IRLDL---PPFTLIGATTRAGLLTSP  166 (328)
T ss_pred             HHHHhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccc-----eeecC---CCceEEeecCCcccCCHH
Confidence            33333221110 00000    1122333444444555555555432210     00011   124556667775544332


Q ss_pred             cC--CCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhhhcCCChhhHHHHHhhcc
Q 000803          296 MG--PIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKI  373 (1277)
Q Consensus       296 ~~--~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~~~~~w~~~l~~~~  373 (1277)
                      +.  ....+.+++++.++..+++.+.+....    ....++.+..|++.|+|.|-.+..+...+     ..|....... 
T Consensus       167 L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~----~~~~~~~~~~ia~~~~G~pR~a~~~l~~~-----~~~a~~~~~~-  236 (328)
T PRK00080        167 LRDRFGIVQRLEFYTVEELEKIVKRSARILG----VEIDEEGALEIARRSRGTPRIANRLLRRV-----RDFAQVKGDG-  236 (328)
T ss_pred             HHHhcCeeeecCCCCHHHHHHHHHHHHHHcC----CCcCHHHHHHHHHHcCCCchHHHHHHHHH-----HHHHHHcCCC-
Confidence            21  124589999999999999998875322    12335677899999999996555444322     1222111100 


Q ss_pred             cCCCC--CCChHHHHHHhhhcCChhhhHHHh-HhcccCCCceeChHHHHHHHHhCCccccCCChhhHHHHHHHHHH-HHH
Q 000803          374 WDLPR--QSSILPVLRLSYHHLPSHLKRCFA-YCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFH-DLV  449 (1277)
Q Consensus       374 ~~~~~--~~~i~~~l~~sy~~L~~~~k~cf~-~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~-~L~  449 (1277)
                       ....  -......+...|..|++..+..+. ....|+.+ .+..+.+....      ..  ..    +.++..++ .|+
T Consensus       237 -~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~-~~~~~~~a~~l------g~--~~----~~~~~~~e~~Li  302 (328)
T PRK00080        237 -VITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGG-PVGLDTLAAAL------GE--ER----DTIEDVYEPYLI  302 (328)
T ss_pred             -CCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCC-ceeHHHHHHHH------CC--Cc----chHHHHhhHHHH
Confidence             0000  012234456667888888888775 67777765 45555443322      11  11    23343455 899


Q ss_pred             hCCCccccC
Q 000803          450 SRSIFQRTG  458 (1277)
Q Consensus       450 ~~~li~~~~  458 (1277)
                      +.+|++...
T Consensus       303 ~~~li~~~~  311 (328)
T PRK00080        303 QQGFIQRTP  311 (328)
T ss_pred             HcCCcccCC
Confidence            999997654

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.94  E-value=3e-08  Score=111.51  Aligned_cols=275  Identities=17%  Similarity=0.098  Sum_probs=148.6

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..|||+++.++++..++....... .....+.++|++|+|||+||+.+++....    .+   ..+..+...... .+..
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~-~~~~~~ll~Gp~G~GKT~la~~ia~~~~~----~~---~~~~~~~~~~~~-~l~~   74 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQ-EALDHLLLYGPPGLGKTTLAHIIANEMGV----NL---KITSGPALEKPG-DLAA   74 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcC-CCCCeEEEECCCCCCHHHHHHHHHHHhCC----CE---EEeccchhcCch-hHHH
Confidence            368999999999988886432211 33456889999999999999999885422    12   112211111111 1222


Q ss_pred             HHHHhcCCCC------CCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccccccccc
Q 000803          222 LLESITSATC------DLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVAST  295 (1277)
Q Consensus       222 il~~l~~~~~------~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~~  295 (1277)
                      .+..+.....      +.. .....+.+...+.+.+..+|+|+.....  .|   ..++   .+.+-|.+||+...+...
T Consensus        75 ~l~~~~~~~vl~iDEi~~l-~~~~~e~l~~~~~~~~~~~v~~~~~~~~--~~---~~~~---~~~~li~~t~~~~~l~~~  145 (305)
T TIGR00635        75 ILTNLEEGDVLFIDEIHRL-SPAVEELLYPAMEDFRLDIVIGKGPSAR--SV---RLDL---PPFTLVGATTRAGMLTSP  145 (305)
T ss_pred             HHHhcccCCEEEEehHhhh-CHHHHHHhhHHHhhhheeeeeccCcccc--ce---eecC---CCeEEEEecCCccccCHH
Confidence            2223221110      000 1122344555555566666666654321  11   1111   225566677776544432


Q ss_pred             c--CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhhhcCCChhhHHHHHhhcc
Q 000803          296 M--GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKI  373 (1277)
Q Consensus       296 ~--~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~~~~~w~~~l~~~~  373 (1277)
                      +  .....+.+++++.++..+++.+.+.....    ...++....|++.|+|.|-.+..++..+       |........
T Consensus       146 l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~----~~~~~al~~ia~~~~G~pR~~~~ll~~~-------~~~a~~~~~  214 (305)
T TIGR00635       146 LRDRFGIILRLEFYTVEELAEIVSRSAGLLNV----EIEPEAALEIARRSRGTPRIANRLLRRV-------RDFAQVRGQ  214 (305)
T ss_pred             HHhhcceEEEeCCCCHHHHHHHHHHHHHHhCC----CcCHHHHHHHHHHhCCCcchHHHHHHHH-------HHHHHHcCC
Confidence            1  11245789999999999999988753211    2234566789999999997665444422       111100000


Q ss_pred             cCCCC--CCChHHHHHHhhhcCChhhhHHHh-HhcccCCCceeChHHHHHHHHhCCccccCCChhhHHHHHHHHHH-HHH
Q 000803          374 WDLPR--QSSILPVLRLSYHHLPSHLKRCFA-YCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFH-DLV  449 (1277)
Q Consensus       374 ~~~~~--~~~i~~~l~~sy~~L~~~~k~cf~-~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~-~L~  449 (1277)
                      .....  -......+...|..++++.+..+. .++.++.+ .+..+.+....      ..      ....++..++ .|+
T Consensus       215 ~~it~~~v~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~~-~~~~~~ia~~l------g~------~~~~~~~~~e~~Li  281 (305)
T TIGR00635       215 KIINRDIALKALEMLMIDELGLDEIDRKLLSVLIEQFQGG-PVGLKTLAAAL------GE------DADTIEDVYEPYLL  281 (305)
T ss_pred             CCcCHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHhCCC-cccHHHHHHHh------CC------CcchHHHhhhHHHH
Confidence            00000  011222245668888888877666 55667544 34443333221      11      1134556677 699


Q ss_pred             hCCCccccC
Q 000803          450 SRSIFQRTG  458 (1277)
Q Consensus       450 ~~~li~~~~  458 (1277)
                      +.+|++..+
T Consensus       282 ~~~li~~~~  290 (305)
T TIGR00635       282 QIGFLQRTP  290 (305)
T ss_pred             HcCCcccCC
Confidence            999997654

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.

>PF05729 NACHT: NACHT domain

Probab=98.90  E-value=6.9e-09  Score=105.34  Aligned_cols=146  Identities=25%  Similarity=0.340  Sum_probs=90.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCC--cceEEEEEeCCCcCHH---HHHHHHHHHhcCCCCCCCcHHHHHHHHH
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGK--FDVKAWVCVSDDFDVL---SISKALLESITSATCDLKTVDEVQVQLK  244 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~--f~~~~wv~~s~~~~~~---~~~~~il~~l~~~~~~~~~~~~~~~~l~  244 (1277)
                      |++.|+|.+|+||||+++.++.+........  +...+|+...+.....   .+...+..+.....   .........+ 
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~---~~~~~~~~~~-   76 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI---APIEELLQEL-   76 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch---hhhHHHHHHH-
Confidence            5799999999999999999988655443111  4566777766544322   23333333332211   1111111111 


Q ss_pred             HhhcCceEEEEecCcccccHH-------hHHhhhcccccC--CCCcEEEEEcccccc---ccccCCCceeecCCCCHHHH
Q 000803          245 KAVDGKRFLLVLDDVWNEDYS-------LWVDLKAPFLAA--APNSKMIITTRNSHV---ASTMGPIDHYNLEHLLDDDC  312 (1277)
Q Consensus       245 ~~l~~kr~LlVlDdv~~~~~~-------~~~~l~~~l~~~--~~~s~iivTtr~~~v---~~~~~~~~~~~l~~L~~~~~  312 (1277)
                       .-+.++++||+|++++....       .+..+...+...  .++.+++||+|....   .........+.+.+|++++.
T Consensus        77 -~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~  155 (166)
T PF05729_consen   77 -LEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDI  155 (166)
T ss_pred             -HHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHH
Confidence             12578999999999664321       133333333333  568999999998765   33334446799999999999


Q ss_pred             HHHHHHhh
Q 000803          313 WSIFKTHA  320 (1277)
Q Consensus       313 ~~Lf~~~~  320 (1277)
                      .+++.+..
T Consensus       156 ~~~~~~~f  163 (166)
T PF05729_consen  156 KQYLRKYF  163 (166)
T ss_pred             HHHHHHHh
Confidence            99987653

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.79  E-value=5.8e-07  Score=106.09  Aligned_cols=251  Identities=12%  Similarity=0.042  Sum_probs=142.4

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc-cCCc--ceEEEEEeCCCcCHHH
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-SGKF--DVKAWVCVSDDFDVLS  217 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-~~~f--~~~~wv~~s~~~~~~~  217 (1277)
                      +..+.||++|+++|...|...-... +...++.|+|++|.|||+.++.|.+....+. ....  -.+++|++..-.+...
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgs-gpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQS-GSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcC-CCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence            3578899999999999886543211 2336788999999999999999987543211 0011  1357788777677888


Q ss_pred             HHHHHHHHhcCCCCC-CCcHHHHHHHHHHhh-c--CceEEEEecCcccccHHhHHhhhcccc-cCCCCcEEEE--Ecccc
Q 000803          218 ISKALLESITSATCD-LKTVDEVQVQLKKAV-D--GKRFLLVLDDVWNEDYSLWVDLKAPFL-AAAPNSKMII--TTRNS  290 (1277)
Q Consensus       218 ~~~~il~~l~~~~~~-~~~~~~~~~~l~~~l-~--~kr~LlVlDdv~~~~~~~~~~l~~~l~-~~~~~s~iiv--Ttr~~  290 (1277)
                      ++..|.+++...... .....+..+.+...+ .  +...+||||+|+.-....-+.+...+. ....+++|+|  +|...
T Consensus       833 IYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdl  912 (1164)
T PTZ00112        833 AYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTM  912 (1164)
T ss_pred             HHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCch
Confidence            889999888544322 222333444444443 2  224589999996432111111211111 1224556554  33322


Q ss_pred             --------ccccccCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhhhcCC--
Q 000803          291 --------HVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTT--  360 (1277)
Q Consensus       291 --------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~--  360 (1277)
                              .+...++. ..+...|++.++-.+++..++-.....-.+..++-+|+.++...|-.=.||.++-.....+  
T Consensus       913 DLperLdPRLRSRLg~-eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEikeg  991 (1164)
T PTZ00112        913 DLPERLIPRCRSRLAF-GRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENKRG  991 (1164)
T ss_pred             hcchhhhhhhhhcccc-ccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhcCC
Confidence                    22222222 3467799999999999999885432222334455556655555566667777665444321  


Q ss_pred             ---ChhhHHHHHhhcccCCCCCCChHHHHHHhhhcCChhhhHHHh
Q 000803          361 ---TYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFA  402 (1277)
Q Consensus       361 ---~~~~w~~~l~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~  402 (1277)
                         ..+.-..+.+..         -...+.-....||.+.|-.+.
T Consensus       992 skVT~eHVrkAleei---------E~srI~e~IktLPlHqKLVLl 1027 (1164)
T PTZ00112        992 QKIVPRDITEATNQL---------FDSPLTNAINYLPWPFKMFLT 1027 (1164)
T ss_pred             CccCHHHHHHHHHHH---------HhhhHHHHHHcCCHHHHHHHH
Confidence               223333332211         011233344678888766554

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.70  E-value=4.5e-08  Score=108.19  Aligned_cols=70  Identities=31%  Similarity=0.623  Sum_probs=46.2

Q ss_pred             ccccCceeeecCCCccccccccccccEEEecccCCcccccccCccCcccEEEeecccccccCcCCCCCCCCcCEEecc
Q 000803         1035 LEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIK 1112 (1277)
Q Consensus      1035 l~~L~~L~l~~c~~l~~~p~~l~~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~~~~l~~lp~~l~~l~~L~~L~l~ 1112 (1277)
                      +.+++.|++++| .+..+|.-..+|++|.+++|.+++.+|. .+|.+|+.|++++|..+..+|.      +|+.|+++
T Consensus        51 ~~~l~~L~Is~c-~L~sLP~LP~sLtsL~Lsnc~nLtsLP~-~LP~nLe~L~Ls~Cs~L~sLP~------sLe~L~L~  120 (426)
T PRK15386         51 ARASGRLYIKDC-DIESLPVLPNELTEITIENCNNLTTLPG-SIPEGLEKLTVCHCPEISGLPE------SVRSLEIK  120 (426)
T ss_pred             hcCCCEEEeCCC-CCcccCCCCCCCcEEEccCCCCcccCCc-hhhhhhhheEccCccccccccc------ccceEEeC
Confidence            466788888888 6777774334577777777777766663 3456777777777766666653      35555554

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.69  E-value=4.8e-07  Score=113.36  Aligned_cols=311  Identities=16%  Similarity=0.184  Sum_probs=176.7

Q ss_pred             cccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc---CHHHHHH
Q 000803          144 VFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF---DVLSISK  220 (1277)
Q Consensus       144 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~---~~~~~~~  220 (1277)
                      ++||+.+++.+...+.....   +...++.+.|..|||||+++++|.....-+ .+.|-...+-....+.   ...+.++
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~---g~~~~~lv~G~sGIGKsalv~ev~~~i~~~-~~~~i~~~f~q~~~~ipl~~lvq~~r   77 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSK---GRGEVVLVAGESGIGKSALVNEVHKPITQQ-RGYFIKGKFDQFERNIPLSPLVQAFR   77 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhC---CCeEEEEEeecCCCcHHHHHHHHHHHHhcc-ceeeeHhhcccccCCCchHHHHHHHH
Confidence            78999999999998876543   556799999999999999999998643222 1122111111111221   1223344


Q ss_pred             HHHHHh-------------------cCCCCC----------------------CCcHH-----HHHHHHHHhh-cCceEE
Q 000803          221 ALLESI-------------------TSATCD----------------------LKTVD-----EVQVQLKKAV-DGKRFL  253 (1277)
Q Consensus       221 ~il~~l-------------------~~~~~~----------------------~~~~~-----~~~~~l~~~l-~~kr~L  253 (1277)
                      ++..++                   +.....                      .....     ..+..+..+. +.++.+
T Consensus        78 ~l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plV  157 (849)
T COG3899          78 DLMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLV  157 (849)
T ss_pred             HHHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeE
Confidence            444433                   111000                      00000     1122233333 456999


Q ss_pred             EEecCcccccHHhHHhhhcccccCC----CCcEEE--EEcccc--ccccccCCCceeecCCCCHHHHHHHHHHhhcCCCC
Q 000803          254 LVLDDVWNEDYSLWVDLKAPFLAAA----PNSKMI--ITTRNS--HVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRD  325 (1277)
Q Consensus       254 lVlDdv~~~~~~~~~~l~~~l~~~~----~~s~ii--vTtr~~--~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~  325 (1277)
                      +|+||+.+.+....+-+........    .-..|.  .|.+..  .+-........+.+.||+..+...+......... 
T Consensus       158 i~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~-  236 (849)
T COG3899         158 IVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK-  236 (849)
T ss_pred             EEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc-
Confidence            9999997766544433322221111    011222  222222  1222223346799999999999999887764321 


Q ss_pred             CCchhhHHHHHHHHHhhcCCchHHHHHHHhhhcCC-------ChhhHHHHHhhcccCCCCCCChHHHHHHhhhcCChhhh
Q 000803          326 HNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTT-------TYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLK  398 (1277)
Q Consensus       326 ~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~-------~~~~w~~~l~~~~~~~~~~~~i~~~l~~sy~~L~~~~k  398 (1277)
                          ....+....|+++..|+|+.+.-+-..+...       +...|..-..+ ....+..+.+...+..-.+.||...|
T Consensus       237 ----~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~-i~~~~~~~~vv~~l~~rl~kL~~~t~  311 (849)
T COG3899         237 ----LLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIAS-LGILATTDAVVEFLAARLQKLPGTTR  311 (849)
T ss_pred             ----cccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHh-cCCchhhHHHHHHHHHHHhcCCHHHH
Confidence                2335667889999999999999888888764       23334332211 11111123355678899999999999


Q ss_pred             HHHhHhcccCCCceeChHHHHHHHHhCCccccCCChhhHHHHHHHHHHHHHhCCCcccc-----CCCCCc--c-chhHHH
Q 000803          399 RCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRT-----GFGSSK--F-AMHDLV  470 (1277)
Q Consensus       399 ~cf~~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~~L~~~~li~~~-----~~~~~~--~-~mhdlv  470 (1277)
                      +.+...||+-.  .|+...|...|-.           .....+....+.|....++-..     ......  | ..||.+
T Consensus       312 ~Vl~~AA~iG~--~F~l~~La~l~~~-----------~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~v  378 (849)
T COG3899         312 EVLKAAACIGN--RFDLDTLAALAED-----------SPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRV  378 (849)
T ss_pred             HHHHHHHHhCc--cCCHHHHHHHHhh-----------chHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHH
Confidence            99999999954  4555555554411           2334555556666554444321     111111  2 468888


Q ss_pred             HHHHHHh
Q 000803          471 HALAQLV  477 (1277)
Q Consensus       471 ~~~~~~~  477 (1277)
                      ++.|-..
T Consensus       379 qqaaY~~  385 (849)
T COG3899         379 QQAAYNL  385 (849)
T ss_pred             HHHHhcc
Confidence            8876443

>PRK06893 DNA replication initiation factor; Validated

Probab=98.58  E-value=6.2e-07  Score=95.07  Aligned_cols=152  Identities=16%  Similarity=0.188  Sum_probs=93.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      +.+.|+|++|+|||+||+.+++....+    ...+.|+++....   ...                 .    .+.+.++ 
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~~~~~----~~~~~y~~~~~~~---~~~-----------------~----~~~~~~~-   90 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNHYLLN----QRTAIYIPLSKSQ---YFS-----------------P----AVLENLE-   90 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHc----CCCeEEeeHHHhh---hhh-----------------H----HHHhhcc-
Confidence            578999999999999999999864222    2245666653210   000                 0    1111121 


Q ss_pred             ceEEEEecCccccc-HHhHHh-hhcccccC-CCCcEEEEEccc----------cccccccCCCceeecCCCCHHHHHHHH
Q 000803          250 KRFLLVLDDVWNED-YSLWVD-LKAPFLAA-APNSKMIITTRN----------SHVASTMGPIDHYNLEHLLDDDCWSIF  316 (1277)
Q Consensus       250 kr~LlVlDdv~~~~-~~~~~~-l~~~l~~~-~~~s~iivTtr~----------~~v~~~~~~~~~~~l~~L~~~~~~~Lf  316 (1277)
                      +.-+||+||+|... ...|.. +...+... ..|..+||+|.+          +++++.+.....++++++++++.++++
T Consensus        91 ~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL  170 (229)
T PRK06893         91 QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVL  170 (229)
T ss_pred             cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHH
Confidence            23489999998642 234553 22223222 235566554443          245555555567899999999999999


Q ss_pred             HHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHH
Q 000803          317 KTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLG  354 (1277)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  354 (1277)
                      .+.++...    ....+++.+-|++.+.|..-++..+-
T Consensus       171 ~~~a~~~~----l~l~~~v~~~L~~~~~~d~r~l~~~l  204 (229)
T PRK06893        171 QRNAYQRG----IELSDEVANFLLKRLDRDMHTLFDAL  204 (229)
T ss_pred             HHHHHHcC----CCCCHHHHHHHHHhccCCHHHHHHHH
Confidence            99886432    22335677789999988776655443

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

Probab=98.56  E-value=7.8e-09  Score=117.91  Aligned_cols=84  Identities=20%  Similarity=0.163  Sum_probs=38.9

Q ss_pred             CCCeeeEEecCCCCCC-----CCCcCCCCCCccceeeccCCcccc-------ccccccccccCcEEEecCCcCccccchh
Q 000803          551 KFKKLRLLSLQGYYIG-----ELPIPFEDLRLLRYLNLADTDIRS-------LPESSCSLLNLEILILRNCSSLIKLPSK  618 (1277)
Q Consensus       551 ~l~~Lr~L~L~~~~i~-----~lp~~~~~l~~Lr~L~L~~~~i~~-------lp~~i~~L~~L~~L~L~~~~~l~~lp~~  618 (1277)
                      .+..|++|+++++.++     .++..+...+.|++|+++++.+..       ++..+..+.+|+.|++++|......+..
T Consensus        21 ~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~  100 (319)
T cd00116          21 KLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGV  100 (319)
T ss_pred             HHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHH
Confidence            3344555555555541     233334444455555555544331       2233444555555555554333233333


Q ss_pred             hccccC---cCeeeecCcc
Q 000803          619 IRRLIN---LCHLDIRGAI  634 (1277)
Q Consensus       619 i~~L~~---L~~L~l~~~~  634 (1277)
                      +..+.+   |++|++++|.
T Consensus       101 ~~~l~~~~~L~~L~ls~~~  119 (319)
T cd00116         101 LESLLRSSSLQELKLNNNG  119 (319)
T ss_pred             HHHHhccCcccEEEeeCCc
Confidence            433333   5555555554

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).

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

Probab=98.55  E-value=2.9e-08  Score=98.03  Aligned_cols=123  Identities=24%  Similarity=0.250  Sum_probs=44.1

Q ss_pred             CCCeeeEEecCCCCCCCCCcCCC-CCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhh-ccccCcCee
Q 000803          551 KFKKLRLLSLQGYYIGELPIPFE-DLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKI-RRLINLCHL  628 (1277)
Q Consensus       551 ~l~~Lr~L~L~~~~i~~lp~~~~-~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i-~~L~~L~~L  628 (1277)
                      +...+|.|+|++|.|+.+. .++ .+.+|+.|+|++|.|+.++ .+..|.+|++|++++ +.++.+++.+ ..+++|++|
T Consensus        17 n~~~~~~L~L~~n~I~~Ie-~L~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~-N~I~~i~~~l~~~lp~L~~L   93 (175)
T PF14580_consen   17 NPVKLRELNLRGNQISTIE-NLGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSN-NRISSISEGLDKNLPNLQEL   93 (175)
T ss_dssp             --------------------S--TT-TT--EEE-TTS--S--T-T----TT--EEE--S-S---S-CHHHHHH-TT--EE
T ss_pred             ccccccccccccccccccc-chhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCC-CCCCccccchHHhCCcCCEE
Confidence            3446788888888887773 455 5788888888888888885 577888888888888 4777776655 468888888


Q ss_pred             eecCccccccCCC--CCCCCCCCcccCceeeCCCCCC---CCChhccccccccC
Q 000803          629 DIRGAILLKEMPF--GMKELKNLQTLSNFVVGKGGET---ASGLEDLKILKFLS  677 (1277)
Q Consensus       629 ~l~~~~~l~~~p~--~i~~L~~L~~L~~~~~~~~~~~---~~~~~~L~~L~~L~  677 (1277)
                      ++++|. +..+..  .+..+++|+.|++.+|......   ...+..+++|+.|.
T Consensus        94 ~L~~N~-I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD  146 (175)
T PF14580_consen   94 YLSNNK-ISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLD  146 (175)
T ss_dssp             E-TTS----SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEET
T ss_pred             ECcCCc-CCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeC
Confidence            888886 554432  2566777777777777654321   11345566666665

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

Probab=98.47  E-value=4.5e-08  Score=111.60  Aligned_cols=113  Identities=24%  Similarity=0.164  Sum_probs=73.7

Q ss_pred             hhhhcCCCCeeeEEecCCCCCCC-------CCcCCCCCCccceeeccCCccc-ccccccccccc---CcEEEecCCcCcc
Q 000803          545 LYDLLPKFKKLRLLSLQGYYIGE-------LPIPFEDLRLLRYLNLADTDIR-SLPESSCSLLN---LEILILRNCSSLI  613 (1277)
Q Consensus       545 ~~~~~~~l~~Lr~L~L~~~~i~~-------lp~~~~~l~~Lr~L~L~~~~i~-~lp~~i~~L~~---L~~L~L~~~~~l~  613 (1277)
                      +...+...+.|+.|+++++.+..       ++..+..+.+|++|++++|.+. ..+..+..+.+   |++|++++|. +.
T Consensus        43 i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~-~~  121 (319)
T cd00116          43 LASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNG-LG  121 (319)
T ss_pred             HHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCc-cc
Confidence            34445666778888888877653       2345667788888888888776 44555555555   8888888864 33


Q ss_pred             -----ccchhhccc-cCcCeeeecCccccc-----cCCCCCCCCCCCcccCceeeCC
Q 000803          614 -----KLPSKIRRL-INLCHLDIRGAILLK-----EMPFGMKELKNLQTLSNFVVGK  659 (1277)
Q Consensus       614 -----~lp~~i~~L-~~L~~L~l~~~~~l~-----~~p~~i~~L~~L~~L~~~~~~~  659 (1277)
                           .++..+..+ ++|+.|++++|. +.     .++..+..+++|++|++..+..
T Consensus       122 ~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~~~~~~~~~~~L~~L~l~~n~l  177 (319)
T cd00116         122 DRGLRLLAKGLKDLPPALEKLVLGRNR-LEGASCEALAKALRANRDLKELNLANNGI  177 (319)
T ss_pred             hHHHHHHHHHHHhCCCCceEEEcCCCc-CCchHHHHHHHHHHhCCCcCEEECcCCCC
Confidence                 233445666 788888888886 33     2333455566777776665543

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).

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

Probab=98.46  E-value=1.4e-07  Score=110.70  Aligned_cols=107  Identities=30%  Similarity=0.381  Sum_probs=94.6

Q ss_pred             CCCCeeeEEecCCCCCCCCCcCCCCCC-ccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCee
Q 000803          550 PKFKKLRLLSLQGYYIGELPIPFEDLR-LLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHL  628 (1277)
Q Consensus       550 ~~l~~Lr~L~L~~~~i~~lp~~~~~l~-~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L  628 (1277)
                      ..+..+..|++.++.+.++|...+.+. +|++|++++|.+..+|..++.+++|+.|++++| .+..+|...+.+++|+.|
T Consensus       113 ~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N-~l~~l~~~~~~~~~L~~L  191 (394)
T COG4886         113 LELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFN-DLSDLPKLLSNLSNLNNL  191 (394)
T ss_pred             hcccceeEEecCCcccccCccccccchhhcccccccccchhhhhhhhhccccccccccCCc-hhhhhhhhhhhhhhhhhe
Confidence            344789999999999999998888885 999999999999999989999999999999994 889999888899999999


Q ss_pred             eecCccccccCCCCCCCCCCCcccCceeeC
Q 000803          629 DIRGAILLKEMPFGMKELKNLQTLSNFVVG  658 (1277)
Q Consensus       629 ~l~~~~~l~~~p~~i~~L~~L~~L~~~~~~  658 (1277)
                      ++++|. +..+|..++.+..|++|.+..+.
T Consensus       192 ~ls~N~-i~~l~~~~~~~~~L~~l~~~~N~  220 (394)
T COG4886         192 DLSGNK-ISDLPPEIELLSALEELDLSNNS  220 (394)
T ss_pred             eccCCc-cccCchhhhhhhhhhhhhhcCCc
Confidence            999998 88899877777889998877774

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

Probab=98.45  E-value=6.6e-07  Score=86.37  Aligned_cols=119  Identities=21%  Similarity=0.238  Sum_probs=82.0

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccc-cCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVED-SGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAV  247 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  247 (1277)
                      -+++.|+|.+|+|||++++++.++..... ...-..++|+.+....+...+.+.++.+++.......+.+++.+.+.+.+
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            46899999999999999999988543210 00024567999988889999999999999977666566777777777777


Q ss_pred             cCc-eEEEEecCcccc-cHHhHHhhhcccccCCCCcEEEEEccc
Q 000803          248 DGK-RFLLVLDDVWNE-DYSLWVDLKAPFLAAAPNSKMIITTRN  289 (1277)
Q Consensus       248 ~~k-r~LlVlDdv~~~-~~~~~~~l~~~l~~~~~~s~iivTtr~  289 (1277)
                      ... ..+||+|+++.- ....++.+.... + ..+.+||++.+.
T Consensus        84 ~~~~~~~lviDe~~~l~~~~~l~~l~~l~-~-~~~~~vvl~G~~  125 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLFSDEFLEFLRSLL-N-ESNIKVVLVGTP  125 (131)
T ss_dssp             HHCTEEEEEEETTHHHHTHHHHHHHHHHT-C-SCBEEEEEEESS
T ss_pred             HhcCCeEEEEeChHhcCCHHHHHHHHHHH-h-CCCCeEEEEECh
Confidence            654 459999999765 444445553322 2 567777777665

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.45  E-value=2.4e-06  Score=99.54  Aligned_cols=176  Identities=19%  Similarity=0.228  Sum_probs=102.4

Q ss_pred             ccccchhhHHH---HHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHH
Q 000803          143 VVFGREEDKTK---ILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       143 ~~vGr~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~  219 (1277)
                      .+||++..+..   +.+++..      .....+.++|++|+||||+|+.+++....    .|     +.++.......-.
T Consensus        13 d~vGq~~~v~~~~~L~~~i~~------~~~~~ilL~GppGtGKTtLA~~ia~~~~~----~~-----~~l~a~~~~~~~i   77 (413)
T PRK13342         13 EVVGQEHLLGPGKPLRRMIEA------GRLSSMILWGPPGTGKTTLARIIAGATDA----PF-----EALSAVTSGVKDL   77 (413)
T ss_pred             HhcCcHHHhCcchHHHHHHHc------CCCceEEEECCCCCCHHHHHHHHHHHhCC----CE-----EEEecccccHHHH
Confidence            57788776544   6666543      23456788999999999999999874321    22     2222211111111


Q ss_pred             HHHHHHhcCCCCCCCcHHHHHHHHHHh-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEE--Eccccc--cc-
Q 000803          220 KALLESITSATCDLKTVDEVQVQLKKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMII--TTRNSH--VA-  293 (1277)
Q Consensus       220 ~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv--Ttr~~~--v~-  293 (1277)
                      +++++                 ..+.. ..+++.+|++|+++.......+.+...+.   .|..++|  ||.+..  +. 
T Consensus        78 r~ii~-----------------~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~  137 (413)
T PRK13342         78 REVIE-----------------EARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNP  137 (413)
T ss_pred             HHHHH-----------------HHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccH
Confidence            12221                 11111 24578899999998766555555554443   2444444  344322  11 


Q ss_pred             cccCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHH
Q 000803          294 STMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLG  354 (1277)
Q Consensus       294 ~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  354 (1277)
                      ........+.+.+++.++.+.++.+.+....... ....++..+.|++.|+|.+..+.-+.
T Consensus       138 aL~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~-i~i~~~al~~l~~~s~Gd~R~aln~L  197 (413)
T PRK13342        138 ALLSRAQVFELKPLSEEDIEQLLKRALEDKERGL-VELDDEALDALARLANGDARRALNLL  197 (413)
T ss_pred             HHhccceeeEeCCCCHHHHHHHHHHHHHHhhcCC-CCCCHHHHHHHHHhCCCCHHHHHHHH
Confidence            1112235789999999999999987653211100 12335667789999999987664443

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

Probab=98.44  E-value=5.6e-09  Score=111.32  Aligned_cols=162  Identities=13%  Similarity=0.106  Sum_probs=83.2

Q ss_pred             ccEEEecccCCccccccc---CccCcccEEEeecccccccCc--CCCCCCCCcCEEeccCCCCcccccCCCC---CCCCc
Q 000803         1059 LRSIYIKKCPSLVSLAEK---GLPNTISHVTISYCEKLDALP--NGMHKLQSLQYLKIKECPSILSFSEEGF---PTNLK 1130 (1277)
Q Consensus      1059 L~~L~l~~c~~l~~l~~~---~~~~~L~~L~l~~~~~l~~lp--~~l~~l~~L~~L~l~~c~~l~~l~~~~~---~~~L~ 1130 (1277)
                      +.++++..|..+++....   .....||.|+.++|..++..+  .-..++++|+.|.++.|..++......+   .+.|+
T Consensus       270 i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le  349 (483)
T KOG4341|consen  270 ILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLE  349 (483)
T ss_pred             hhccchhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhh
Confidence            444455566555554421   223456777777766654332  1124567777777777766544322222   23455


Q ss_pred             eEEEccccCccchhhh-hhhcccccCCcccccccccCCCccCchh--hhhccCCcccceeeecccccccccCccCCCCCC
Q 000803         1131 LIRIGGGVDAKMYKAV-IQWGLHRLTSLIGLSIEECHDAESFPDE--EMRMMLPASLTFLILRRLSKLKYLSSMGFQSLT 1207 (1277)
Q Consensus      1131 ~L~l~~~~~~~~l~~~-~~~~~~~l~~L~~L~l~~~~~l~~lp~~--~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~l~ 1207 (1277)
                      .|++   ..|..+... ....-.+++.|+.|.+++|..+.+--.-  .........|..+.+.+||.+..-..+.+..++
T Consensus       350 ~l~~---e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~  426 (483)
T KOG4341|consen  350 RLDL---EECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICR  426 (483)
T ss_pred             hhcc---cccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHHHHHhhCc
Confidence            5555   344444432 2222346777788888777655432000  000123445666666666665544434455566


Q ss_pred             CCCceeccCCCCCCCC
Q 000803         1208 SLEHLLIEDCPNLTSF 1223 (1277)
Q Consensus      1208 ~L~~L~l~~c~~l~~l 1223 (1277)
                      +|+.+++++|..++.-
T Consensus       427 ~Leri~l~~~q~vtk~  442 (483)
T KOG4341|consen  427 NLERIELIDCQDVTKE  442 (483)
T ss_pred             ccceeeeechhhhhhh
Confidence            6666666666555443

>PTZ00202 tuzin; Provisional

Probab=98.42  E-value=4e-06  Score=91.87  Aligned_cols=170  Identities=12%  Similarity=0.190  Sum_probs=102.8

Q ss_pred             CCCCCCCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC
Q 000803          135 SSSVPTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       135 ~~~~~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~  214 (1277)
                      ...+++.+.|+||+.+..++...|...+.   ...+++.|+|++|+|||||++.+....      ++ ...+++. .  +
T Consensus       255 ~~lPa~~~~FVGReaEla~Lr~VL~~~d~---~~privvLtG~~G~GKTTLlR~~~~~l------~~-~qL~vNp-r--g  321 (550)
T PTZ00202        255 QSAPAVIRQFVSREAEESWVRQVLRRLDT---AHPRIVVFTGFRGCGKSSLCRSAVRKE------GM-PAVFVDV-R--G  321 (550)
T ss_pred             cCCCCCccCCCCcHHHHHHHHHHHhccCC---CCceEEEEECCCCCCHHHHHHHHHhcC------Cc-eEEEECC-C--C
Confidence            34456678999999999999998865332   234699999999999999999998632      21 1233332 2  6


Q ss_pred             HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhh-----c-CceEEEEecCcccccH-HhHHhhhcccccCCCCcEEEEEc
Q 000803          215 VLSISKALLESITSATCDLKTVDEVQVQLKKAV-----D-GKRFLLVLDDVWNEDY-SLWVDLKAPFLAAAPNSKMIITT  287 (1277)
Q Consensus       215 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-----~-~kr~LlVlDdv~~~~~-~~~~~l~~~l~~~~~~s~iivTt  287 (1277)
                      ..++++.++.+++.+..  ....++.+.|++.+     . +++.+||+-==.-.+. -.+.+.. .+...-.-|.|++--
T Consensus       322 ~eElLr~LL~ALGV~p~--~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~v-~la~drr~ch~v~ev  398 (550)
T PTZ00202        322 TEDTLRSVVKALGVPNV--EACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEVV-ALACDRRLCHVVIEV  398 (550)
T ss_pred             HHHHHHHHHHHcCCCCc--ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHHH-HHHccchhheeeeee
Confidence            79999999999996332  22233434443332     2 6666666532211110 1122211 233334567777654


Q ss_pred             ccccccccc---CCCceeecCCCCHHHHHHHHHHhh
Q 000803          288 RNSHVASTM---GPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       288 r~~~v~~~~---~~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      -.+.+....   .....|.+..++.++|.++.....
T Consensus       399 pleslt~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        399 PLESLTIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             hHhhcchhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            433222111   122458899999999988766543

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

Probab=98.42  E-value=3.7e-06  Score=90.51  Aligned_cols=174  Identities=18%  Similarity=0.234  Sum_probs=102.7

Q ss_pred             CCCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          139 PTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       139 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      ..+.+++|....+.++++   .      +.+.-...||++|+||||||+.+......    .|     ..++-..+-.+-
T Consensus        27 vGQ~HLlg~~~~lrr~v~---~------~~l~SmIl~GPPG~GKTTlA~liA~~~~~----~f-----~~~sAv~~gvkd   88 (436)
T COG2256          27 VGQEHLLGEGKPLRRAVE---A------GHLHSMILWGPPGTGKTTLARLIAGTTNA----AF-----EALSAVTSGVKD   88 (436)
T ss_pred             cChHhhhCCCchHHHHHh---c------CCCceeEEECCCCCCHHHHHHHHHHhhCC----ce-----EEeccccccHHH
Confidence            344566666665555543   2      45667789999999999999999873221    33     233333222222


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEE--Eccccccc---
Q 000803          219 SKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMII--TTRNSHVA---  293 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv--Ttr~~~v~---  293 (1277)
                      ++++++..                -+....++|.+|++|.|..-+..+.+.++   +....|.-|+|  ||-++.-.   
T Consensus        89 lr~i~e~a----------------~~~~~~gr~tiLflDEIHRfnK~QQD~lL---p~vE~G~iilIGATTENPsF~ln~  149 (436)
T COG2256          89 LREIIEEA----------------RKNRLLGRRTILFLDEIHRFNKAQQDALL---PHVENGTIILIGATTENPSFELNP  149 (436)
T ss_pred             HHHHHHHH----------------HHHHhcCCceEEEEehhhhcChhhhhhhh---hhhcCCeEEEEeccCCCCCeeecH
Confidence            22222221                12233489999999999776554444333   33445776666  55555321   


Q ss_pred             cccCCCceeecCCCCHHHHHHHHHHhhcCCCCC---CchhhHHHHHHHHHhhcCCchHH
Q 000803          294 STMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDH---NALEISESFRKKVVGKCGGLPLA  349 (1277)
Q Consensus       294 ~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~---~~~~~~~~~~~~i~~~c~glPLa  349 (1277)
                      .......++.+++|+.++-.+++.+.+-.....   ......++..+-+++.++|---+
T Consensus       150 ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~  208 (436)
T COG2256         150 ALLSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARR  208 (436)
T ss_pred             HHhhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHH
Confidence            112334689999999999999998844221111   11112345667788899887544

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

Probab=98.38  E-value=3.5e-08  Score=109.24  Aligned_cols=103  Identities=26%  Similarity=0.260  Sum_probs=60.2

Q ss_pred             eEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCeeeecCccc
Q 000803          556 RLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAIL  635 (1277)
Q Consensus       556 r~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~  635 (1277)
                      ...||+.|.+..+|..++.+..|..|.|.+|.+..+|..+++|..|.+|||+. +.+..+|..++.|+ |+.|-+++|+ 
T Consensus        78 ~~aDlsrNR~~elp~~~~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~-NqlS~lp~~lC~lp-Lkvli~sNNk-  154 (722)
T KOG0532|consen   78 VFADLSRNRFSELPEEACAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSS-NQLSHLPDGLCDLP-LKVLIVSNNK-  154 (722)
T ss_pred             hhhhccccccccCchHHHHHHHHHHHHHHhccceecchhhhhhhHHHHhhhcc-chhhcCChhhhcCc-ceeEEEecCc-
Confidence            34556666666666666666666666666666666666666666666666665 35556666555544 5555555554 


Q ss_pred             cccCCCCCCCCCCCcccCceeeCCCC
Q 000803          636 LKEMPFGMKELKNLQTLSNFVVGKGG  661 (1277)
Q Consensus       636 l~~~p~~i~~L~~L~~L~~~~~~~~~  661 (1277)
                      ++.+|.+|+.+..|..|+.+.|.+.+
T Consensus       155 l~~lp~~ig~~~tl~~ld~s~nei~s  180 (722)
T KOG0532|consen  155 LTSLPEEIGLLPTLAHLDVSKNEIQS  180 (722)
T ss_pred             cccCCcccccchhHHHhhhhhhhhhh
Confidence            55666666655555555555554443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.38  E-value=9e-06  Score=91.17  Aligned_cols=180  Identities=16%  Similarity=0.215  Sum_probs=115.5

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccc--ccCCcceEEEEEe-CCCcCHHHHH
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVE--DSGKFDVKAWVCV-SDDFDVLSIS  219 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~--~~~~f~~~~wv~~-s~~~~~~~~~  219 (1277)
                      .++|-+..++.+.+++...     .-.....++|+.|+||||+|+.+++..-..  ...|+|...|... +....+.+ .
T Consensus         5 ~i~g~~~~~~~l~~~~~~~-----~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-i   78 (313)
T PRK05564          5 TIIGHENIKNRIKNSIIKN-----RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-I   78 (313)
T ss_pred             hccCcHHHHHHHHHHHHcC-----CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-H
Confidence            5789888888898888553     234577899999999999999988743111  1236676666542 22222222 2


Q ss_pred             HHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccccccc-cc-cC
Q 000803          220 KALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVA-ST-MG  297 (1277)
Q Consensus       220 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~-~~-~~  297 (1277)
                      +++.+.+...                -..+++=++|+|+++..+...|+.+...+.....++.+|++|.+.+.. .. ..
T Consensus        79 r~~~~~~~~~----------------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~S  142 (313)
T PRK05564         79 RNIIEEVNKK----------------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKS  142 (313)
T ss_pred             HHHHHHHhcC----------------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHh
Confidence            2222222111                123456677788887777778999998888777788988888655322 11 12


Q ss_pred             CCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHH
Q 000803          298 PIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKT  352 (1277)
Q Consensus       298 ~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  352 (1277)
                      ....+.+.++++++....+..... .       ...+.++.++..++|.|..+..
T Consensus       143 Rc~~~~~~~~~~~~~~~~l~~~~~-~-------~~~~~~~~l~~~~~g~~~~a~~  189 (313)
T PRK05564        143 RCQIYKLNRLSKEEIEKFISYKYN-D-------IKEEEKKSAIAFSDGIPGKVEK  189 (313)
T ss_pred             hceeeeCCCcCHHHHHHHHHHHhc-C-------CCHHHHHHHHHHcCCCHHHHHH
Confidence            235789999999999887765431 1       1123466789999998876543

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

Probab=98.37  E-value=3.3e-07  Score=90.61  Aligned_cols=106  Identities=27%  Similarity=0.315  Sum_probs=56.5

Q ss_pred             CCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccc-cccccCcEEEecCCcCccccch--hhccccCcCe
Q 000803          551 KFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEILILRNCSSLIKLPS--KIRRLINLCH  627 (1277)
Q Consensus       551 ~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i-~~L~~L~~L~L~~~~~l~~lp~--~i~~L~~L~~  627 (1277)
                      .+.+|++|+|++|.|+.++ .+..+.+|++|++++|.|+.+++.+ ..+++|+.|++++| .+..+-.  .+..+++|++
T Consensus        40 ~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~~L~~  117 (175)
T PF14580_consen   40 TLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLSNN-KISDLNELEPLSSLPKLRV  117 (175)
T ss_dssp             T-TT--EEE-TTS--S--T-T----TT--EEE--SS---S-CHHHHHH-TT--EEE-TTS----SCCCCGGGGG-TT--E
T ss_pred             hhcCCCEEECCCCCCcccc-CccChhhhhhcccCCCCCCccccchHHhCCcCCEEECcCC-cCCChHHhHHHHcCCCcce
Confidence            5678999999999999985 6888999999999999999997666 46999999999985 6665533  4678999999


Q ss_pred             eeecCccccccCCCC----CCCCCCCcccCceeeCC
Q 000803          628 LDIRGAILLKEMPFG----MKELKNLQTLSNFVVGK  659 (1277)
Q Consensus       628 L~l~~~~~l~~~p~~----i~~L~~L~~L~~~~~~~  659 (1277)
                      |++.+|. +...+..    +..+++|+.|+...+..
T Consensus       118 L~L~~NP-v~~~~~YR~~vi~~lP~Lk~LD~~~V~~  152 (175)
T PF14580_consen  118 LSLEGNP-VCEKKNYRLFVIYKLPSLKVLDGQDVTE  152 (175)
T ss_dssp             EE-TT-G-GGGSTTHHHHHHHH-TT-SEETTEETTS
T ss_pred             eeccCCc-ccchhhHHHHHHHHcChhheeCCEEccH
Confidence            9999998 5555532    67899999999776653

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

Probab=98.35  E-value=8.5e-06  Score=82.03  Aligned_cols=180  Identities=20%  Similarity=0.226  Sum_probs=93.4

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..|||.+.-++.+.-.+..... .++.+.-+-.||++|+||||||.-+++....    .|.   +++.. ...       
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~-r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~----~~~---~~sg~-~i~-------   87 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKK-RGEALDHMLFYGPPGLGKTTLARIIANELGV----NFK---ITSGP-AIE-------   87 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHC-TTS---EEEEESSTTSSHHHHHHHHHHHCT------EE---EEECC-C---------
T ss_pred             HHccCcHHHHhhhHHHHHHHHh-cCCCcceEEEECCCccchhHHHHHHHhccCC----CeE---eccch-hhh-------
Confidence            4699999888776544432211 1145678899999999999999999985432    331   22221 110       


Q ss_pred             HHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccc--------cCC-----------CCcE
Q 000803          222 LLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFL--------AAA-----------PNSK  282 (1277)
Q Consensus       222 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~--------~~~-----------~~s~  282 (1277)
                                   ...++...+.+ + +++-+|++|.+..-+...-+.+....-        ..+           +-+-
T Consensus        88 -------------k~~dl~~il~~-l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTl  152 (233)
T PF05496_consen   88 -------------KAGDLAAILTN-L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTL  152 (233)
T ss_dssp             -------------SCHHHHHHHHT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EE
T ss_pred             -------------hHHHHHHHHHh-c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceE
Confidence                         01112222221 1 234567778886644433333222211        111           1234


Q ss_pred             EEEEccccccccccCCC-c-eeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhh
Q 000803          283 MIITTRNSHVASTMGPI-D-HYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGL  356 (1277)
Q Consensus       283 iivTtr~~~v~~~~~~~-~-~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~  356 (1277)
                      |=.|||...+...+..- . ..+++..+.+|-.++..+.+..-    ..+..++.+.+|++.+.|-|--+.-+-..
T Consensus       153 igATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l----~i~i~~~~~~~Ia~rsrGtPRiAnrll~r  224 (233)
T PF05496_consen  153 IGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARIL----NIEIDEDAAEEIARRSRGTPRIANRLLRR  224 (233)
T ss_dssp             EEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCT----T-EE-HHHHHHHHHCTTTSHHHHHHHHHH
T ss_pred             eeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHh----CCCcCHHHHHHHHHhcCCChHHHHHHHHH
Confidence            55688876655444322 2 34799999999999988766321    12445678899999999999755544333

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.

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.35  E-value=8.1e-07  Score=98.44  Aligned_cols=67  Identities=27%  Similarity=0.608  Sum_probs=36.5

Q ss_pred             ccceeccCCCCCccccCcCccccccCceeeecCCCccccccccc-cccEEEecccCCcccccccCccCcccEEEeec
Q 000803         1014 LESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLH-KLRSIYIKKCPSLVSLAEKGLPNTISHVTISY 1089 (1277)
Q Consensus      1014 L~~L~l~~~~~l~~l~~~~~~l~~L~~L~l~~c~~l~~~p~~l~-~L~~L~l~~c~~l~~l~~~~~~~~L~~L~l~~ 1089 (1277)
                      ++.|++++| .++.+|.   .+++|+.|++++|..+..+|..++ +|+.|.+++|..+..+     |.+|+.|++++
T Consensus        54 l~~L~Is~c-~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~LP~nLe~L~Ls~Cs~L~sL-----P~sLe~L~L~~  121 (426)
T PRK15386         54 SGRLYIKDC-DIESLPV---LPNELTEITIENCNNLTTLPGSIPEGLEKLTVCHCPEISGL-----PESVRSLEIKG  121 (426)
T ss_pred             CCEEEeCCC-CCcccCC---CCCCCcEEEccCCCCcccCCchhhhhhhheEccCccccccc-----ccccceEEeCC
Confidence            445555555 4555552   344566666666666655554433 4666666666555433     34566666553

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.34  E-value=5.6e-05  Score=91.82  Aligned_cols=204  Identities=19%  Similarity=0.168  Sum_probs=119.9

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCc-ceEEEEEeCCC---cCHHHH
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKF-DVKAWVCVSDD---FDVLSI  218 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f-~~~~wv~~s~~---~~~~~~  218 (1277)
                      .++|++..+..+.+.+..      .....+.|+|++|+||||+|+.+++.........| ...-|+.+...   .+...+
T Consensus       155 ~iiGqs~~~~~l~~~ia~------~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i  228 (615)
T TIGR02903       155 EIVGQERAIKALLAKVAS------PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREV  228 (615)
T ss_pred             hceeCcHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHH
Confidence            588999999988877643      22356999999999999999999875433221111 12234444321   122222


Q ss_pred             HHH---------------HHHHhcCCCC----------------CCC-cHHHHHHHHHHhhcCceEEEEecCcccccHHh
Q 000803          219 SKA---------------LLESITSATC----------------DLK-TVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSL  266 (1277)
Q Consensus       219 ~~~---------------il~~l~~~~~----------------~~~-~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~  266 (1277)
                      ...               .+...+....                +.. -....+..+.+.++++++.++-|+.|..+...
T Consensus       229 ~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~  308 (615)
T TIGR02903       229 TNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNV  308 (615)
T ss_pred             hHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCccc
Confidence            111               1111111000                001 12345778888899999999988888776667


Q ss_pred             HHhhhcccccCCCCcEEEE--Ecccccc-cccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhh
Q 000803          267 WVDLKAPFLAAAPNSKMII--TTRNSHV-ASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGK  342 (1277)
Q Consensus       267 ~~~l~~~l~~~~~~s~iiv--Ttr~~~v-~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~  342 (1277)
                      |+.+...+....+...|++  ||++... ...+ .....+.+.+++.+|.++++.+.+-...    ....+++.+.|++.
T Consensus       309 ~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~----v~ls~eal~~L~~y  384 (615)
T TIGR02903       309 PKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKIN----VHLAAGVEELIARY  384 (615)
T ss_pred             chhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHC
Confidence            8887766665555555555  5665432 1111 1224578899999999999998763211    11224455566666


Q ss_pred             cCCchHHHHHHHhh
Q 000803          343 CGGLPLAAKTLGGL  356 (1277)
Q Consensus       343 c~glPLai~~~~~~  356 (1277)
                      ++.-+-|+..++..
T Consensus       385 s~~gRraln~L~~~  398 (615)
T TIGR02903       385 TIEGRKAVNILADV  398 (615)
T ss_pred             CCcHHHHHHHHHHH
Confidence            65556666655443

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PF13173 AAA_14: AAA domain

Probab=98.34  E-value=1.1e-06  Score=83.85  Aligned_cols=119  Identities=21%  Similarity=0.262  Sum_probs=79.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      +++.|.|+.|+||||++++++.+..     ....+++++..+........                .+ ..+.+.+....
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~-----~~~~~~yi~~~~~~~~~~~~----------------~~-~~~~~~~~~~~   60 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL-----PPENILYINFDDPRDRRLAD----------------PD-LLEYFLELIKP   60 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc-----ccccceeeccCCHHHHHHhh----------------hh-hHHHHHHhhcc
Confidence            6899999999999999999987543     12346777665542211000                00 22233333444


Q ss_pred             ceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccccccccc------cCCCceeecCCCCHHHH
Q 000803          250 KRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVAST------MGPIDHYNLEHLLDDDC  312 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~~------~~~~~~~~l~~L~~~~~  312 (1277)
                      ++.+|+||++...  ..|......+.+..++.+|++|+........      .+....+++.||+..|.
T Consensus        61 ~~~~i~iDEiq~~--~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   61 GKKYIFIDEIQYL--PDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             CCcEEEEehhhhh--ccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            7889999999765  6788887777776677899999987644421      13334689999998774

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.34  E-value=1.6e-06  Score=94.13  Aligned_cols=290  Identities=20%  Similarity=0.227  Sum_probs=181.0

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcce-EEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDV-KAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~-~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      ..+.+.++|.|||||||++-++.. .+  .  .|.. +.++....--+...+.-.+...++....+.   +.....+...
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~--~--~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g---~~~~~~~~~~   84 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AA--S--EYADGVAFVDLAPITDPALVFPTLAGALGLHVQPG---DSAVDTLVRR   84 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-Hh--h--hcccceeeeeccccCchhHhHHHHHhhcccccccc---hHHHHHHHHH
Confidence            357899999999999999999876 22  2  4544 445554444455555555555566544332   2233345556


Q ss_pred             hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccccccccccCCCceeecCCCCHH-HHHHHHHHhhcCCCC
Q 000803          247 VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDD-DCWSIFKTHAFEGRD  325 (1277)
Q Consensus       247 l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~~~~~~~~~~l~~L~~~-~~~~Lf~~~~~~~~~  325 (1277)
                      ..++|.++|+||-..- ...-..+...+..+...-.|+.|+|.....   .....+.+.+|+.. ++.++|...+.....
T Consensus        85 ~~~rr~llvldncehl-~~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~  160 (414)
T COG3903          85 IGDRRALLVLDNCEHL-LDACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVAL  160 (414)
T ss_pred             HhhhhHHHHhcCcHHH-HHHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhcc
Confidence            6789999999997321 122233444455556677889999985433   23355777777766 688898776632211


Q ss_pred             C-CchhhHHHHHHHHHhhcCCchHHHHHHHhhhcCCChhhHHHHHhhcccCCC--------CCCChHHHHHHhhhcCChh
Q 000803          326 H-NALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKIWDLP--------RQSSILPVLRLSYHHLPSH  396 (1277)
Q Consensus       326 ~-~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~~~~~w~~~l~~~~~~~~--------~~~~i~~~l~~sy~~L~~~  396 (1277)
                      . .-.........+|.++.+|.|++|...++..++-...+-...++.....+.        .+......+.+||.-|..-
T Consensus       161 ~f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgw  240 (414)
T COG3903         161 SFWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGW  240 (414)
T ss_pred             ceeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhH
Confidence            1 011222456678999999999999999999988755554444433211111        1356678899999999999


Q ss_pred             hhHHHhHhcccCCCceeChHHHHHHHHhCCccccCCChhhHHHHHHHHHHHHHhCCCccccC-CCCCccchhHHHHHHHH
Q 000803          397 LKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTG-FGSSKFAMHDLVHALAQ  475 (1277)
Q Consensus       397 ~k~cf~~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~~L~~~~li~~~~-~~~~~~~mhdlv~~~~~  475 (1277)
                      .+-.|--++.|...|.-.    -..|.+-|-....     .....-.-+..+++.+++.... .+...|+.-+-++.|+.
T Consensus       241 e~~~~~rLa~~~g~f~~~----l~~~~a~g~~~~~-----~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~Yal  311 (414)
T COG3903         241 ERALFGRLAVFVGGFDLG----LALAVAAGADVDV-----PRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYAL  311 (414)
T ss_pred             HHHHhcchhhhhhhhccc----HHHHHhcCCcccc-----chHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            999999999998776654    2334444332110     1122333467788888876544 23345666666666665


Q ss_pred             Hhc
Q 000803          476 LVS  478 (1277)
Q Consensus       476 ~~~  478 (1277)
                      .+-
T Consensus       312 aeL  314 (414)
T COG3903         312 AEL  314 (414)
T ss_pred             HHH
Confidence            443

>PRK04195 replication factor C large subunit; Provisional

Probab=98.32  E-value=5.3e-05  Score=90.22  Aligned_cols=246  Identities=16%  Similarity=0.150  Sum_probs=138.2

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|.++.++++.+|+..-...  ...+.+.|+|++|+||||+|+.++++.      .|+ .+-++.++..... ....
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g--~~~~~lLL~GppG~GKTtla~ala~el------~~~-~ielnasd~r~~~-~i~~   83 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKG--KPKKALLLYGPPGVGKTSLAHALANDY------GWE-VIELNASDQRTAD-VIER   83 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcC--CCCCeEEEECCCCCCHHHHHHHHHHHc------CCC-EEEEcccccccHH-HHHH
Confidence            46899999999999998653211  225789999999999999999998854      232 2334444432222 2222


Q ss_pred             HHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccH----HhHHhhhcccccCCCCcEEEEEcccc-cccc-c
Q 000803          222 LLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDY----SLWVDLKAPFLAAAPNSKMIITTRNS-HVAS-T  295 (1277)
Q Consensus       222 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~-~  295 (1277)
                      ++.......              .....++-+||+|+++....    ..+..+...+.  ..+..||+|+.+. .... .
T Consensus        84 ~i~~~~~~~--------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~  147 (482)
T PRK04195         84 VAGEAATSG--------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRE  147 (482)
T ss_pred             HHHHhhccC--------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhh
Confidence            222211100              01113678999999976422    22344444333  2344566666443 2211 1


Q ss_pred             c-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhhhcCC----ChhhHHHHHh
Q 000803          296 M-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTT----TYDMWDDILD  370 (1277)
Q Consensus       296 ~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L~~~----~~~~w~~~l~  370 (1277)
                      + .....+.+.+++.++....+.+.+.....    ....+....|++.++|-.-.+......+...    +.+....+..
T Consensus       148 Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi----~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~~  223 (482)
T PRK04195        148 LRNACLMIEFKRLSTRSIVPVLKRICRKEGI----ECDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGR  223 (482)
T ss_pred             HhccceEEEecCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhhc
Confidence            1 22356899999999998888776643221    1224567789999999776554433333322    3333333321


Q ss_pred             hcccCCCCCCChHHHHHHhhh-cCChhhhHHHhHhcccCCCceeChHHHHHHHHhCCcccc
Q 000803          371 SKIWDLPRQSSILPVLRLSYH-HLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQ  430 (1277)
Q Consensus       371 ~~~~~~~~~~~i~~~l~~sy~-~L~~~~k~cf~~~s~fp~~~~i~~~~li~~w~a~g~i~~  430 (1277)
                           ......++.++..-+. .-+......+..       ..++. ..+-.|+.|.+...
T Consensus       224 -----~d~~~~if~~l~~i~~~k~~~~a~~~~~~-------~~~~~-~~i~~~l~en~~~~  271 (482)
T PRK04195        224 -----RDREESIFDALDAVFKARNADQALEASYD-------VDEDP-DDLIEWIDENIPKE  271 (482)
T ss_pred             -----CCCCCCHHHHHHHHHCCCCHHHHHHHHHc-------ccCCH-HHHHHHHHhccccc
Confidence                 1113567777776665 222333332222       12233 35678999999865

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.31  E-value=1.5e-05  Score=90.98  Aligned_cols=191  Identities=16%  Similarity=0.191  Sum_probs=109.7

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|.+..++.+.+.+....     -...+.++|+.|+||||+|+.+++......  ...       ..+...-...++
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-----~~h~~L~~Gp~G~GKTtla~~la~~l~c~~--~~~-------~~pc~~c~~c~~   81 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-----IHHAWLLSGTRGVGKTTIARLLAKSLNCQN--GIT-------SNPCRKCIICKE   81 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCeEEEEecCCCCCHHHHHHHHHHHhcCCC--CCC-------CCCCCCCHHHHH
Confidence            368899999999888876532     235678999999999999999987432111  000       000000000111


Q ss_pred             HHHHhcC-----CCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-c
Q 000803          222 LLESITS-----ATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-H  291 (1277)
Q Consensus       222 il~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~  291 (1277)
                      +......     ........+++.+.+...    ..+++-++|+|++.......++.+...+.......++|++|.+. .
T Consensus        82 ~~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~  161 (363)
T PRK14961         82 IEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEK  161 (363)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHh
Confidence            1110000     000001222222211111    12456699999998876667777777766555667777776543 2


Q ss_pred             ccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          292 VASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       292 v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      +...+ +....+++.+++.++..+.+...+....    ....++.++.|++.++|.|-.+
T Consensus       162 l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g----~~i~~~al~~ia~~s~G~~R~a  217 (363)
T PRK14961        162 IPKTILSRCLQFKLKIISEEKIFNFLKYILIKES----IDTDEYALKLIAYHAHGSMRDA  217 (363)
T ss_pred             hhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHH
Confidence            32221 2235789999999999988877663221    1123456677999999988643

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

Probab=98.31  E-value=1.1e-06  Score=90.76  Aligned_cols=51  Identities=24%  Similarity=0.368  Sum_probs=33.8

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccc
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~  196 (1277)
                      .||||+++++++.+.+....   ....+.+.|+|.+|+|||+|+++++......
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~---~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQ---SGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTS---S-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHH---cCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            38999999999999995211   1556899999999999999999998865443

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.30  E-value=2.9e-05  Score=92.10  Aligned_cols=183  Identities=19%  Similarity=0.209  Sum_probs=114.9

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc-----------------cCCcceE
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-----------------SGKFDVK  204 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-----------------~~~f~~~  204 (1277)
                      ..+||.+..++.|.+++....     -...+.++|..|+||||+|+.+.+..-.+.                 .+.|..+
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gR-----L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dv   90 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGR-----LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDY   90 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceE
Confidence            468999999999999886532     234667999999999999998876432211                 0011112


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCC
Q 000803          205 AWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPN  280 (1277)
Q Consensus       205 ~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~  280 (1277)
                      ++++.+..                     ...+++.+.+...    ..++.-++|||++.......|+.++..+-....+
T Consensus        91 iEIDAas~---------------------rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~  149 (830)
T PRK07003         91 VEMDAASN---------------------RGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPH  149 (830)
T ss_pred             EEeccccc---------------------ccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCC
Confidence            22222211                     1223333222221    1345568899999888777788888777665567


Q ss_pred             cEEEEEccccc-ccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch-HHHHHHH
Q 000803          281 SKMIITTRNSH-VASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP-LAAKTLG  354 (1277)
Q Consensus       281 s~iivTtr~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~  354 (1277)
                      .++|+||.+.. +...+ .....+.++.++.++..+.+.+.+.....    ....+..+.|++.++|.. -|+..+-
T Consensus       150 v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI----~id~eAL~lIA~~A~GsmRdALsLLd  222 (830)
T PRK07003        150 VKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERI----AFEPQALRLLARAAQGSMRDALSLTD  222 (830)
T ss_pred             eEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            88877777643 32221 22357999999999999988876632211    223456678999998865 4555543

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=1.5e-05  Score=96.54  Aligned_cols=184  Identities=16%  Similarity=0.181  Sum_probs=113.1

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccccc-----------------CCcceE
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS-----------------GKFDVK  204 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~-----------------~~f~~~  204 (1277)
                      ..+||.+.-++.|.+++....     -...+.++|+.|+||||+|+.+++..-....                 +.|..+
T Consensus        16 ddIIGQe~Iv~~LknaI~~~r-----l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dv   90 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQR-----LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDL   90 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-----CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceE
Confidence            368999999999988886532     2345689999999999999999875432110                 011111


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH-hhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEE
Q 000803          205 AWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKK-AVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKM  283 (1277)
Q Consensus       205 ~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~i  283 (1277)
                      +++.......+.. .+++                 .+.+.. -..+++-++|||++.......++.++..+-......++
T Consensus        91 iEidAas~~kVDd-IReL-----------------ie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrF  152 (944)
T PRK14949         91 IEVDAASRTKVDD-TREL-----------------LDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKF  152 (944)
T ss_pred             EEeccccccCHHH-HHHH-----------------HHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEE
Confidence            2221111111111 1111                 111111 12467789999999888777888887777655556777


Q ss_pred             EEEcccc-ccccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHH
Q 000803          284 IITTRNS-HVAST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKT  352 (1277)
Q Consensus       284 ivTtr~~-~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  352 (1277)
                      |++|.+. .+... ......|.+++++.++..+.+.+.+-...    .....+..+.|++.++|.|--+..
T Consensus       153 ILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~Eg----I~~edeAL~lIA~~S~Gd~R~ALn  219 (944)
T PRK14949        153 LLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQ----LPFEAEALTLLAKAANGSMRDALS  219 (944)
T ss_pred             EEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            6666543 33322 12236799999999999998887653211    122345667899999998854433

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.26  E-value=1.7e-05  Score=90.99  Aligned_cols=197  Identities=15%  Similarity=0.126  Sum_probs=108.0

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcc-eEEEEEeCCCcCH-HHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFD-VKAWVCVSDDFDV-LSIS  219 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~-~~~wv~~s~~~~~-~~~~  219 (1277)
                      ..++|++..++.+.+++...      ..+.+.++|+.|+||||+|+.+.+.....   .+. ..+.+++++-.+. ....
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~GtGKT~la~~~~~~l~~~---~~~~~~~~i~~~~~~~~~~~~~   85 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSP------NLPHLLVQGPPGSGKTAAVRALARELYGD---PWENNFTEFNVADFFDQGKKYL   85 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHhcCc---ccccceEEechhhhhhcchhhh
Confidence            46889999999998887542      33467899999999999999987743211   111 1344444321100 0000


Q ss_pred             H---HHHHHhcCC-CCCCCcHHHHHHHHHHhh-----cCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc
Q 000803          220 K---ALLESITSA-TCDLKTVDEVQVQLKKAV-----DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS  290 (1277)
Q Consensus       220 ~---~il~~l~~~-~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~  290 (1277)
                      .   .....++.. .......+.....++...     .+.+-+||+||+.......+..+...+......+++|+||...
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  165 (337)
T PRK12402         86 VEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQP  165 (337)
T ss_pred             hcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCCh
Confidence            0   000000000 000111222222222221     2344589999997654444444554444444567788877543


Q ss_pred             -cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHH
Q 000803          291 -HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       291 -~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  351 (1277)
                       .+...+ .....+.+.+++.++..+++...+-....    ....+..+.+++.++|.+-.+.
T Consensus       166 ~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~----~~~~~al~~l~~~~~gdlr~l~  224 (337)
T PRK12402        166 SKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGV----DYDDDGLELIAYYAGGDLRKAI  224 (337)
T ss_pred             hhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHH
Confidence             222211 22246888999999998888876632211    1235667788999988765544

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.26  E-value=2.8e-06  Score=99.81  Aligned_cols=194  Identities=19%  Similarity=0.170  Sum_probs=113.5

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|-+.-++.+..++....     -...+.++|++|+||||+|+.+++......  .+...+|.|.+... +....+.
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~-----l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~--~~~~~cg~C~sc~~-i~~~~h~   85 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR-----LGHAYLFSGPRGVGKTTTARLIAMAVNCSG--EDPKPCGECESCLA-VRRGAHP   85 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHHhccC--CCCCCCCcChhhHH-HhcCCCC
Confidence            368999988888888876542     235679999999999999999987543222  22223333321100 0000000


Q ss_pred             HHHHhcCCCCCCCcHHHHHHHHHHh-----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc-cccccc
Q 000803          222 LLESITSATCDLKTVDEVQVQLKKA-----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-SHVAST  295 (1277)
Q Consensus       222 il~~l~~~~~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~-~~v~~~  295 (1277)
                      -...+...  .....+.+.+ +++.     ..+++-++|+|+++......+..+...+........+|++|.. ..+...
T Consensus        86 dv~el~~~--~~~~vd~iR~-l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~  162 (504)
T PRK14963         86 DVLEIDAA--SNNSVEDVRD-LREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPT  162 (504)
T ss_pred             ceEEeccc--ccCCHHHHHH-HHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChH
Confidence            00000000  1112222222 2222     2346678999999887767788887777665556666655543 333322


Q ss_pred             c-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          296 M-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       296 ~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      + .....+.+.+++.++..+.+.+.+-....    ...++....|++.++|.+--+
T Consensus       163 I~SRc~~~~f~~ls~~el~~~L~~i~~~egi----~i~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        163 ILSRTQHFRFRRLTEEEIAGKLRRLLEAEGR----EAEPEALQLVARLADGAMRDA  214 (504)
T ss_pred             HhcceEEEEecCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHH
Confidence            2 22357999999999999999887743221    123456778999999988544

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.25  E-value=4.8e-06  Score=89.12  Aligned_cols=168  Identities=14%  Similarity=0.123  Sum_probs=96.8

Q ss_pred             hhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhc
Q 000803          148 EEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESIT  227 (1277)
Q Consensus       148 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~  227 (1277)
                      +..++.+.+++..      .....+.|+|..|+|||+||+.+++....    .....++++++.-..      ..     
T Consensus        23 ~~~~~~l~~~~~~------~~~~~lll~G~~G~GKT~la~~~~~~~~~----~~~~~~~i~~~~~~~------~~-----   81 (226)
T TIGR03420        23 AELLAALRQLAAG------KGDRFLYLWGESGSGKSHLLQAACAAAEE----RGKSAIYLPLAELAQ------AD-----   81 (226)
T ss_pred             HHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHHHHh----cCCcEEEEeHHHHHH------hH-----
Confidence            3455666655432      23467899999999999999999875321    222345665433211      00     


Q ss_pred             CCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHH-hHH-hhhccccc-CCCCcEEEEEcccccc---------ccc
Q 000803          228 SATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYS-LWV-DLKAPFLA-AAPNSKMIITTRNSHV---------AST  295 (1277)
Q Consensus       228 ~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~-~~~-~l~~~l~~-~~~~s~iivTtr~~~v---------~~~  295 (1277)
                               ..    +.+.+++. -+||+||++..... .|. .+...+.. ...+.++|+||+....         ...
T Consensus        82 ---------~~----~~~~~~~~-~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r  147 (226)
T TIGR03420        82 ---------PE----VLEGLEQA-DLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTR  147 (226)
T ss_pred             ---------HH----HHhhcccC-CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHH
Confidence                     00    11112222 38999999764321 232 23332222 1234588898875321         112


Q ss_pred             cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHH
Q 000803          296 MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLG  354 (1277)
Q Consensus       296 ~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  354 (1277)
                      +.....+++.+++.++...++...+-...    ....++..+.+++.+.|.|..+.-+.
T Consensus       148 ~~~~~~i~l~~l~~~e~~~~l~~~~~~~~----~~~~~~~l~~L~~~~~gn~r~L~~~l  202 (226)
T TIGR03420       148 LAWGLVFQLPPLSDEEKIAALQSRAARRG----LQLPDEVADYLLRHGSRDMGSLMALL  202 (226)
T ss_pred             HhcCeeEecCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHhccCCHHHHHHHH
Confidence            22235689999999999999877553211    12234566778888999998776554

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.

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

Probab=98.23  E-value=1.2e-06  Score=70.71  Aligned_cols=56  Identities=32%  Similarity=0.487  Sum_probs=35.0

Q ss_pred             eeeEEecCCCCCCCCC-cCCCCCCccceeeccCCcccccc-ccccccccCcEEEecCC
Q 000803          554 KLRLLSLQGYYIGELP-IPFEDLRLLRYLNLADTDIRSLP-ESSCSLLNLEILILRNC  609 (1277)
Q Consensus       554 ~Lr~L~L~~~~i~~lp-~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~L~~L~~L~L~~~  609 (1277)
                      +|++|++++|.+..+| ..|..+++|++|++++|.++.+| ..|..+++|++|++++|
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 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            4666666666666665 45566666666666666666654 35566666666666664

...

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=2e-05  Score=92.34  Aligned_cols=192  Identities=15%  Similarity=0.136  Sum_probs=112.3

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..+||.+...+.+.+++....     -...+.++|+.|+||||+|+.+++..-...        ++.. .....-...+.
T Consensus        15 ddVIGQe~vv~~L~~aI~~gr-----l~HAyLF~GPpGvGKTTlAriLAK~LnC~~--------~~~~-~pCg~C~sC~~   80 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGR-----LHHAYLFTGTRGVGKTTIARILAKCLNCET--------GVTS-TPCEVCATCKA   80 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCc--------CCCC-CCCccCHHHHH
Confidence            468999999999999886542     236788999999999999999876432111        1100 00011111111


Q ss_pred             HHHHhcC-----CCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccccc-
Q 000803          222 LLESITS-----ATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSH-  291 (1277)
Q Consensus       222 il~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~-  291 (1277)
                      +...-..     ........+++.+.+...    ..+++-++|+|++.......+..+...+-....+.++|++|.+.. 
T Consensus        81 I~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~k  160 (702)
T PRK14960         81 VNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQK  160 (702)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHh
Confidence            1100000     000111233332222211    235667899999988766677777776655556677777776532 


Q ss_pred             cccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHH
Q 000803          292 VAST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       292 v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  351 (1277)
                      +... ......+++++++.++..+.+.+.+-..+.    ....+....|++.++|.+-.+.
T Consensus       161 Ip~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI----~id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        161 LPITVISRCLQFTLRPLAVDEITKHLGAILEKEQI----AADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             hhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHH
Confidence            2211 122357999999999999888776643221    2234556779999999775443

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=98.21  E-value=1e-05  Score=80.28  Aligned_cols=125  Identities=20%  Similarity=0.163  Sum_probs=72.5

Q ss_pred             ccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHH
Q 000803          145 FGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLE  224 (1277)
Q Consensus       145 vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~  224 (1277)
                      +|++..++.+...+...      ..+.+.|+|.+|+|||++|+.+++.....    -..++++...+..........+..
T Consensus         1 ~~~~~~~~~i~~~~~~~------~~~~v~i~G~~G~GKT~l~~~i~~~~~~~----~~~v~~~~~~~~~~~~~~~~~~~~   70 (151)
T cd00009           1 VGQEEAIEALREALELP------PPKNLLLYGPPGTGKTTLARAIANELFRP----GAPFLYLNASDLLEGLVVAELFGH   70 (151)
T ss_pred             CchHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHhhcC----CCCeEEEehhhhhhhhHHHHHhhh
Confidence            47888888888887542      23578999999999999999999865311    124566665544332221111100


Q ss_pred             HhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc---HHhHHhhhcccccC---CCCcEEEEEccccc
Q 000803          225 SITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED---YSLWVDLKAPFLAA---APNSKMIITTRNSH  291 (1277)
Q Consensus       225 ~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~---~~~~~~l~~~l~~~---~~~s~iivTtr~~~  291 (1277)
                      .            ............++.++|+||++...   ...+......+...   ..+.+||+||....
T Consensus        71 ~------------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          71 F------------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             h------------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence            0            00111122234567899999998531   22233333333221   36788888888654

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.

>PLN03150 hypothetical protein; Provisional

Probab=98.20  E-value=1.6e-06  Score=106.31  Aligned_cols=104  Identities=24%  Similarity=0.270  Sum_probs=86.2

Q ss_pred             eeeEEecCCCCCC-CCCcCCCCCCccceeeccCCccc-cccccccccccCcEEEecCCcCccccchhhccccCcCeeeec
Q 000803          554 KLRLLSLQGYYIG-ELPIPFEDLRLLRYLNLADTDIR-SLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIR  631 (1277)
Q Consensus       554 ~Lr~L~L~~~~i~-~lp~~~~~l~~Lr~L~L~~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~  631 (1277)
                      .++.|+|++|.+. .+|..|+.+.+|++|+|++|.+. .+|..++.+.+|++|||++|.....+|..+++|++|++|+++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            4888999999875 67889999999999999999998 889999999999999999976666899999999999999999


Q ss_pred             CccccccCCCCCCCC-CCCcccCceee
Q 000803          632 GAILLKEMPFGMKEL-KNLQTLSNFVV  657 (1277)
Q Consensus       632 ~~~~l~~~p~~i~~L-~~L~~L~~~~~  657 (1277)
                      +|.....+|..++.+ .++..+++..+
T Consensus       499 ~N~l~g~iP~~l~~~~~~~~~l~~~~N  525 (623)
T PLN03150        499 GNSLSGRVPAALGGRLLHRASFNFTDN  525 (623)
T ss_pred             CCcccccCChHHhhccccCceEEecCC
Confidence            998666888877653 34445544333

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

Probab=98.19  E-value=6.4e-08  Score=103.47  Aligned_cols=109  Identities=15%  Similarity=0.210  Sum_probs=63.1

Q ss_pred             CccEEEEcCCCCCCCCC---CCCCCCCCceeeeccCCCceEeccccccccccCCCcccceeeeccCccccccc-cccccc
Q 000803          762 KMNVLELDDCWNCTSLP---SLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWD-TNVDRN  837 (1277)
Q Consensus       762 ~L~~L~L~~~~~~~~l~---~l~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~f~~L~~L~l~~~~~l~~~~-~~~~~~  837 (1277)
                      .|+.|.+++|.....-+   .....|++++|.+.+|..+++.....    .....++|+.+.+..|+.++... ..... 
T Consensus       139 ~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  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLS----LARYCRKLRHLNLHSCSSITDVSLKYLAE-  213 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHH----HHHhcchhhhhhhcccchhHHHHHHHHHH-
Confidence            45666666665433222   23356777777777776554432221    12346777888887777777655 21222 


Q ss_pred             cccccCCcccEEeeecCCCCcc----CCCCCCCCccEEEEeccccc
Q 000803          838 EHVEIFPRLQKLSIVECPELSG----KVPELLPSLKTLVVSKCQKL  879 (1277)
Q Consensus       838 ~~~~~~p~L~~L~l~~c~~L~~----~~p~~l~~L~~L~l~~~~~l  879 (1277)
                          .+|+|++|+++.|+.+++    .+..+...++.+-..||...
T Consensus       214 ----gC~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~  255 (483)
T KOG4341|consen  214 ----GCRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLEL  255 (483)
T ss_pred             ----hhhhHHHhhhccCchhhcCcchHHhccchhhhhhhhcccccc
Confidence                588899999999988775    12223344555555566543

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

Probab=98.19  E-value=2.8e-07  Score=102.33  Aligned_cols=114  Identities=22%  Similarity=0.292  Sum_probs=92.7

Q ss_pred             eeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCeeeecCc
Q 000803          554 KLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGA  633 (1277)
Q Consensus       554 ~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~  633 (1277)
                      -|++|-+++|+++.+|+.++.+.+|..||.+.|.+..+|..++.|..|+.|.++. +.+..+|+.+. --.|..||++.|
T Consensus       144 pLkvli~sNNkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrR-n~l~~lp~El~-~LpLi~lDfScN  221 (722)
T KOG0532|consen  144 PLKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRR-NHLEDLPEELC-SLPLIRLDFSCN  221 (722)
T ss_pred             cceeEEEecCccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhh-hhhhhCCHHHh-CCceeeeecccC
Confidence            4788888888888888888888888888888888888888888888888888888 47788888887 445888888877


Q ss_pred             cccccCCCCCCCCCCCcccCceeeCCCCCCCCChhccc
Q 000803          634 ILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLK  671 (1277)
Q Consensus       634 ~~l~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~~~L~  671 (1277)
                      + +..+|..|.+|+.||+|.+-+|...+. +..|...+
T Consensus       222 k-is~iPv~fr~m~~Lq~l~LenNPLqSP-PAqIC~kG  257 (722)
T KOG0532|consen  222 K-ISYLPVDFRKMRHLQVLQLENNPLQSP-PAQICEKG  257 (722)
T ss_pred             c-eeecchhhhhhhhheeeeeccCCCCCC-hHHHHhcc
Confidence            6 888898899999999998888877663 44454443

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

Probab=98.18  E-value=3.7e-07  Score=92.79  Aligned_cols=107  Identities=23%  Similarity=0.230  Sum_probs=53.1

Q ss_pred             cCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCee
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHL  628 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L  628 (1277)
                      ..-.+.+|+|++++|.|..+.+ +..|.+|..||||+|.+.++-..-.+|-|.++|.|++| .++.+. ++++|.+|..|
T Consensus       303 vKL~Pkir~L~lS~N~i~~v~n-La~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La~N-~iE~LS-GL~KLYSLvnL  379 (490)
T KOG1259|consen  303 VKLAPKLRRLILSQNRIRTVQN-LAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLAQN-KIETLS-GLRKLYSLVNL  379 (490)
T ss_pred             hhhccceeEEeccccceeeehh-hhhcccceEeecccchhHhhhhhHhhhcCEeeeehhhh-hHhhhh-hhHhhhhheec
Confidence            3344455555555555544422 44455555555555555554444445555555555552 344332 25555555555


Q ss_pred             eecCccccccCC--CCCCCCCCCcccCceeeCC
Q 000803          629 DIRGAILLKEMP--FGMKELKNLQTLSNFVVGK  659 (1277)
Q Consensus       629 ~l~~~~~l~~~p--~~i~~L~~L~~L~~~~~~~  659 (1277)
                      |+++|+ ++.+.  .+||+|+.|++|.+.+|..
T Consensus       380 Dl~~N~-Ie~ldeV~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  380 DLSSNQ-IEELDEVNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             cccccc-hhhHHHhcccccccHHHHHhhcCCCc
Confidence            555554 44332  2355555555555555543

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

Probab=98.17  E-value=2.4e-07  Score=94.16  Aligned_cols=124  Identities=21%  Similarity=0.218  Sum_probs=99.5

Q ss_pred             cCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCee
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHL  628 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L  628 (1277)
                      ....+.|..|||++|.|+.+-+++.-++.+|.|++|+|.|..+-. +..|++|+.|||++| .+.++-..=.+|.|.+.|
T Consensus       280 ~dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n-La~L~~L~~LDLS~N-~Ls~~~Gwh~KLGNIKtL  357 (490)
T KOG1259|consen  280 ADTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQN-LAELPQLQLLDLSGN-LLAECVGWHLKLGNIKTL  357 (490)
T ss_pred             cchHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehh-hhhcccceEeecccc-hhHhhhhhHhhhcCEeee
Confidence            345678999999999999999898889999999999999998854 889999999999995 677776655788999999


Q ss_pred             eecCccccccCCCCCCCCCCCcccCceeeCCCCC-CCCChhcccccccc
Q 000803          629 DIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGE-TASGLEDLKILKFL  676 (1277)
Q Consensus       629 ~l~~~~~l~~~p~~i~~L~~L~~L~~~~~~~~~~-~~~~~~~L~~L~~L  676 (1277)
                      .+++|. ++.+ .++++|-+|..|++..|.+... ....|+.|+.|..+
T Consensus       358 ~La~N~-iE~L-SGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l  404 (490)
T KOG1259|consen  358 KLAQNK-IETL-SGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETL  404 (490)
T ss_pred             ehhhhh-Hhhh-hhhHhhhhheeccccccchhhHHHhcccccccHHHHH
Confidence            999986 6555 4789999999999988876542 13345555555544

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

Probab=98.17  E-value=3.8e-07  Score=98.25  Aligned_cols=66  Identities=14%  Similarity=0.142  Sum_probs=37.9

Q ss_pred             CCccCccEEEEeeeCCCCCCcccCCCCCCCccEEEEcCCCCCC--CCCCCCCCCCCceeeeccCCCceEe
Q 000803          733 QPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCT--SLPSLGLLSSLRDLTIKRMTNLKSI  800 (1277)
Q Consensus       733 ~~~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~~~--~l~~l~~l~~L~~L~l~~~~~l~~i  800 (1277)
                      ..+|+|+.|.+.+|..... .......+..|+.|+|++|....  .++..+.+|.|..|.++.+ ++..+
T Consensus       219 ~~fPsl~~L~L~~N~~~~~-~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~t-gi~si  286 (505)
T KOG3207|consen  219 LTFPSLEVLYLEANEIILI-KATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSST-GIASI  286 (505)
T ss_pred             HhCCcHHHhhhhcccccce-ecchhhhhhHHhhccccCCcccccccccccccccchhhhhcccc-Ccchh
Confidence            3455566666655531110 00111126678888888886543  3457788888888888764 44433

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

Probab=98.15  E-value=9.8e-05  Score=83.08  Aligned_cols=206  Identities=16%  Similarity=0.151  Sum_probs=127.4

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHH
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKAL  222 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  222 (1277)
                      .+.+|+++++++...|...-..  ..+.-+.|+|..|.|||+.++.+.+....... .. .+++|++-...+..+++.+|
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~~~--~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~-~~-~~~yINc~~~~t~~~i~~~i   93 (366)
T COG1474          18 ELPHREEEINQLASFLAPALRG--ERPSNIIIYGPTGTGKTATVKFVMEELEESSA-NV-EVVYINCLELRTPYQVLSKI   93 (366)
T ss_pred             cccccHHHHHHHHHHHHHHhcC--CCCccEEEECCCCCCHhHHHHHHHHHHHhhhc-cC-ceEEEeeeeCCCHHHHHHHH
Confidence            3889999999999887654322  22334899999999999999999986544321 11 27899999999999999999


Q ss_pred             HHHhcCCCCCCCcHHHHHHHHHHhhc--CceEEEEecCcccccHHhHHhhhcccccCC-CCcEEEE--Eccccc------
Q 000803          223 LESITSATCDLKTVDEVQVQLKKAVD--GKRFLLVLDDVWNEDYSLWVDLKAPFLAAA-PNSKMII--TTRNSH------  291 (1277)
Q Consensus       223 l~~l~~~~~~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-~~s~iiv--Ttr~~~------  291 (1277)
                      +.+++..........+..+.+.+.+.  ++.++||||+++.-....-+.+-.-+.... ..++|++  .+-+..      
T Consensus        94 ~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld  173 (366)
T COG1474          94 LNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLD  173 (366)
T ss_pred             HHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhh
Confidence            99998544444555666666666664  578999999995421111011111121111 2454433  333322      


Q ss_pred             --cccccCCCceeecCCCCHHHHHHHHHHhhcCCC-CCCchhhHHHHHHHHHhhcC-CchHHHHHH
Q 000803          292 --VASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGR-DHNALEISESFRKKVVGKCG-GLPLAAKTL  353 (1277)
Q Consensus       292 --v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~-~~~~~~~~~~~~~~i~~~c~-glPLai~~~  353 (1277)
                        |....+. ..+...|-+.+|-...+..++-.+. +....+..-+.+..++..-+ --=.||.++
T Consensus       174 ~rv~s~l~~-~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         174 PRVKSSLGP-SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             hhhhhccCc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHH
Confidence              2233333 3378899999999999988874322 22222223333444444444 444555544

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.14  E-value=3.6e-05  Score=90.03  Aligned_cols=197  Identities=16%  Similarity=0.157  Sum_probs=113.3

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccccc-CCcceEEEEEeCCCcCHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS-GKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~-~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      ..+||-+.-++.|.+++....     -...+.++|..|+||||+|+.+.+..-.... +...    + .+.....-...+
T Consensus        16 ddVIGQe~vv~~L~~al~~gR-----LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g----~-~~~PCG~C~sC~   85 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQR-----LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGG----I-TAQPCGQCRACT   85 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCcccccc----C-CCCCCcccHHHH
Confidence            468999999999999886642     2356789999999999999988764322100 0000    0 000000011111


Q ss_pred             HHHHH-----hcCCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcc-cc
Q 000803          221 ALLES-----ITSATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTR-NS  290 (1277)
Q Consensus       221 ~il~~-----l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr-~~  290 (1277)
                      .|...     +..+.......+++.+.+...    ..+++-++|+|+++..+...++.++..+-.-..+.++|++|. ..
T Consensus        86 ~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~  165 (700)
T PRK12323         86 EIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQ  165 (700)
T ss_pred             HHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChH
Confidence            11100     000000112234433333322    245667999999988877788888877765455666555554 44


Q ss_pred             cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHH
Q 000803          291 HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKT  352 (1277)
Q Consensus       291 ~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  352 (1277)
                      .+...+ .....+.++.++.++..+.+.+.+.....    ....+..+.|++.++|.|.....
T Consensus       166 kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi----~~d~eAL~~IA~~A~Gs~RdALs  224 (700)
T PRK12323        166 KIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGI----AHEVNALRLLAQAAQGSMRDALS  224 (700)
T ss_pred             hhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHH
Confidence            443222 12256899999999999888776532111    11234557799999999865443

>PLN03025 replication factor C subunit; Provisional

Probab=98.14  E-value=3.8e-05  Score=86.36  Aligned_cols=181  Identities=11%  Similarity=0.123  Sum_probs=104.0

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcc-eEEEEEeCCCcCHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFD-VKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~-~~~wv~~s~~~~~~~~~~  220 (1277)
                      ..++|.++.++.+..++..      ++.+.+-++|++|+||||+|..+++.....   .|. .++-++.++..... ..+
T Consensus        13 ~~~~g~~~~~~~L~~~~~~------~~~~~lll~Gp~G~GKTtla~~la~~l~~~---~~~~~~~eln~sd~~~~~-~vr   82 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARD------GNMPNLILSGPPGTGKTTSILALAHELLGP---NYKEAVLELNASDDRGID-VVR   82 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHHHHhcc---cCccceeeecccccccHH-HHH
Confidence            3578988888887776643      233457799999999999999998753211   221 12222223222221 122


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-cccccc-CC
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-GP  298 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~~~-~~  298 (1277)
                      +++..+......             .-.++.-++|+|+++.........+...+-.....+++|+++... .+...+ ..
T Consensus        83 ~~i~~~~~~~~~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SR  149 (319)
T PLN03025         83 NKIKMFAQKKVT-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSR  149 (319)
T ss_pred             HHHHHHHhcccc-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHh
Confidence            222211100000             002456799999998776555555655554444567777766543 221111 11


Q ss_pred             CceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHH
Q 000803          299 IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLA  349 (1277)
Q Consensus       299 ~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLa  349 (1277)
                      ...++++++++++....+...+-..+.    ....+..+.|++.++|-.-.
T Consensus       150 c~~i~f~~l~~~~l~~~L~~i~~~egi----~i~~~~l~~i~~~~~gDlR~  196 (319)
T PLN03025        150 CAIVRFSRLSDQEILGRLMKVVEAEKV----PYVPEGLEAIIFTADGDMRQ  196 (319)
T ss_pred             hhcccCCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHH
Confidence            246899999999999888877632211    12245667889999987643

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.13  E-value=1.5e-05  Score=89.72  Aligned_cols=199  Identities=16%  Similarity=0.108  Sum_probs=114.3

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcce-EEEEEeCCCcCHHHHH
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDV-KAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~-~~wv~~s~~~~~~~~~  219 (1277)
                      -..++|.++..+.+.+.+....     -...+-++|+.|+||+|+|..+.+..-......... ..=.........-...
T Consensus        18 ~~~iiGq~~~~~~L~~~~~~~r-----l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c   92 (365)
T PRK07471         18 TTALFGHAAAEAALLDAYRSGR-----LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVA   92 (365)
T ss_pred             hhhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHH
Confidence            3578999999999998886642     235688999999999999987765332111000000 0000000000000111


Q ss_pred             HHHHHHhcC----------CC----CCCCcHHHHHHHHHHhh-----cCceEEEEecCcccccHHhHHhhhcccccCCCC
Q 000803          220 KALLESITS----------AT----CDLKTVDEVQVQLKKAV-----DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPN  280 (1277)
Q Consensus       220 ~~il~~l~~----------~~----~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~  280 (1277)
                      +.+...-..          ..    .....++++. .+.+++     .+++-++|+||+...+......+...+.....+
T Consensus        93 ~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR-~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~  171 (365)
T PRK07471         93 RRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVR-ELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPAR  171 (365)
T ss_pred             HHHHccCCCCeEEEecccccccccccccccHHHHH-HHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCC
Confidence            111110000          00    0112344433 333333     356679999999888878788887777655556


Q ss_pred             cEEEEEccccc-ccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          281 SKMIITTRNSH-VASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       281 s~iivTtr~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      +.+|++|...+ +...+ .....+.+.+++.++..+++......    . .   .+....+++.++|.|.....+
T Consensus       172 ~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~----~-~---~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        172 SLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD----L-P---DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             eEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc----C-C---HHHHHHHHHHcCCCHHHHHHH
Confidence            77777776653 32221 22357999999999999998875421    0 1   112257899999999866544

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.13  E-value=5.1e-05  Score=88.77  Aligned_cols=194  Identities=16%  Similarity=0.192  Sum_probs=112.6

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcce-EEEEEeCCCcCHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDV-KAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~-~~wv~~s~~~~~~~~~~  220 (1277)
                      ..++|-+.-+..+...+....     -...+.++|+.|+||||+|+.+++..-...  .... ..+.    ....-....
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-----i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~--~~~~~~~~~----~C~~C~~C~   89 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-----LAGGYLLTGIRGVGKTTSARIIAKAVNCSA--LITENTTIK----TCEQCTNCI   89 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhcCcc--ccccCcCcC----CCCCChHHH
Confidence            367899998888887775532     235788999999999999999987442211  0000 0000    000000011


Q ss_pred             HHHHHhcC-----CCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEE-Ecccc
Q 000803          221 ALLESITS-----ATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMII-TTRNS  290 (1277)
Q Consensus       221 ~il~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv-Ttr~~  290 (1277)
                      .+......     ........+++...+...    +.+++-++|+|+++......|+.+...+......+.+|+ ||+..
T Consensus        90 ~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~  169 (507)
T PRK06645         90 SFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQ  169 (507)
T ss_pred             HHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChH
Confidence            11100000     000112233333333221    245677899999988777788888877766555666655 44444


Q ss_pred             cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          291 HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       291 ~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      .+...+ .....+++++++.++..+.+.+.+-..+.    ....+..+.|++.++|.+--+
T Consensus       170 kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi----~ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        170 KIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENL----KTDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             HhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHH
Confidence            443322 22256899999999999999887743221    122445667999999977443

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.13  E-value=6.2e-05  Score=87.81  Aligned_cols=185  Identities=19%  Similarity=0.231  Sum_probs=106.5

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccccc-----------------CCcceE
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS-----------------GKFDVK  204 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~-----------------~~f~~~  204 (1277)
                      ..+||.+.....+...+...     .-...+.++|++|+||||+|+.+++.......                 +.+..+
T Consensus        14 ~divGq~~i~~~L~~~i~~~-----~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv   88 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKN-----SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDV   88 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCcc
Confidence            46899988877777766543     22356789999999999999999774322110                 000011


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh-----hcCceEEEEecCcccccHHhHHhhhcccccCCC
Q 000803          205 AWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA-----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAP  279 (1277)
Q Consensus       205 ~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~  279 (1277)
                      ..++.+...                     ..+++. .+.+.     ..+++-++|+|+++.......+.+...+.....
T Consensus        89 ~el~aa~~~---------------------gid~iR-~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~  146 (472)
T PRK14962         89 IELDAASNR---------------------GIDEIR-KIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPS  146 (472)
T ss_pred             EEEeCcccC---------------------CHHHHH-HHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCC
Confidence            222221111                     122221 12211     235667999999976554555666655544334


Q ss_pred             CcEEEEEccc-ccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCC-chHHHHHHHhh
Q 000803          280 NSKMIITTRN-SHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGG-LPLAAKTLGGL  356 (1277)
Q Consensus       280 ~s~iivTtr~-~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~g-lPLai~~~~~~  356 (1277)
                      ...+|++|.+ ..+...+ .....+.+.+++.++....+.+.+.....    ...++....|++.++| .+.|+..+..+
T Consensus       147 ~vv~Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi----~i~~eal~~Ia~~s~GdlR~aln~Le~l  222 (472)
T PRK14962        147 HVVFVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI----EIDREALSFIAKRASGGLRDALTMLEQV  222 (472)
T ss_pred             cEEEEEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            4554444433 3332222 22357899999999998888877642211    2234566778887755 56777776554


Q ss_pred             h
Q 000803          357 L  357 (1277)
Q Consensus       357 L  357 (1277)
                      .
T Consensus       223 ~  223 (472)
T PRK14962        223 W  223 (472)
T ss_pred             H
Confidence            3

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.12  E-value=4.9e-05  Score=86.40  Aligned_cols=180  Identities=16%  Similarity=0.165  Sum_probs=104.5

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEe--CCCcCHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCV--SDDFDVLSIS  219 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~--s~~~~~~~~~  219 (1277)
                      ..++|+++.++.+..++...      ..+.+.++|..|+||||+|+.+++.....   .+. ..++.+  +...... ..
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~------~~~~~ll~G~~G~GKt~~~~~l~~~l~~~---~~~-~~~i~~~~~~~~~~~-~~   85 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEK------NMPHLLFAGPPGTGKTTAALALARELYGE---DWR-ENFLELNASDERGID-VI   85 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHcCC---ccc-cceEEeccccccchH-HH
Confidence            35889999999999888542      23457999999999999999998753221   111 112222  2221111 11


Q ss_pred             HHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-cccccc-C
Q 000803          220 KALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-G  297 (1277)
Q Consensus       220 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~~~-~  297 (1277)
                      ++.+..+....              ......+-++|+|+++......+..+...+......+++|+++... .+.... .
T Consensus        86 ~~~i~~~~~~~--------------~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~s  151 (319)
T PRK00440         86 RNKIKEFARTA--------------PVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQS  151 (319)
T ss_pred             HHHHHHHHhcC--------------CCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHH
Confidence            11111111000              0011235689999986654444555555554444567777776432 221111 1


Q ss_pred             CCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          298 PIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       298 ~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      ....+.+.+++.++....+...+....-    ...++..+.+++.++|.+--+
T Consensus       152 r~~~~~~~~l~~~ei~~~l~~~~~~~~~----~i~~~al~~l~~~~~gd~r~~  200 (319)
T PRK00440        152 RCAVFRFSPLKKEAVAERLRYIAENEGI----EITDDALEAIYYVSEGDMRKA  200 (319)
T ss_pred             HhheeeeCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHH
Confidence            2246889999999998888877642211    223456778899999987653

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.12  E-value=4.6e-05  Score=89.68  Aligned_cols=186  Identities=16%  Similarity=0.151  Sum_probs=111.2

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc-----------------cCCcceE
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-----------------SGKFDVK  204 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-----------------~~~f~~~  204 (1277)
                      ..++|.+..++.+...+....     -...+.++|+.|+||||+|+.+++......                 .+.|...
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-----l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dl   90 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-----VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDL   90 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCce
Confidence            368899999999888886532     235678999999999999999876332110                 0012222


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEE
Q 000803          205 AWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKM  283 (1277)
Q Consensus       205 ~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~i  283 (1277)
                      +++.......+.+                  ..++.+.+... ..+++-++|+|++.......++.++..+-.....+.+
T Consensus        91 ieidaas~~gvd~------------------ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~f  152 (546)
T PRK14957         91 IEIDAASRTGVEE------------------TKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKF  152 (546)
T ss_pred             EEeecccccCHHH------------------HHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceE
Confidence            2332222111111                  11222222211 2356679999999877777778887777665556666


Q ss_pred             EEEc-cccccccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch-HHHHHHH
Q 000803          284 IITT-RNSHVAST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP-LAAKTLG  354 (1277)
Q Consensus       284 ivTt-r~~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~  354 (1277)
                      |++| ....+... ......+++++++.++..+.+.+.+-...    ....++....|++.++|.+ -|+..+-
T Consensus       153 IL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~eg----i~~e~~Al~~Ia~~s~GdlR~alnlLe  222 (546)
T PRK14957        153 ILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN----INSDEQSLEYIAYHAKGSLRDALSLLD  222 (546)
T ss_pred             EEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            6544 43333322 12236799999999998877776543211    1223455667999999966 4555443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.12  E-value=8e-05  Score=83.53  Aligned_cols=199  Identities=16%  Similarity=0.185  Sum_probs=116.6

Q ss_pred             CCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHH
Q 000803          140 TEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       140 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~  219 (1277)
                      .-..++|-++..+.+...+....     -...+.|+|+.|+||||+|..+.+..-......+...   ............
T Consensus        21 ~~~~l~Gh~~a~~~L~~a~~~gr-----l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c   92 (351)
T PRK09112         21 ENTRLFGHEEAEAFLAQAYREGK-----LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVW   92 (351)
T ss_pred             chhhccCcHHHHHHHHHHHHcCC-----CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHH
Confidence            34578999999999999886542     2357899999999999999988764422110001111   000111111122


Q ss_pred             HHHHHH-------hcCC--C-----CCCCcHHHHHHHHHHhh-----cCceEEEEecCcccccHHhHHhhhcccccCCCC
Q 000803          220 KALLES-------ITSA--T-----CDLKTVDEVQVQLKKAV-----DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPN  280 (1277)
Q Consensus       220 ~~il~~-------l~~~--~-----~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~  280 (1277)
                      +.+...       +...  .     .....++++. .+.+++     .+++-++|+|+++..+....+.+...+-....+
T Consensus        93 ~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR-~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~  171 (351)
T PRK09112         93 RQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIR-RVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPAR  171 (351)
T ss_pred             HHHHcCCCCCEEEeecccccccccccccCCHHHHH-HHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCC
Confidence            332221       1000  0     0112244433 344443     356679999999888777777777766554445


Q ss_pred             cEEEEEc-ccccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          281 SKMIITT-RNSHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       281 s~iivTt-r~~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      ..+|++| +...+.... .....+.+.+++.++..+++......   ..   ..++....+++.++|.|.....+
T Consensus       172 ~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~---~~---~~~~~~~~i~~~s~G~pr~Al~l  240 (351)
T PRK09112        172 ALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSS---QG---SDGEITEALLQRSKGSVRKALLL  240 (351)
T ss_pred             ceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcc---cC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            5555544 433332221 22357999999999999999874321   11   12345678999999999866544

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.12  E-value=3e-05  Score=82.57  Aligned_cols=153  Identities=15%  Similarity=0.130  Sum_probs=91.2

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVD  248 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  248 (1277)
                      .+.+.|+|+.|+|||+||+.+++....    .-..+.++++.....                    ...+..+.+.+   
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~~~~----~~~~v~y~~~~~~~~--------------------~~~~~~~~~~~---   97 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAELSQ----RGRAVGYVPLDKRAW--------------------FVPEVLEGMEQ---   97 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHh----CCCeEEEEEHHHHhh--------------------hhHHHHHHhhh---
Confidence            357899999999999999999874321    112455666532100                    00111111211   


Q ss_pred             CceEEEEecCcccccH-HhHHhhh-cccccC-CCC-cEEEEEcccc---------ccccccCCCceeecCCCCHHHHHHH
Q 000803          249 GKRFLLVLDDVWNEDY-SLWVDLK-APFLAA-APN-SKMIITTRNS---------HVASTMGPIDHYNLEHLLDDDCWSI  315 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~~-~~~~~l~-~~l~~~-~~~-s~iivTtr~~---------~v~~~~~~~~~~~l~~L~~~~~~~L  315 (1277)
                        --++++||+..... ..|.... ..+... ..| .++|+||+..         ++.+.+.....++++++++++-.++
T Consensus        98 --~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~  175 (235)
T PRK08084         98 --LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQA  175 (235)
T ss_pred             --CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHH
Confidence              13789999965321 3444322 222211 123 4799998854         2333444556899999999999999


Q ss_pred             HHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHH
Q 000803          316 FKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLG  354 (1277)
Q Consensus       316 f~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  354 (1277)
                      +.+++... .   ....+++..-|++.+.|..-++..+-
T Consensus       176 l~~~a~~~-~---~~l~~~v~~~L~~~~~~d~r~l~~~l  210 (235)
T PRK08084        176 LQLRARLR-G---FELPEDVGRFLLKRLDREMRTLFMTL  210 (235)
T ss_pred             HHHHHHHc-C---CCCCHHHHHHHHHhhcCCHHHHHHHH
Confidence            98766432 1   23346777888999888766554443

>PRK08727 hypothetical protein; Validated

Probab=98.12  E-value=3.9e-05  Score=81.59  Aligned_cols=148  Identities=17%  Similarity=0.102  Sum_probs=88.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      ..+.|+|..|+|||+||+.+++....    ....+.|+++.+      ....+.              +   .+.. + .
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~----~~~~~~y~~~~~------~~~~~~--------------~---~~~~-l-~   92 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQ----AGRSSAYLPLQA------AAGRLR--------------D---ALEA-L-E   92 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHH----cCCcEEEEeHHH------hhhhHH--------------H---HHHH-H-h
Confidence            45999999999999999999875322    222456666432      111111              1   1111 1 1


Q ss_pred             ceEEEEecCccccc-HHhHHhhhccccc--CCCCcEEEEEcccc---------ccccccCCCceeecCCCCHHHHHHHHH
Q 000803          250 KRFLLVLDDVWNED-YSLWVDLKAPFLA--AAPNSKMIITTRNS---------HVASTMGPIDHYNLEHLLDDDCWSIFK  317 (1277)
Q Consensus       250 kr~LlVlDdv~~~~-~~~~~~l~~~l~~--~~~~s~iivTtr~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~  317 (1277)
                      +.-+||+||+.... ...|......+.+  ...|..||+|++..         ++.+.+.....+++++++.++-.+++.
T Consensus        93 ~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~  172 (233)
T PRK08727         93 GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLR  172 (233)
T ss_pred             cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHH
Confidence            23589999996432 1223322222222  13467799999853         222333334578999999999999999


Q ss_pred             HhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          318 THAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      +++....    ....++...-|++.++|-.-.+
T Consensus       173 ~~a~~~~----l~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        173 ERAQRRG----LALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHHHcC----CCCCHHHHHHHHHhCCCCHHHH
Confidence            8775321    1233566778888888766544

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

Probab=98.11  E-value=4.7e-06  Score=88.20  Aligned_cols=90  Identities=22%  Similarity=0.207  Sum_probs=62.9

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC--cCHHHHHHHHHHHhcCCCCCCCcHH------HHH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD--FDVLSISKALLESITSATCDLKTVD------EVQ  240 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~--~~~~~~~~~il~~l~~~~~~~~~~~------~~~  240 (1277)
                      -..++|+|++|+|||||++.+|++....   +|+.++|+.+...  +++.++++.+...+-....+.....      ...
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~---~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~   92 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN---HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVL   92 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc---cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHH
Confidence            3678999999999999999999976443   7999999997776  7899999888444433322221111      112


Q ss_pred             HHHHHh-hcCceEEEEecCccc
Q 000803          241 VQLKKA-VDGKRFLLVLDDVWN  261 (1277)
Q Consensus       241 ~~l~~~-l~~kr~LlVlDdv~~  261 (1277)
                      .....+ -+++++++++|++..
T Consensus        93 ~~a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          93 EKAKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHHHCCCCEEEEEECHHH
Confidence            222222 358999999999944

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.10  E-value=7.1e-05  Score=85.14  Aligned_cols=181  Identities=16%  Similarity=0.120  Sum_probs=108.0

Q ss_pred             ccccchhhHHHHHHHHhccccc----CCCCeEEEEEEccCCCcHHHHHHHHhccccccc-----------------cCCc
Q 000803          143 VVFGREEDKTKILEMVLTDTAA----DHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-----------------SGKF  201 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~----~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-----------------~~~f  201 (1277)
                      .++|-+.-++.+.+++......    ...-...+-++|+.|+|||++|..+++..-...                 +.|.
T Consensus         6 ~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hp   85 (394)
T PRK07940          6 DLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHP   85 (394)
T ss_pred             hccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            5789999999998888764210    001246688999999999999998865322111                 0111


Q ss_pred             ceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccC
Q 000803          202 DVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAA  277 (1277)
Q Consensus       202 ~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~  277 (1277)
                      |. .++....                    .....+++.+.+...    ..+++-++|+|++........+.+...+-..
T Consensus        86 D~-~~i~~~~--------------------~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep  144 (394)
T PRK07940         86 DV-RVVAPEG--------------------LSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEP  144 (394)
T ss_pred             CE-EEecccc--------------------ccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcC
Confidence            11 1111100                    111223322222111    1345568888999887766667777666555


Q ss_pred             CCCcEEEEEcccc-cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          278 APNSKMIITTRNS-HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       278 ~~~s~iivTtr~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      ..+..+|++|.+. .+...+ .....+.+++++.++..+.+.....         ..++.+..+++.++|.|.....+
T Consensus       145 ~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~---------~~~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        145 PPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG---------VDPETARRAARASQGHIGRARRL  213 (394)
T ss_pred             CCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC---------CCHHHHHHHHHHcCCCHHHHHHH
Confidence            5566666666553 333221 2235799999999999888874321         11345678999999999755443

>PRK09087 hypothetical protein; Validated

Probab=98.08  E-value=4.1e-05  Score=80.51  Aligned_cols=140  Identities=15%  Similarity=0.120  Sum_probs=86.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      +.+.|+|..|+|||+|++.++....         ..+++..      ....++...+                     .+
T Consensus        45 ~~l~l~G~~GsGKThLl~~~~~~~~---------~~~i~~~------~~~~~~~~~~---------------------~~   88 (226)
T PRK09087         45 PVVVLAGPVGSGKTHLASIWREKSD---------ALLIHPN------EIGSDAANAA---------------------AE   88 (226)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhcC---------CEEecHH------HcchHHHHhh---------------------hc
Confidence            5689999999999999999886421         1233321      1111111111                     11


Q ss_pred             ceEEEEecCcccc--cHHhHHhhhcccccCCCCcEEEEEccc---------cccccccCCCceeecCCCCHHHHHHHHHH
Q 000803          250 KRFLLVLDDVWNE--DYSLWVDLKAPFLAAAPNSKMIITTRN---------SHVASTMGPIDHYNLEHLLDDDCWSIFKT  318 (1277)
Q Consensus       250 kr~LlVlDdv~~~--~~~~~~~l~~~l~~~~~~s~iivTtr~---------~~v~~~~~~~~~~~l~~L~~~~~~~Lf~~  318 (1277)
                        -+|++||+...  ++..+..+...+.  ..|..||+|++.         +++.+.+.....+++++++.++-.+++.+
T Consensus        89 --~~l~iDDi~~~~~~~~~lf~l~n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~  164 (226)
T PRK09087         89 --GPVLIEDIDAGGFDETGLFHLINSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFK  164 (226)
T ss_pred             --CeEEEECCCCCCCCHHHHHHHHHHHH--hCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHH
Confidence              27888999542  2222222222222  236789998874         33444455557899999999999999998


Q ss_pred             hhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          319 HAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      ++-.. .   ....+++.+-|++.+.|..-++..+
T Consensus       165 ~~~~~-~---~~l~~ev~~~La~~~~r~~~~l~~~  195 (226)
T PRK09087        165 LFADR-Q---LYVDPHVVYYLVSRMERSLFAAQTI  195 (226)
T ss_pred             HHHHc-C---CCCCHHHHHHHHHHhhhhHHHHHHH
Confidence            88432 1   2234567778888888887766643

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.07  E-value=3.4e-05  Score=91.50  Aligned_cols=180  Identities=16%  Similarity=0.166  Sum_probs=109.5

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc-----------------cCCcceE
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-----------------SGKFDVK  204 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-----------------~~~f~~~  204 (1277)
                      ..+||.+..++.|.+++....     -...+.++|+.|+||||+|+.+.+..-...                 .+.|..+
T Consensus        16 ddIIGQe~vv~~L~~ai~~~r-----l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dv   90 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGR-----LHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDL   90 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccce
Confidence            468999999999999887542     235789999999999999998876432111                 0001111


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCC
Q 000803          205 AWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPN  280 (1277)
Q Consensus       205 ~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~  280 (1277)
                      +.+....                     ....+++.+.+...    ..+++-++|+|++..........++..+-.....
T Consensus        91 lEidaAs---------------------~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~  149 (709)
T PRK08691         91 LEIDAAS---------------------NTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEH  149 (709)
T ss_pred             EEEeccc---------------------cCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCC
Confidence            1222111                     12223332222211    2356678999999876655566666666544456


Q ss_pred             cEEEEEcccc-cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHH
Q 000803          281 SKMIITTRNS-HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       281 s~iivTtr~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  351 (1277)
                      +++|++|.+. .+...+ +....+.+++++.++....+.+.+-..+.    ....+..+.|++.++|.+.-+.
T Consensus       150 v~fILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi----~id~eAL~~Ia~~A~GslRdAl  218 (709)
T PRK08691        150 VKFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKI----AYEPPALQLLGRAAAGSMRDAL  218 (709)
T ss_pred             cEEEEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCC----CcCHHHHHHHHHHhCCCHHHHH
Confidence            6777766543 222211 22245888899999998888876642211    2234566789999999885443

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.07  E-value=6.2e-05  Score=86.02  Aligned_cols=190  Identities=13%  Similarity=0.107  Sum_probs=110.7

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|.+..+..+..++....     -...+.++|+.|+||||+|+.+++.........+. .+..|    ..    .+.
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~r-----i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~-pCg~C----~s----C~~   83 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGK-----IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNE-PCNEC----TS----CLE   83 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCcc-ccCCC----cH----HHH
Confidence            468999988888888876532     12467899999999999999998754322100000 00000    00    111


Q ss_pred             HHHHhcCC-----CCCCCcHHHH---HHHHHHh-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEE-ccccc
Q 000803          222 LLESITSA-----TCDLKTVDEV---QVQLKKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIIT-TRNSH  291 (1277)
Q Consensus       222 il~~l~~~-----~~~~~~~~~~---~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivT-tr~~~  291 (1277)
                      +.......     .......+++   .+.+... ..+++-++|+|++.......++.++..+-.......+|.+ |....
T Consensus        84 i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~k  163 (484)
T PRK14956         84 ITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHK  163 (484)
T ss_pred             HHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhh
Confidence            11111100     0011112222   2222211 2456679999999888778888887777554445555544 44444


Q ss_pred             ccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHH
Q 000803          292 VASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLA  349 (1277)
Q Consensus       292 v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLa  349 (1277)
                      +...+ .....|.+++++.++..+.+.+.+-..+    ....++....|++.++|.+--
T Consensus       164 I~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Eg----i~~e~eAL~~Ia~~S~Gd~Rd  218 (484)
T PRK14956        164 IPETILSRCQDFIFKKVPLSVLQDYSEKLCKIEN----VQYDQEGLFWIAKKGDGSVRD  218 (484)
T ss_pred             ccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCChHHH
Confidence            43222 2235699999999999888877663221    122345667899999998853

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.06  E-value=8.5e-05  Score=85.79  Aligned_cols=184  Identities=17%  Similarity=0.197  Sum_probs=108.8

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccccc------------------CCcce
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS------------------GKFDV  203 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~------------------~~f~~  203 (1277)
                      ..++|.+..++.+.+++...     .-...+-++|+.|+||||+|+.+.........                  .+++.
T Consensus        14 ~~iig~~~~~~~l~~~~~~~-----~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~   88 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNG-----RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV   88 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE
Confidence            35789999999999888653     22357789999999999999888764321110                  12222


Q ss_pred             EEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcE
Q 000803          204 KAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSK  282 (1277)
Q Consensus       204 ~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~  282 (1277)
                       +++......... ..+++...                 +... ..+++-++|+|++.......+..+...+......+.
T Consensus        89 -~~~~~~~~~~~~-~~~~l~~~-----------------~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~  149 (355)
T TIGR02397        89 -IEIDAASNNGVD-DIREILDN-----------------VKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVV  149 (355)
T ss_pred             -EEeeccccCCHH-HHHHHHHH-----------------HhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCcccee
Confidence             222221111111 11122221                 1111 224555888999876555556666666644445667


Q ss_pred             EEEEccccc-ccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          283 MIITTRNSH-VASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       283 iivTtr~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      +|++|.+.. +...+ .....+++.+++.++..+.+...+-..+.    ...++.+..+++.++|.|..+...
T Consensus       150 lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~----~i~~~a~~~l~~~~~g~~~~a~~~  218 (355)
T TIGR02397       150 FILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGI----KIEDEALELIARAADGSLRDALSL  218 (355)
T ss_pred             EEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCChHHHHHH
Confidence            667765433 22111 22256888999999998888876632211    122466778999999988665443

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.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.05  E-value=6.5e-05  Score=89.84  Aligned_cols=194  Identities=14%  Similarity=0.137  Sum_probs=112.8

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..+||.+.-++.+.+.+....     -...+.++|..|+||||+|+.+++..-...  .+      . ......-...+.
T Consensus        16 ~divGQe~vv~~L~~~l~~~r-----l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~--~~------~-~~pCg~C~~C~~   81 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGR-----LHHAYLFSGTRGVGKTTIARLLAKGLNCET--GI------T-ATPCGECDNCRE   81 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhhhcc--CC------C-CCCCCCCHHHHH
Confidence            468999999998888886532     234578999999999999999976432211  00      0 001111111222


Q ss_pred             HHHHhcC-----CCCCCCcHHHHHHHHHH----hhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc-cc
Q 000803          222 LLESITS-----ATCDLKTVDEVQVQLKK----AVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-SH  291 (1277)
Q Consensus       222 il~~l~~-----~~~~~~~~~~~~~~l~~----~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~-~~  291 (1277)
                      |...-..     ........+++.+.+.+    -..+++-++|+|++.......++.++..+-......++|.+|.+ ..
T Consensus        82 i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~k  161 (647)
T PRK07994         82 IEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  161 (647)
T ss_pred             HHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccc
Confidence            2110000     00001123333222221    12466779999999888777788887776655556666665554 33


Q ss_pred             cccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          292 VAST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       292 v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      +... ......|.+++++.++..+.+.+.+-....    ...++....|++.++|.+-.+..+
T Consensus       162 Ll~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i----~~e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        162 LPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQI----PFEPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             cchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            3322 122367999999999999888776522111    122345567999999987644433

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

Probab=98.05  E-value=4.8e-06  Score=67.22  Aligned_cols=58  Identities=33%  Similarity=0.426  Sum_probs=50.8

Q ss_pred             CccceeeccCCccccccc-cccccccCcEEEecCCcCccccch-hhccccCcCeeeecCcc
Q 000803          576 RLLRYLNLADTDIRSLPE-SSCSLLNLEILILRNCSSLIKLPS-KIRRLINLCHLDIRGAI  634 (1277)
Q Consensus       576 ~~Lr~L~L~~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~~L~~L~l~~~~  634 (1277)
                      ++|++|++++|.++.+|. .|..+++|++|++++| .+..+|. .|..+++|++|++++|.
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N-~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNN-NLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSS-SESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCC-ccCccCHHHHcCCCCCCEEeCcCCc
Confidence            479999999999999975 7789999999999985 6777765 67999999999999986

...

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.05  E-value=9.4e-06  Score=89.03  Aligned_cols=90  Identities=21%  Similarity=0.234  Sum_probs=62.2

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc--CHHHHHHHHHHHhcCCCCCCCcHHH------HH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF--DVLSISKALLESITSATCDLKTVDE------VQ  240 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~--~~~~~~~~il~~l~~~~~~~~~~~~------~~  240 (1277)
                      -.-..|+|++|+||||||+++|++....   +|+.++||.+.+..  .+.++++.+...+-....+......      ..
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~n---hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~i  245 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTN---HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVI  245 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhh---cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHH
Confidence            3567899999999999999999976544   79999999999887  7777887776433322222221111      11


Q ss_pred             HHHHHh-hcCceEEEEecCccc
Q 000803          241 VQLKKA-VDGKRFLLVLDDVWN  261 (1277)
Q Consensus       241 ~~l~~~-l~~kr~LlVlDdv~~  261 (1277)
                      +.-+.+ -.+++++|++|++..
T Consensus       246 e~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        246 EKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHHHcCCCEEEEEEChHH
Confidence            111111 367999999999943

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.04  E-value=0.00011  Score=75.58  Aligned_cols=91  Identities=16%  Similarity=0.199  Sum_probs=63.3

Q ss_pred             CceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCC
Q 000803          249 GKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDH  326 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~  326 (1277)
                      +.+-++|+||+.......++.+...+......+.+|++|++. .+...+ .....+.+.+++.++..+.+.+.  + .  
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~--g-i--  169 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ--G-I--  169 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc--C-C--
Confidence            566789999998766666777777776555567777777643 222211 12357999999999998888776  1 1  


Q ss_pred             CchhhHHHHHHHHHhhcCCchHH
Q 000803          327 NALEISESFRKKVVGKCGGLPLA  349 (1277)
Q Consensus       327 ~~~~~~~~~~~~i~~~c~glPLa  349 (1277)
                           .++.++.|++.++|.|..
T Consensus       170 -----~~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       170 -----SEEAAELLLALAGGSPGA  187 (188)
T ss_pred             -----CHHHHHHHHHHcCCCccc
Confidence                 145678899999998853

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.

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

Probab=98.03  E-value=6.3e-05  Score=78.87  Aligned_cols=187  Identities=14%  Similarity=0.153  Sum_probs=101.6

Q ss_pred             Cccccch-hhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHH
Q 000803          142 PVVFGRE-EDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~-~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      ..++|.. +..-.....+.....   .....+.|+|..|+|||.|.+++++......  .-..+++++      ..+...
T Consensus         9 nfv~g~~N~~a~~~~~~ia~~~~---~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~--~~~~v~y~~------~~~f~~   77 (219)
T PF00308_consen    9 NFVVGESNELAYAAAKAIAENPG---ERYNPLFLYGPSGLGKTHLLQAIANEAQKQH--PGKRVVYLS------AEEFIR   77 (219)
T ss_dssp             CS--TTTTHHHHHHHHHHHHSTT---TSSSEEEEEESTTSSHHHHHHHHHHHHHHHC--TTS-EEEEE------HHHHHH
T ss_pred             cCCcCCcHHHHHHHHHHHHhcCC---CCCCceEEECCCCCCHHHHHHHHHHHHHhcc--ccccceeec------HHHHHH
Confidence            3445653 333444444544321   2344578999999999999999998643221  112355665      344555


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHH-hHHhhhccccc--CCCCcEEEEEccccc------
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYS-LWVDLKAPFLA--AAPNSKMIITTRNSH------  291 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~-~~~~l~~~l~~--~~~~s~iivTtr~~~------  291 (1277)
                      .+...+..     ...++    +++.+++ -=+|++||++.-... .|......+.+  ...|.+||+|++...      
T Consensus        78 ~~~~~~~~-----~~~~~----~~~~~~~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~  147 (219)
T PF00308_consen   78 EFADALRD-----GEIEE----FKDRLRS-ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGL  147 (219)
T ss_dssp             HHHHHHHT-----TSHHH----HHHHHCT-SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS
T ss_pred             HHHHHHHc-----ccchh----hhhhhhc-CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCcccccc
Confidence            55555543     12222    3333332 347889999663322 23332222221  134778999996542      


Q ss_pred             ---cccccCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          292 ---VASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       292 ---v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                         +.+.+...-.+++++.++++..+++.+++....-    ...+++++-|++.+.+..-.+..+
T Consensus       148 ~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~----~l~~~v~~~l~~~~~~~~r~L~~~  208 (219)
T PF00308_consen  148 LPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGI----ELPEEVIEYLARRFRRDVRELEGA  208 (219)
T ss_dssp             -HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT------S-HHHHHHHHHHTTSSHHHHHHH
T ss_pred             ChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCC----CCcHHHHHHHHHhhcCCHHHHHHH
Confidence               1222334457899999999999999988853221    234667777888877766555433

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.02  E-value=4.8e-05  Score=81.18  Aligned_cols=152  Identities=18%  Similarity=0.133  Sum_probs=87.0

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVD  248 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  248 (1277)
                      .+.+.|+|..|+|||+||+.+++....+   .. ...+++......      .    +                  ... 
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~~~~---~~-~~~~i~~~~~~~------~----~------------------~~~-   88 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADASYG---GR-NARYLDAASPLL------A----F------------------DFD-   88 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhC---CC-cEEEEehHHhHH------H----H------------------hhc-
Confidence            3578899999999999999998853221   11 244554333110      0    0                  011 


Q ss_pred             CceEEEEecCcccccHHhHHhhhcccccC-CCCc-EEEEEcccccccc--------ccCCCceeecCCCCHHHHHHHHHH
Q 000803          249 GKRFLLVLDDVWNEDYSLWVDLKAPFLAA-APNS-KMIITTRNSHVAS--------TMGPIDHYNLEHLLDDDCWSIFKT  318 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~~~s-~iivTtr~~~v~~--------~~~~~~~~~l~~L~~~~~~~Lf~~  318 (1277)
                      ...-+||+||+.......-..+...+... ..+. .||+|++......        .+.....+.+.++++++-..++.+
T Consensus        89 ~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~  168 (227)
T PRK08903         89 PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKA  168 (227)
T ss_pred             ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHH
Confidence            12347889999653322222333333221 2333 4666666433221        222235789999999887777665


Q ss_pred             hhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhhh
Q 000803          319 HAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLL  357 (1277)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~L  357 (1277)
                      .+-.. .   ....++..+.+++.+.|.+..+..+...+
T Consensus       169 ~~~~~-~---v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        169 AAAER-G---LQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHHc-C---CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            43211 1   22335677788889999998877665544

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.01  E-value=3.6e-05  Score=90.46  Aligned_cols=196  Identities=17%  Similarity=0.183  Sum_probs=109.7

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|++..++.+.+++....     -.+.+.++|+.|+||||+|+.+++.....        -|... .....-...+.
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~r-----l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~--------~~~~~-~~Cg~C~sCr~   81 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNK-----LTHAYIFSGPRGIGKTSIAKIFAKAINCL--------NPKDG-DCCNSCSVCES   81 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhcCC--------CCCCC-CCCcccHHHHH
Confidence            468899999999998886532     23568899999999999999987643221        12111 01111111111


Q ss_pred             HHHHhcC-----CCCCCCcHHHHHHHH---HHh-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEc-cccc
Q 000803          222 LLESITS-----ATCDLKTVDEVQVQL---KKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITT-RNSH  291 (1277)
Q Consensus       222 il~~l~~-----~~~~~~~~~~~~~~l---~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-r~~~  291 (1277)
                      +......     ........+++...+   ... ..+++=++|+|+++......+..+...+-.......+|++| ....
T Consensus        82 i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~K  161 (605)
T PRK05896         82 INTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQK  161 (605)
T ss_pred             HHcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHh
Confidence            1111000     000011222222221   111 12334469999998776667777777665544456665555 3333


Q ss_pred             cccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchH-HHHHHHh
Q 000803          292 VAST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL-AAKTLGG  355 (1277)
Q Consensus       292 v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~  355 (1277)
                      +... ......+++.+++.++....+...+-....    ....+.+..+++.++|.+- |+..+-.
T Consensus       162 Ll~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi----~Is~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        162 IPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKI----KIEDNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             hhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            3221 122357899999999998888876632111    1224556789999999654 4444443

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

Probab=98.01  E-value=4.6e-06  Score=97.91  Aligned_cols=104  Identities=27%  Similarity=0.263  Sum_probs=90.6

Q ss_pred             eEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccc-cCcEEEecCCcCccccchhhccccCcCeeeecCcc
Q 000803          556 RLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLL-NLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAI  634 (1277)
Q Consensus       556 r~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~-~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~  634 (1277)
                      ..|++..+.+...+..+..+..+..|++.++.+..+|...+.+. +|+.|++++ +.+..+|..++.+++|+.|++++|.
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~-N~i~~l~~~~~~l~~L~~L~l~~N~  174 (394)
T COG4886          96 PSLDLNLNRLRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSD-NKIESLPSPLRNLPNLKNLDLSFND  174 (394)
T ss_pred             ceeeccccccccCchhhhcccceeEEecCCcccccCccccccchhhcccccccc-cchhhhhhhhhccccccccccCCch
Confidence            45788888775555666777899999999999999999999995 999999999 5899998889999999999999998


Q ss_pred             ccccCCCCCCCCCCCcccCceeeCCCC
Q 000803          635 LLKEMPFGMKELKNLQTLSNFVVGKGG  661 (1277)
Q Consensus       635 ~l~~~p~~i~~L~~L~~L~~~~~~~~~  661 (1277)
                       +..+|...+.+++|+.|.+.++.+..
T Consensus       175 -l~~l~~~~~~~~~L~~L~ls~N~i~~  200 (394)
T COG4886         175 -LSDLPKLLSNLSNLNNLDLSGNKISD  200 (394)
T ss_pred             -hhhhhhhhhhhhhhhheeccCCcccc
Confidence             88999887789999999988887665

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.00  E-value=9.9e-05  Score=88.15  Aligned_cols=197  Identities=15%  Similarity=0.152  Sum_probs=110.8

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..+||-+.-++.|.+++....     -...+-++|..|+||||+|+.+.+..-...........    ....+.-...+.
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-----l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~----~~pCg~C~~C~~   86 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-----LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGIT----ATPCGVCQACRD   86 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCC----CCCCCccHHHHH
Confidence            368898888888888886542     23567899999999999999986533211100000000    001111111111


Q ss_pred             HHHHhc-----CCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc-cc
Q 000803          222 LLESIT-----SATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-SH  291 (1277)
Q Consensus       222 il~~l~-----~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~-~~  291 (1277)
                      |...-.     .........+++.+.+...    ..++.-++|||+++......++.++..+-......++|++|.+ ..
T Consensus        87 i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~k  166 (618)
T PRK14951         87 IDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQK  166 (618)
T ss_pred             HHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchh
Confidence            110000     0000112233333333221    1345568999999988777888888777665556666655543 33


Q ss_pred             cccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHH
Q 000803          292 VAST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       292 v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  351 (1277)
                      +... ......+.+++++.++..+.+.+.+-..+.    ....+....|++.++|.+--+.
T Consensus       167 il~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi----~ie~~AL~~La~~s~GslR~al  223 (618)
T PRK14951        167 VPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENV----PAEPQALRLLARAARGSMRDAL  223 (618)
T ss_pred             hhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHH
Confidence            3322 122367999999999998888876632211    1224556778899999775443

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

Probab=98.00  E-value=2.7e-06  Score=91.90  Aligned_cols=133  Identities=19%  Similarity=0.182  Sum_probs=69.8

Q ss_pred             CCCCCcCEEeccCCCCcccccCC---CCCCCCceEEEccccCccchhhhhhhcccccCCcccccccccCCCccCchhhhh
Q 000803         1101 HKLQSLQYLKIKECPSILSFSEE---GFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMR 1177 (1277)
Q Consensus      1101 ~~l~~L~~L~l~~c~~l~~l~~~---~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~l~~L~~L~l~~~~~l~~lp~~~~~ 1177 (1277)
                      ..||+|+.|+++.| .+..+...   ...+.|+.|.+   ..|+.-..-..+....+|+|+.|++.+|..+......   
T Consensus       169 eqLp~Le~LNls~N-rl~~~~~s~~~~~l~~lK~L~l---~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~---  241 (505)
T KOG3207|consen  169 EQLPSLENLNLSSN-RLSNFISSNTTLLLSHLKQLVL---NSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATS---  241 (505)
T ss_pred             Hhcccchhcccccc-cccCCccccchhhhhhhheEEe---ccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecch---
Confidence            45666666666653 33222221   13355666666   4455544445555666777777777776433221111   


Q ss_pred             ccCCcccceeeecccccccccCccCCCCCCCCCceeccCCCCCCCCC--CC------CCCCccceeeccCCh
Q 000803         1178 MMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFP--EV------GLPSSLLSLEIKNCP 1241 (1277)
Q Consensus      1178 ~~~~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~lp--~~------~~~~~L~~L~i~~c~ 1241 (1277)
                      ...+..|++|+|++++.+..=.......|+.|+.|+++.| .+.++.  ..      ...++|+.|++..++
T Consensus       242 ~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~t-gi~si~~~d~~s~~kt~~f~kL~~L~i~~N~  312 (505)
T KOG3207|consen  242 TKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSST-GIASIAEPDVESLDKTHTFPKLEYLNISENN  312 (505)
T ss_pred             hhhhhHHhhccccCCcccccccccccccccchhhhhcccc-CcchhcCCCccchhhhcccccceeeecccCc
Confidence            1346667777777765433221123456677777777766 444432  21      234566666666553

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

Probab=97.99  E-value=3.7e-05  Score=94.08  Aligned_cols=172  Identities=19%  Similarity=0.225  Sum_probs=95.4

Q ss_pred             CccccchhhHH---HHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          142 PVVFGREEDKT---KILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~---~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      ..++|.+..+.   .+.+.+..      +....+.++|++|+||||+|+.+++...  .  +|.   .++.+. ....  
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~------~~~~slLL~GPpGtGKTTLA~aIA~~~~--~--~f~---~lna~~-~~i~--   91 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKA------DRVGSLILYGPPGVGKTTLARIIANHTR--A--HFS---SLNAVL-AGVK--   91 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHHHhc--C--cce---eehhhh-hhhH--
Confidence            35788887764   34444433      3345678999999999999999987432  2  331   111110 0000  


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHhh--cCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEE--ccccc--c
Q 000803          219 SKALLESITSATCDLKTVDEVQVQLKKAV--DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIIT--TRNSH--V  292 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivT--tr~~~--v  292 (1277)
                                      +..+......+.+  .+++.++|+||++......++.+...+   ..|+.++|+  |.+..  +
T Consensus        92 ----------------dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l  152 (725)
T PRK13341         92 ----------------DLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEV  152 (725)
T ss_pred             ----------------HHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhh
Confidence                            1111111221111  246789999999876555566555433   235555553  33321  1


Q ss_pred             ccc-cCCCceeecCCCCHHHHHHHHHHhhcCCC---CCCchhhHHHHHHHHHhhcCCchH
Q 000803          293 AST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGR---DHNALEISESFRKKVVGKCGGLPL  348 (1277)
Q Consensus       293 ~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~---~~~~~~~~~~~~~~i~~~c~glPL  348 (1277)
                      ... ......+.+++++.++...++.+.+-...   ........++..+.|++.+.|..-
T Consensus       153 ~~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R  212 (725)
T PRK13341        153 NKALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDAR  212 (725)
T ss_pred             hhHhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHH
Confidence            111 11235689999999999999887653100   011112335566778888888643

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.98  E-value=0.0001  Score=85.41  Aligned_cols=183  Identities=19%  Similarity=0.168  Sum_probs=110.0

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc-----------------cCCcceE
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-----------------SGKFDVK  204 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-----------------~~~f~~~  204 (1277)
                      ..+||.+..++.+.+.+..+.     -...+-++|+.|+||||+|+.++...-...                 .+.+.-+
T Consensus        13 ~dliGQe~vv~~L~~a~~~~r-----i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNK-----IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            468999988888887775532     234788999999999999998875221110                 0011122


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEE
Q 000803          205 AWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMI  284 (1277)
Q Consensus       205 ~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~ii  284 (1277)
                      +.++.+....+.+ .+++++.....                -..+++=++|+|++........+.+...+-...+..++|
T Consensus        88 ~eidaas~~~vdd-IR~Iie~~~~~----------------P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fI  150 (491)
T PRK14964         88 IEIDAASNTSVDD-IKVILENSCYL----------------PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFI  150 (491)
T ss_pred             EEEecccCCCHHH-HHHHHHHHHhc----------------cccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEE
Confidence            3333332222222 11222111100                023456689999997766666777777776655667766


Q ss_pred             EEcc-cccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          285 ITTR-NSHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       285 vTtr-~~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      ++|. ...+...+ .....+.+++++.++..+.+.+.+.....    ...++..+.|++.++|.+-.+
T Consensus       151 latte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi----~i~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        151 LATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENI----EHDEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             EEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHH
Confidence            6654 33333222 22356899999999999888877643221    223455678999999987543

>PRK05642 DNA replication initiation factor; Validated

Probab=97.98  E-value=9.4e-05  Score=78.64  Aligned_cols=153  Identities=15%  Similarity=0.183  Sum_probs=91.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      ..+.|+|..|+|||.||+.+++....+    -..++|++..+      +...              ...    +.+.+++
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~----~~~v~y~~~~~------~~~~--------------~~~----~~~~~~~   97 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQR----GEPAVYLPLAE------LLDR--------------GPE----LLDNLEQ   97 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhC----CCcEEEeeHHH------HHhh--------------hHH----HHHhhhh
Confidence            578999999999999999998743211    12456776432      1110              011    2222222


Q ss_pred             ceEEEEecCccccc-HHhHHh-hhccccc-CCCCcEEEEEccccc---------cccccCCCceeecCCCCHHHHHHHHH
Q 000803          250 KRFLLVLDDVWNED-YSLWVD-LKAPFLA-AAPNSKMIITTRNSH---------VASTMGPIDHYNLEHLLDDDCWSIFK  317 (1277)
Q Consensus       250 kr~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~~s~iivTtr~~~---------v~~~~~~~~~~~l~~L~~~~~~~Lf~  317 (1277)
                      -. ++|+||+.... ...|.. +...+.. ...|..||+|++...         +.+.+.....++++++++++-.+.+.
T Consensus        98 ~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~  176 (234)
T PRK05642         98 YE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQ  176 (234)
T ss_pred             CC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHH
Confidence            22 67899996421 134443 3322222 234678888887532         12222334568999999999999998


Q ss_pred             HhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHh
Q 000803          318 THAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGG  355 (1277)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  355 (1277)
                      .++....    ....+++.+-|++.+.|-.-++..+-.
T Consensus       177 ~ka~~~~----~~l~~ev~~~L~~~~~~d~r~l~~~l~  210 (234)
T PRK05642        177 LRASRRG----LHLTDEVGHFILTRGTRSMSALFDLLE  210 (234)
T ss_pred             HHHHHcC----CCCCHHHHHHHHHhcCCCHHHHHHHHH
Confidence            7764321    123357778899999887665554433

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.96  E-value=0.0001  Score=87.10  Aligned_cols=180  Identities=16%  Similarity=0.149  Sum_probs=108.5

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc-----------------cCCcceE
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-----------------SGKFDVK  204 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-----------------~~~f~~~  204 (1277)
                      ..+||-+.-++.+.+++....     -...+-++|+.|+||||+|+.+.+..-...                 .+.|.-+
T Consensus        16 ~divGq~~v~~~L~~~~~~~~-----l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~   90 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQY-----LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDL   90 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceE
Confidence            368999999999999986542     234678999999999999998876432211                 0111112


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH----hhcCceEEEEecCcccccHHhHHhhhcccccCCCC
Q 000803          205 AWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKK----AVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPN  280 (1277)
Q Consensus       205 ~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~----~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~  280 (1277)
                      +.++.+..                     ...+++.+.+..    -..++.-++|+|++........+.+...+-.....
T Consensus        91 ~eidaas~---------------------~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~  149 (509)
T PRK14958         91 FEVDAASR---------------------TKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSH  149 (509)
T ss_pred             EEEccccc---------------------CCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCC
Confidence            22322222                     223332222221    11356668999999887777777777766655566


Q ss_pred             cEEEEEccc-ccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHH
Q 000803          281 SKMIITTRN-SHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       281 s~iivTtr~-~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  351 (1277)
                      +++|++|.+ ..+...+ .....+++++++.++..+.+...+-..+.    ....+....|++.++|.+--+.
T Consensus       150 ~~fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi----~~~~~al~~ia~~s~GslR~al  218 (509)
T PRK14958        150 VKFILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENV----EFENAALDLLARAANGSVRDAL  218 (509)
T ss_pred             eEEEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCcHHHHH
Confidence            777666543 3332221 12256889999999877766655532111    1123445678889999875443

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.95  E-value=6.9e-05  Score=86.67  Aligned_cols=198  Identities=13%  Similarity=0.158  Sum_probs=110.4

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEE-eCCCcCHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVC-VSDDFDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~-~s~~~~~~~~~~  220 (1277)
                      ..++|.+.-++.+..++....     -...+.++|+.|+||||+|..+++......  .+....|.. +......-...+
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~-----~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~--~~~~~~~~~~~~~~c~~c~~c~   88 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQR--MIDDADYLQEVTEPCGECESCR   88 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCC-----cceeEEEECCCCCCHHHHHHHHHHHhcCCC--CcCcccccccCCCCCCCCHHHH
Confidence            368898888888888776532     234578999999999999999876443211  111111110 001111111111


Q ss_pred             HHHHHhcC-----CCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEc-ccc
Q 000803          221 ALLESITS-----ATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITT-RNS  290 (1277)
Q Consensus       221 ~il~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-r~~  290 (1277)
                      .+......     ........+++.+.....    ..+++-++|+|++.......++.+...+....+.+.+|++| +..
T Consensus        89 ~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~  168 (397)
T PRK14955         89 DFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELH  168 (397)
T ss_pred             HHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChH
Confidence            11111000     000111233333322221    23456688999998776667888877776555566766655 333


Q ss_pred             cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          291 HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       291 ~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      .+...+ .....++++++++++..+.+...+-...    .....+.++.|++.++|.+--+
T Consensus       169 kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g----~~i~~~al~~l~~~s~g~lr~a  225 (397)
T PRK14955        169 KIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEG----ISVDADALQLIGRKAQGSMRDA  225 (397)
T ss_pred             HhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHH
Confidence            333221 1124688999999998888877653211    1233567788999999977543

>PF14516 AAA_35: AAA-like domain

Probab=97.94  E-value=0.0024  Score=71.88  Aligned_cols=203  Identities=12%  Similarity=0.122  Sum_probs=120.1

Q ss_pred             CCCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC-----c
Q 000803          139 PTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD-----F  213 (1277)
Q Consensus       139 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~-----~  213 (1277)
                      ++.+..|+|....+++.+.+.+..       ..+.|.|+-.+|||+|...+.+..+..   .+ .++++++..-     .
T Consensus         8 ~~~~~Yi~R~~~e~~~~~~i~~~G-------~~~~I~apRq~GKTSll~~l~~~l~~~---~~-~~v~id~~~~~~~~~~   76 (331)
T PF14516_consen    8 LDSPFYIERPPAEQECYQEIVQPG-------SYIRIKAPRQMGKTSLLLRLLERLQQQ---GY-RCVYIDLQQLGSAIFS   76 (331)
T ss_pred             CCCCcccCchHHHHHHHHHHhcCC-------CEEEEECcccCCHHHHHHHHHHHHHHC---CC-EEEEEEeecCCCcccC
Confidence            345567789877777777776532       589999999999999999998755432   33 3557776542     2


Q ss_pred             CHHHHHHHHHHHhcCCCC-----------CCCcHHHHHHHHHHhh---cCceEEEEecCcccccH-----HhHHhhhccc
Q 000803          214 DVLSISKALLESITSATC-----------DLKTVDEVQVQLKKAV---DGKRFLLVLDDVWNEDY-----SLWVDLKAPF  274 (1277)
Q Consensus       214 ~~~~~~~~il~~l~~~~~-----------~~~~~~~~~~~l~~~l---~~kr~LlVlDdv~~~~~-----~~~~~l~~~l  274 (1277)
                      +..+.++.+...+...-.           ...........+.+.+   .+++.+|+||+|+..-.     .++-.+.+.+
T Consensus        77 ~~~~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~  156 (331)
T PF14516_consen   77 DLEQFLRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSW  156 (331)
T ss_pred             CHHHHHHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHH
Confidence            455556555555443211           0112223333444432   26899999999964211     1222222222


Q ss_pred             ccC-C---C-CcEEEEEcccccc--ccc-----cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhh
Q 000803          275 LAA-A---P-NSKMIITTRNSHV--AST-----MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGK  342 (1277)
Q Consensus       275 ~~~-~---~-~s~iivTtr~~~v--~~~-----~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~  342 (1277)
                      -.. .   . ..-.+|.....+.  ...     ......+.|++++.+|...|...+-..        ......++|...
T Consensus       157 ~~~~~~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~--------~~~~~~~~l~~~  228 (331)
T PF14516_consen  157 YEQRKNNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE--------FSQEQLEQLMDW  228 (331)
T ss_pred             HHhcccCcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc--------CCHHHHHHHHHH
Confidence            111 1   0 1111222221111  111     112246899999999999998876431        112237889999


Q ss_pred             cCCchHHHHHHHhhhcCC
Q 000803          343 CGGLPLAAKTLGGLLRTT  360 (1277)
Q Consensus       343 c~glPLai~~~~~~L~~~  360 (1277)
                      +||+|..+..++..+...
T Consensus       229 tgGhP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  229 TGGHPYLVQKACYLLVEE  246 (331)
T ss_pred             HCCCHHHHHHHHHHHHHc
Confidence            999999999999999765

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.88  E-value=0.00022  Score=84.95  Aligned_cols=182  Identities=19%  Similarity=0.196  Sum_probs=108.8

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc-----------------cCCcceE
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-----------------SGKFDVK  204 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-----------------~~~f~~~  204 (1277)
                      ..++|-+.-++.+.+++....     -...+.++|+.|+||||+|+.+....-...                 .+.|.-.
T Consensus        16 ~divGq~~v~~~L~~~i~~~~-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~   90 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQR-----LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDL   90 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            368899999999988886532     234668999999999999999876432211                 0011112


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCC
Q 000803          205 AWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPN  280 (1277)
Q Consensus       205 ~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~  280 (1277)
                      +++..+..                     ...+++.+.+...    ..+++-++|+|++........+.+...+-.....
T Consensus        91 ~ei~~~~~---------------------~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~  149 (527)
T PRK14969         91 IEVDAASN---------------------TQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEH  149 (527)
T ss_pred             eEeecccc---------------------CCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCC
Confidence            22221111                     1222222222111    2356779999999877666677777776655556


Q ss_pred             cEEEEEccc-ccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchH-HHHHH
Q 000803          281 SKMIITTRN-SHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL-AAKTL  353 (1277)
Q Consensus       281 s~iivTtr~-~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  353 (1277)
                      +.+|.+|.+ +.+...+ .....+++++++.++..+.+.+.+-..+.    ...++..+.|++.++|.+- |+..+
T Consensus       150 ~~fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi----~~~~~al~~la~~s~Gslr~al~ll  221 (527)
T PRK14969        150 VKFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENI----PFDATALQLLARAAAGSMRDALSLL  221 (527)
T ss_pred             EEEEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            666665543 3333211 11246899999999988887765532111    1224455778999999775 44443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.87  E-value=0.00019  Score=82.51  Aligned_cols=180  Identities=16%  Similarity=0.086  Sum_probs=98.3

Q ss_pred             CCccccchhhHHHHHHHHhccccc-------CCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAA-------DHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF  213 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~  213 (1277)
                      ...+.|+++.++++.+.+...-..       +-...+-+.++|++|+|||++|+++++....    .|     +.+..  
T Consensus       121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~----~~-----~~v~~--  189 (364)
T TIGR01242       121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA----TF-----IRVVG--  189 (364)
T ss_pred             HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCC----CE-----Eecch--
Confidence            346889999999998876432100       0022456889999999999999999885421    33     22211  


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc-----------HH---hHHhhhccccc--C
Q 000803          214 DVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED-----------YS---LWVDLKAPFLA--A  277 (1277)
Q Consensus       214 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-----------~~---~~~~l~~~l~~--~  277 (1277)
                        ..+.....   +      .....+...++..-...+.+|++|+++...           ..   .+..+...+..  .
T Consensus       190 --~~l~~~~~---g------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~  258 (364)
T TIGR01242       190 --SELVRKYI---G------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDP  258 (364)
T ss_pred             --HHHHHHhh---h------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCC
Confidence              11111110   0      001111122222223467899999986421           11   12222222211  2


Q ss_pred             CCCcEEEEEccccccc-----cccCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch
Q 000803          278 APNSKMIITTRNSHVA-----STMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP  347 (1277)
Q Consensus       278 ~~~s~iivTtr~~~v~-----~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  347 (1277)
                      ..+.+||.||...+..     ........+.+...+.++..++|..++....... ...    ...+++.+.|..
T Consensus       259 ~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~-~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       259 RGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAE-DVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCc-cCC----HHHHHHHcCCCC
Confidence            3467788888754322     1112235688999999999999998875432111 111    245777777764

Many proteins may score above the trusted cutoff because an internal

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.87  E-value=0.00021  Score=85.77  Aligned_cols=197  Identities=17%  Similarity=0.176  Sum_probs=113.3

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcc--eEEEEEeCCCcCHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFD--VKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~--~~~wv~~s~~~~~~~~~  219 (1277)
                      ..++|.+..++.+.+++....     -...+.++|+.|+||||+|+.+++..-...  ...  ...+    +....-.-.
T Consensus        24 ~dliGq~~~v~~L~~~~~~gr-----i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~--~~~~~~~~~----~~cg~c~~C   92 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGR-----IAQAFMLTGVRGVGKTTTARILARALNYEG--PDGDGGPTI----DLCGVGEHC   92 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhhCcCC--ccccCCCcc----ccCcccHHH
Confidence            468999999999999886542     234688999999999999999987442221  000  0000    000111111


Q ss_pred             HHHHHHhcCC-----CCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEc-cc
Q 000803          220 KALLESITSA-----TCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITT-RN  289 (1277)
Q Consensus       220 ~~il~~l~~~-----~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-r~  289 (1277)
                      +.|...-..+     .......+++.+.+...    ..+++-++|+|++........+.+...+-....++.+|++| ..
T Consensus        93 ~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~  172 (598)
T PRK09111         93 QAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEI  172 (598)
T ss_pred             HHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCCh
Confidence            1221111100     00112233333222211    13455678999998776666777777766555567766555 43


Q ss_pred             ccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          290 SHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       290 ~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      ..+...+ .....+.+++++.++....+.+.+-....    ....+..+.|++.++|.+.-+...
T Consensus       173 ~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi----~i~~eAl~lIa~~a~Gdlr~al~~  233 (598)
T PRK09111        173 RKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGV----EVEDEALALIARAAEGSVRDGLSL  233 (598)
T ss_pred             hhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            3333222 22357899999999999888876632211    223456678999999988655433

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

Probab=97.86  E-value=0.00036  Score=73.74  Aligned_cols=158  Identities=16%  Similarity=0.145  Sum_probs=94.4

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      +.+.-+.+||++|+||||||+.+....+...      ..||..|..-.-.+-.++|.++-.               -...
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~S------yrfvelSAt~a~t~dvR~ife~aq---------------~~~~  218 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSKKHS------YRFVELSATNAKTNDVRDIFEQAQ---------------NEKS  218 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcCCCc------eEEEEEeccccchHHHHHHHHHHH---------------HHHh
Confidence            4567788999999999999999987543221      345665554333333333333321               0123


Q ss_pred             hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEE--Eccccccc---cccCCCceeecCCCCHHHHHHHHHHhhc
Q 000803          247 VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMII--TTRNSHVA---STMGPIDHYNLEHLLDDDCWSIFKTHAF  321 (1277)
Q Consensus       247 l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv--Ttr~~~v~---~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  321 (1277)
                      +.++|.+|++|.|...+..+.+.   .++...+|.-++|  ||.++...   ..+....++.+++|..++...++.+..-
T Consensus       219 l~krkTilFiDEiHRFNksQQD~---fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia  295 (554)
T KOG2028|consen  219 LTKRKTILFIDEIHRFNKSQQDT---FLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIA  295 (554)
T ss_pred             hhcceeEEEeHHhhhhhhhhhhc---ccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHH
Confidence            46789999999997654433232   2344456776665  66665322   1123346799999999999998887432


Q ss_pred             ---CCCC---CCch---hhHHHHHHHHHhhcCCchH
Q 000803          322 ---EGRD---HNAL---EISESFRKKVVGKCGGLPL  348 (1277)
Q Consensus       322 ---~~~~---~~~~---~~~~~~~~~i~~~c~glPL  348 (1277)
                         ..+.   .-+.   .....+.+-++..|.|-.-
T Consensus       296 ~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  296 SLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             hhccccccCCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence               1111   1111   1234556667777888654

>PLN03150 hypothetical protein; Provisional

Probab=97.86  E-value=1.8e-05  Score=97.11  Aligned_cols=96  Identities=23%  Similarity=0.350  Sum_probs=82.2

Q ss_pred             hhhhcCCCCeeeEEecCCCCCC-CCCcCCCCCCccceeeccCCccc-cccccccccccCcEEEecCCcCccccchhhccc
Q 000803          545 LYDLLPKFKKLRLLSLQGYYIG-ELPIPFEDLRLLRYLNLADTDIR-SLPESSCSLLNLEILILRNCSSLIKLPSKIRRL  622 (1277)
Q Consensus       545 ~~~~~~~l~~Lr~L~L~~~~i~-~lp~~~~~l~~Lr~L~L~~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L  622 (1277)
                      ++..+..+++|+.|+|++|.+. .+|..++.+.+|++|+|++|.+. .+|+.+++|.+|++|+|++|.....+|..++.+
T Consensus       434 ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~N~l~g~iP~~l~~~  513 (623)
T PLN03150        434 IPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGNSLSGRVPAALGGR  513 (623)
T ss_pred             CCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcCCcccccCChHHhhc
Confidence            3445778999999999999985 78999999999999999999998 789999999999999999987777999988764


Q ss_pred             -cCcCeeeecCccccccCC
Q 000803          623 -INLCHLDIRGAILLKEMP  640 (1277)
Q Consensus       623 -~~L~~L~l~~~~~l~~~p  640 (1277)
                       .++..+++.+|..+...|
T Consensus       514 ~~~~~~l~~~~N~~lc~~p  532 (623)
T PLN03150        514 LLHRASFNFTDNAGLCGIP  532 (623)
T ss_pred             cccCceEEecCCccccCCC
Confidence             577889998886444433

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.83  E-value=0.0003  Score=82.17  Aligned_cols=168  Identities=14%  Similarity=0.080  Sum_probs=100.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      .-+.|+|..|+|||+|++++.+......  .-..+++++      ..++...+...+....       .....+++.++ 
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~--~~~~v~yv~------~~~f~~~~~~~l~~~~-------~~~~~~~~~~~-  205 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNF--SDLKVSYMS------GDEFARKAVDILQKTH-------KEIEQFKNEIC-  205 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhC--CCCeEEEEE------HHHHHHHHHHHHHHhh-------hHHHHHHHHhc-
Confidence            4588999999999999999988432211  112344554      3455566665554211       11223333333 


Q ss_pred             ceEEEEecCcccccH-HhH-Hhhhccccc-CCCCcEEEEEcccc---------ccccccCCCceeecCCCCHHHHHHHHH
Q 000803          250 KRFLLVLDDVWNEDY-SLW-VDLKAPFLA-AAPNSKMIITTRNS---------HVASTMGPIDHYNLEHLLDDDCWSIFK  317 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~-~~~-~~l~~~l~~-~~~~s~iivTtr~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~  317 (1277)
                      +.-+||+||+..... ..| +.+...+.. ...|..||+|+...         .+...+...-.+.+++++.++-.+++.
T Consensus       206 ~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~  285 (450)
T PRK14087        206 QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIK  285 (450)
T ss_pred             cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHH
Confidence            334888999965321 122 223222222 12355788887643         222333344567899999999999999


Q ss_pred             HhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHh
Q 000803          318 THAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGG  355 (1277)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  355 (1277)
                      +++-...-  .....+++..-|++.++|.|-.+.-+..
T Consensus       286 ~~~~~~gl--~~~l~~evl~~Ia~~~~gd~R~L~gaL~  321 (450)
T PRK14087        286 KEIKNQNI--KQEVTEEAINFISNYYSDDVRKIKGSVS  321 (450)
T ss_pred             HHHHhcCC--CCCCCHHHHHHHHHccCCCHHHHHHHHH
Confidence            88843211  0134467888899999999987765543

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.81  E-value=0.00043  Score=83.38  Aligned_cols=193  Identities=16%  Similarity=0.178  Sum_probs=107.6

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccC-Ccc-eEEE-EEeCCCcCHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSG-KFD-VKAW-VCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~-~f~-~~~w-v~~s~~~~~~~~  218 (1277)
                      ..++|.+..++.+.+++....     -...+-++|+.|+||||+|+.++...-..... .+. |..- .+....++.   
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~r-----l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dv---   89 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNK-----ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDI---   89 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcE---
Confidence            368899999999988886542     23567799999999999999987643211100 000 0000 000000000   


Q ss_pred             HHHHHHHhcCCCCCCCcHHH---HHHHHHHh-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEE-EEccccccc
Q 000803          219 SKALLESITSATCDLKTVDE---VQVQLKKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMI-ITTRNSHVA  293 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~~---~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~ii-vTtr~~~v~  293 (1277)
                             +..........++   +.+.+... ..+++-++|+|++.......+..+...+-.......+| +|++...+.
T Consensus        90 -------ieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl  162 (725)
T PRK07133         90 -------IEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIP  162 (725)
T ss_pred             -------EEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhh
Confidence                   0000000111222   22222211 23566689999998776677777777665544455544 454444443


Q ss_pred             cc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchH-HHHHH
Q 000803          294 ST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL-AAKTL  353 (1277)
Q Consensus       294 ~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  353 (1277)
                      .. ......+.+.+++.++..+.+...+-..+.    ....+.++.|++.++|-+- |+..+
T Consensus       163 ~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI----~id~eAl~~LA~lS~GslR~AlslL  220 (725)
T PRK07133        163 LTILSRVQRFNFRRISEDEIVSRLEFILEKENI----SYEKNALKLIAKLSSGSLRDALSIA  220 (725)
T ss_pred             HHHHhhceeEEccCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            22 222357999999999998888775532111    1223456789999999764 44433

>TIGR00767 rho transcription termination factor Rho

Probab=97.81  E-value=7.1e-05  Score=82.87  Aligned_cols=90  Identities=19%  Similarity=0.179  Sum_probs=63.7

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC--cCHHHHHHHHHHHhcCCCCCCCcHH------HHH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD--FDVLSISKALLESITSATCDLKTVD------EVQ  240 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~--~~~~~~~~~il~~l~~~~~~~~~~~------~~~  240 (1277)
                      -..++|+|++|+|||||++.+++.....   +|+..+||.+.+.  .++.++++.++..+-....+.....      .+.
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~n---hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~  244 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITRN---HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVI  244 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhccc---CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHH
Confidence            3678999999999999999999975433   7999999999866  7889999988655543333322111      111


Q ss_pred             HHHHHh-hcCceEEEEecCccc
Q 000803          241 VQLKKA-VDGKRFLLVLDDVWN  261 (1277)
Q Consensus       241 ~~l~~~-l~~kr~LlVlDdv~~  261 (1277)
                      +..+.. -++++++|++|.+..
T Consensus       245 e~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       245 EKAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHHcCCCeEEEEEChhH
Confidence            222222 368999999999954

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

>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=97.80  E-value=1.4e-05  Score=58.58  Aligned_cols=39  Identities=33%  Similarity=0.451  Sum_probs=23.7

Q ss_pred             ccceeeccCCccccccccccccccCcEEEecCCcCccccc
Q 000803          577 LLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLP  616 (1277)
Q Consensus       577 ~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp  616 (1277)
                      +|++|++++|.|+.+|..+++|++|++|++++| .++.+|
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNN-PISDIS   40 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSS-CCSBEG
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCC-CCCCCc
Confidence            566666666666666666666666666666664 455443

...

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.79  E-value=0.00019  Score=87.26  Aligned_cols=195  Identities=13%  Similarity=0.155  Sum_probs=110.8

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|.+..++.+..++....     -...+.++|+.|+||||+|+.+++......  ...      .....+.....+.
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~-----i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~--~~~------~~~~c~~c~~c~~   82 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGR-----VAHAYLFTGPRGVGKTSTARILAKAVNCTT--NDP------KGRPCGTCEMCRA   82 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCC--CCC------CCCCCccCHHHHH
Confidence            368999999999888886532     235678999999999999999976432111  000      0001111122222


Q ss_pred             HHHHhcCC-----CCCCCcHHHHHHHH---HHh-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc-cc
Q 000803          222 LLESITSA-----TCDLKTVDEVQVQL---KKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-SH  291 (1277)
Q Consensus       222 il~~l~~~-----~~~~~~~~~~~~~l---~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~-~~  291 (1277)
                      +.......     .......+++.+.+   ... ..+++-++|+|++........+.+...+-.....+.+|++|.+ ..
T Consensus        83 i~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~k  162 (585)
T PRK14950         83 IAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHK  162 (585)
T ss_pred             HhcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhh
Confidence            22211110     00112233332221   111 1245678999999776656667776666554456666666543 23


Q ss_pred             ccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          292 VASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       292 v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      +...+ .....+.+..++.++....+...+.....    ....+.+..|++.++|.+..+...
T Consensus       163 ll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl----~i~~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        163 VPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGI----NLEPGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             hhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            32211 12246888999999988888776643211    123456778999999988654433

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

Probab=97.79  E-value=0.0011  Score=71.18  Aligned_cols=166  Identities=17%  Similarity=0.226  Sum_probs=104.0

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHH
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      ++.+.+|+.++..+...+.....   .-+..|.|+|-+|.|||.+.+++.+....       ..+|+++-+.++....+.
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~---~~PS~~~iyG~sgTGKT~~~r~~l~~~n~-------~~vw~n~~ecft~~~lle   74 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSC---TIPSIVHIYGHSGTGKTYLVRQLLRKLNL-------ENVWLNCVECFTYAILLE   74 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCc---ccceeEEEeccCCCchhHHHHHHHhhcCC-------cceeeehHHhccHHHHHH
Confidence            46788999999999998876542   23466799999999999999999986533       248999999999999999


Q ss_pred             HHHHHhcCCCCCCC-------cHHHHHHHHHH--hhc--CceEEEEecCcccccHHhHHhhhcc----ccc-CCCCcEEE
Q 000803          221 ALLESITSATCDLK-------TVDEVQVQLKK--AVD--GKRFLLVLDDVWNEDYSLWVDLKAP----FLA-AAPNSKMI  284 (1277)
Q Consensus       221 ~il~~l~~~~~~~~-------~~~~~~~~l~~--~l~--~kr~LlVlDdv~~~~~~~~~~l~~~----l~~-~~~~s~ii  284 (1277)
                      +|+.+......+..       +..+....+.+  ..+  ++.++||||+++.-  .+.+.+.-+    +.. .....-+|
T Consensus        75 ~IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~l--rD~~a~ll~~l~~L~el~~~~~i~i  152 (438)
T KOG2543|consen   75 KILNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADAL--RDMDAILLQCLFRLYELLNEPTIVI  152 (438)
T ss_pred             HHHHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhh--hccchHHHHHHHHHHHHhCCCceEE
Confidence            99999852222111       11222233333  122  46899999999543  222221111    111 11223344


Q ss_pred             EEcccccc---ccccCCCc--eeecCCCCHHHHHHHHHH
Q 000803          285 ITTRNSHV---ASTMGPID--HYNLEHLLDDDCWSIFKT  318 (1277)
Q Consensus       285 vTtr~~~v---~~~~~~~~--~~~l~~L~~~~~~~Lf~~  318 (1277)
                      +++-...-   ...+|...  ++....-+.+|...++.+
T Consensus       153 ils~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~  191 (438)
T KOG2543|consen  153 ILSAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSR  191 (438)
T ss_pred             EEeccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhc
Confidence            44433211   11234433  356678889998888764

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

Probab=97.79  E-value=4.4e-06  Score=97.95  Aligned_cols=109  Identities=23%  Similarity=0.203  Sum_probs=82.0

Q ss_pred             cCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCee
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHL  628 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L  628 (1277)
                      +..++.|..|++.+|.|..+...+..+.+|++|+|++|.|..+. .+..+..|+.|++++| .+..++. +..+.+|+.+
T Consensus        91 l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~-~l~~l~~L~~L~l~~N-~i~~~~~-~~~l~~L~~l  167 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLE-GLSTLTLLKELNLSGN-LISDISG-LESLKSLKLL  167 (414)
T ss_pred             cccccceeeeeccccchhhcccchhhhhcchheecccccccccc-chhhccchhhheeccC-cchhccC-Cccchhhhcc
Confidence            56778888888888888888665788888888888888888884 4777778888888884 6666654 5668888888


Q ss_pred             eecCccccccCCCC-CCCCCCCcccCceeeCCCC
Q 000803          629 DIRGAILLKEMPFG-MKELKNLQTLSNFVVGKGG  661 (1277)
Q Consensus       629 ~l~~~~~l~~~p~~-i~~L~~L~~L~~~~~~~~~  661 (1277)
                      ++++|. +..+... +..+.+|+.+.+..+.+..
T Consensus       168 ~l~~n~-i~~ie~~~~~~~~~l~~l~l~~n~i~~  200 (414)
T KOG0531|consen  168 DLSYNR-IVDIENDELSELISLEELDLGGNSIRE  200 (414)
T ss_pred             cCCcch-hhhhhhhhhhhccchHHHhccCCchhc
Confidence            888887 5555543 4667777777776665544

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.78  E-value=0.00055  Score=79.02  Aligned_cols=179  Identities=14%  Similarity=0.198  Sum_probs=103.5

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc----cCCcceEEEEEeCCCcCHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED----SGKFDVKAWVCVSDDFDVLS  217 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~----~~~f~~~~wv~~s~~~~~~~  217 (1277)
                      ..++|.+...+.+.+.+...     .-.+.+.++|+.|+||||+|+.+.+......    ...|...+ +.....     
T Consensus        17 ~~iig~~~~~~~l~~~i~~~-----~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~-~~l~~~-----   85 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENN-----HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNI-FELDAA-----   85 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcce-EEeccc-----
Confidence            35789999999998888653     2235888999999999999999876432210    00121111 111100     


Q ss_pred             HHHHHHHHhcCCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEc-ccccc
Q 000803          218 ISKALLESITSATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITT-RNSHV  292 (1277)
Q Consensus       218 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-r~~~v  292 (1277)
                                    .....+++.+.+.+.    ..+++-++|+|++.......+..+...+......+.+|++| ....+
T Consensus        86 --------------~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl  151 (367)
T PRK14970         86 --------------SNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKI  151 (367)
T ss_pred             --------------cCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccC
Confidence                          011122222222111    12445589999997655555666665554433455555555 33333


Q ss_pred             ccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHH
Q 000803          293 AST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLA  349 (1277)
Q Consensus       293 ~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLa  349 (1277)
                      ... ......++.+++++++....+...+...+-    ....+.++.+++.++|.+-.
T Consensus       152 ~~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~----~i~~~al~~l~~~~~gdlr~  205 (367)
T PRK14970        152 IPTILSRCQIFDFKRITIKDIKEHLAGIAVKEGI----KFEDDALHIIAQKADGALRD  205 (367)
T ss_pred             CHHHHhcceeEecCCccHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHhCCCCHHH
Confidence            222 122346899999999998888876643211    12346677888899986653

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

Probab=97.78  E-value=0.00088  Score=73.96  Aligned_cols=214  Identities=18%  Similarity=0.135  Sum_probs=126.2

Q ss_pred             CCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHH
Q 000803          140 TEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       140 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~  219 (1277)
                      .+..++||+.|+..+.+++...-..  ...+-+-|.|-+|.|||.+...++.+.....  .-..+++++...--...+++
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~--~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~--~~~~~v~inc~sl~~~~aiF  223 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLEL--NTSGSLYVSGQPGTGKTALLSRVLDSLSKSS--KSPVTVYINCTSLTEASAIF  223 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhc--ccCcceEeeCCCCcchHHHHHHHHHhhhhhc--ccceeEEEeeccccchHHHH
Confidence            3457899999999999998654322  3456788999999999999999998754322  21245677666555677888


Q ss_pred             HHHHHHhcCCCCCCCcHHHHHHHHHHhhcC--ceEEEEecCcccccHHhHHhhhcccc-cCCCCcEEEEEcccc--c---
Q 000803          220 KALLESITSATCDLKTVDEVQVQLKKAVDG--KRFLLVLDDVWNEDYSLWVDLKAPFL-AAAPNSKMIITTRNS--H---  291 (1277)
Q Consensus       220 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~--kr~LlVlDdv~~~~~~~~~~l~~~l~-~~~~~s~iivTtr~~--~---  291 (1277)
                      ..|...+...........+..+.+.+...+  +-+|+|+|.++.-....-..+...|. +.-+++|+|+.---.  +   
T Consensus       224 ~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTd  303 (529)
T KOG2227|consen  224 KKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTD  303 (529)
T ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHH
Confidence            888877732222112224444555555543  36899999984321111111222222 223566665542110  0   


Q ss_pred             --ccc--c-c-CCCceeecCCCCHHHHHHHHHHhhcCCCCCC-chhhHHHHHHHHHhhcCCchHHHHHHHhhh
Q 000803          292 --VAS--T-M-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHN-ALEISESFRKKVVGKCGGLPLAAKTLGGLL  357 (1277)
Q Consensus       292 --v~~--~-~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~-~~~~~~~~~~~i~~~c~glPLai~~~~~~L  357 (1277)
                        ...  . . .....+..+|.+.++-.+++..+.-...... .+...+-.|++++...|.+--|+.+.-+.+
T Consensus       304 R~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~ai  376 (529)
T KOG2227|consen  304 RFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRAI  376 (529)
T ss_pred             HHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence              000  0 0 1124577889999999999998874322111 123445556666666666666666655433

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.78  E-value=0.00039  Score=82.49  Aligned_cols=197  Identities=14%  Similarity=0.198  Sum_probs=112.2

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|-+..++.|.+.+....     -...+.++|+.|+||||+|+.+.+..-...  ..+       ...++.-...+.
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~r-----i~ha~Lf~GPpG~GKTtiArilAk~L~C~~--~~~-------~~pCg~C~sC~~   81 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENR-----VAPAYLFSGTRGVGKTTIARIFAKALNCET--APT-------GEPCNTCEQCRK   81 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhccccC--CCC-------CCCCcccHHHHH
Confidence            357898888888887775532     235778899999999999999887543211  000       000111111111


Q ss_pred             HHHHhcC-----CCCCCCcHHHHHHHHHHh-----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc-c
Q 000803          222 LLESITS-----ATCDLKTVDEVQVQLKKA-----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-S  290 (1277)
Q Consensus       222 il~~l~~-----~~~~~~~~~~~~~~l~~~-----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~-~  290 (1277)
                      +......     .......++++.. +++.     ..+++-+||+|++.......++.+...+-.......+|++|.. .
T Consensus        82 i~~g~hpDv~eId~a~~~~Id~iR~-L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~  160 (624)
T PRK14959         82 VTQGMHVDVVEIDGASNRGIDDAKR-LKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPH  160 (624)
T ss_pred             HhcCCCCceEEEecccccCHHHHHH-HHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChh
Confidence            1111000     0000111222221 2221     2356679999999887767777777766544445556665544 3


Q ss_pred             cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch-HHHHHHHhhh
Q 000803          291 HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP-LAAKTLGGLL  357 (1277)
Q Consensus       291 ~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~~~L  357 (1277)
                      .+...+ .....+++++++.++..+.+...+.....    ....+.++.|++.++|.+ .|+..+..++
T Consensus       161 kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi----~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        161 KFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGV----DYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             hhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            333221 22356899999999999888876642211    123456778999999965 6777766544

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.77  E-value=0.00044  Score=85.93  Aligned_cols=191  Identities=14%  Similarity=0.109  Sum_probs=110.3

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..+||.+..++.|..++....     -...+.++|..|+||||+|+.+.+..-........         .+..-...+.
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~r-----i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~---------pCg~C~sC~~   80 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGR-----INHAYLFSGPRGCGKTSSARILARSLNCVEGPTST---------PCGECDSCVA   80 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCC---------CCcccHHHHH
Confidence            368999999999988886542     23467899999999999999987754322100000         0000000111


Q ss_pred             HHHH-------hcCCCCCCCcHHHHHHHHHH----hhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcc-c
Q 000803          222 LLES-------ITSATCDLKTVDEVQVQLKK----AVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTR-N  289 (1277)
Q Consensus       222 il~~-------l~~~~~~~~~~~~~~~~l~~----~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr-~  289 (1277)
                      |...       +.........++++.+...+    -..+++-++|||++.......++.|+..+-.-...+.+|++|. .
T Consensus        81 ~~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~  160 (824)
T PRK07764         81 LAPGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEP  160 (824)
T ss_pred             HHcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCCh
Confidence            1100       00000011123333221111    1235566889999988887888888887776656666665554 3


Q ss_pred             ccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          290 SHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       290 ~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      ..+...+ .....|+++.++.++..+.+.+.+-....    ....+....|++.++|.+..+
T Consensus       161 ~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv----~id~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        161 DKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGV----PVEPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             hhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHH
Confidence            3343322 22357899999999988888765522111    122345567899999988433

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

Probab=97.76  E-value=1.3e-06  Score=91.79  Aligned_cols=203  Identities=20%  Similarity=0.191  Sum_probs=96.2

Q ss_pred             hcCCCCeeeEEecCCCCCCC-----CCcCCCCCCccceeeccCC----ccccccccccccccCcEEEecCCcCccccchh
Q 000803          548 LLPKFKKLRLLSLQGYYIGE-----LPIPFEDLRLLRYLNLADT----DIRSLPESSCSLLNLEILILRNCSSLIKLPSK  618 (1277)
Q Consensus       548 ~~~~l~~Lr~L~L~~~~i~~-----lp~~~~~l~~Lr~L~L~~~----~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~  618 (1277)
                      ..-.+..+..++|++|.++.     +-+.+.+.++||.-++++-    ...++|+.+.                 .+...
T Consensus        25 ~~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~-----------------~l~~a   87 (382)
T KOG1909|consen   25 ELEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALK-----------------MLSKA   87 (382)
T ss_pred             HhcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHH-----------------HHHHH
Confidence            34556788888888887642     3345566667777777753    1224444321                 11112


Q ss_pred             hccccCcCeeeecCccccccCCCC----CCCCCCCcccCceeeCCCCCCCCChhc-cccccccCceeeecCccCCCChhh
Q 000803          619 IRRLINLCHLDIRGAILLKEMPFG----MKELKNLQTLSNFVVGKGGETASGLED-LKILKFLSGELCISGLQNVNDSKN  693 (1277)
Q Consensus       619 i~~L~~L~~L~l~~~~~l~~~p~~----i~~L~~L~~L~~~~~~~~~~~~~~~~~-L~~L~~L~~~l~i~~l~~~~~~~~  693 (1277)
                      +...++|+.|+||+|-.-..-+++    |...+.|++|.+.+++.....+..++. |..|.+.                 
T Consensus        88 L~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~-----------------  150 (382)
T KOG1909|consen   88 LLGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVN-----------------  150 (382)
T ss_pred             HhcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHH-----------------
Confidence            223334555555544321111111    334555555555555544321221111 1111110                 


Q ss_pred             hhhhccccCCCCCceEEEecCCCCCCcchHHHHHhhhcCCCccCccEEEEeeeCCCCCCccc-----CCCCCCCccEEEE
Q 000803          694 AREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWI-----GDPLFSKMNVLEL  768 (1277)
Q Consensus       694 ~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~~~-----~~~~l~~L~~L~L  768 (1277)
                         .......+|+.+...-+....     ......-..++.++.|+.+.+..+...  |..+     .-..+++|+.|+|
T Consensus       151 ---kk~~~~~~Lrv~i~~rNrlen-----~ga~~~A~~~~~~~~leevr~~qN~I~--~eG~~al~eal~~~~~LevLdl  220 (382)
T KOG1909|consen  151 ---KKAASKPKLRVFICGRNRLEN-----GGATALAEAFQSHPTLEEVRLSQNGIR--PEGVTALAEALEHCPHLEVLDL  220 (382)
T ss_pred             ---hccCCCcceEEEEeecccccc-----ccHHHHHHHHHhccccceEEEeccccc--CchhHHHHHHHHhCCcceeeec
Confidence               112233455555444332111     111223344555667777777665432  1111     0123677888888


Q ss_pred             cCCCCCCC----CC-CCCCCCCCceeeeccC
Q 000803          769 DDCWNCTS----LP-SLGLLSSLRDLTIKRM  794 (1277)
Q Consensus       769 ~~~~~~~~----l~-~l~~l~~L~~L~l~~~  794 (1277)
                      .+|..-..    +. .+..+|+|+.|.+.+|
T Consensus       221 ~DNtft~egs~~LakaL~s~~~L~El~l~dc  251 (382)
T KOG1909|consen  221 RDNTFTLEGSVALAKALSSWPHLRELNLGDC  251 (382)
T ss_pred             ccchhhhHHHHHHHHHhcccchheeeccccc
Confidence            87754221    11 4556777888888776

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.76  E-value=0.00045  Score=82.96  Aligned_cols=201  Identities=15%  Similarity=0.175  Sum_probs=110.7

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEE-eCCCcCHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVC-VSDDFDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~-~s~~~~~~~~~~  220 (1277)
                      ..++|.+..+..+.+++..+.     -...+.++|+.|+||||+|+.+.+..-...  ..+...|.. +......-...+
T Consensus        16 ~eivGQe~i~~~L~~~i~~~r-----i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~--~~~~~~~~~~~~~~Cg~C~sC~   88 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQR--MIDDPVYLQEVTEPCGECESCR   88 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCC--cCCccccccccCCCCccCHHHH
Confidence            468899988888888776532     234588999999999999988876443211  111001110 001111111111


Q ss_pred             HHHHHhcC-----CCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEc-ccc
Q 000803          221 ALLESITS-----ATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITT-RNS  290 (1277)
Q Consensus       221 ~il~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-r~~  290 (1277)
                      .+...-..     ........+++...+...    ..+++-++|+|+++......++.+...+-.-...+.+|++| +..
T Consensus        89 ~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~  168 (620)
T PRK14954         89 DFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELH  168 (620)
T ss_pred             HHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChh
Confidence            11110000     000112234444333222    23455678999998776666777777765544556655544 433


Q ss_pred             ccccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchH-HHHHH
Q 000803          291 HVAST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL-AAKTL  353 (1277)
Q Consensus       291 ~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  353 (1277)
                      .+... ......+++.+++.++....+.+.+-...    .....+.++.|++.++|..- |+..+
T Consensus       169 kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~eg----i~I~~eal~~La~~s~Gdlr~al~eL  229 (620)
T PRK14954        169 KIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEG----IQIDADALQLIARKAQGSMRDAQSIL  229 (620)
T ss_pred             hhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHhCCCHHHHHHHH
Confidence            33322 12336799999999998887776553211    11235567789999999554 44433

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

Probab=97.76  E-value=0.00057  Score=72.74  Aligned_cols=196  Identities=13%  Similarity=0.118  Sum_probs=116.2

Q ss_pred             hHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCC--cceEEEEEeCCCcCHHHHHHHHHHHhc
Q 000803          150 DKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGK--FDVKAWVCVSDDFDVLSISKALLESIT  227 (1277)
Q Consensus       150 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~--f~~~~wv~~s~~~~~~~~~~~il~~l~  227 (1277)
                      -++.+.+.+.....   ...+-+.|||.+|.|||++++++...........  --.++.|.+...++...+...|+.+++
T Consensus        45 ~L~~L~~Ll~~P~~---~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lg  121 (302)
T PF05621_consen   45 ALDRLEELLEYPKR---HRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALG  121 (302)
T ss_pred             HHHHHHHHHhCCcc---cCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhC
Confidence            34445454544322   4567799999999999999999986443322111  114677888889999999999999999


Q ss_pred             CCCCCCCcHHHHHHHHHHhhcC-ceEEEEecCcccc------cHHhHHhhhcccccCCCCcEEEEEccccccccc-----
Q 000803          228 SATCDLKTVDEVQVQLKKAVDG-KRFLLVLDDVWNE------DYSLWVDLKAPFLAAAPNSKMIITTRNSHVAST-----  295 (1277)
Q Consensus       228 ~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~------~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~~-----  295 (1277)
                      .+.............+.+.++. +-=+||+|.+.+.      .+...-.....+.+.-.=+-|.|-|++.--+-.     
T Consensus       122 aP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QL  201 (302)
T PF05621_consen  122 APYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQL  201 (302)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHH
Confidence            8876666666666665566644 3448889999552      111122222233233334456666654321111     


Q ss_pred             cCCCceeecCCCCHHHH-HHHHHHhh--cCCCCCCchhhHHHHHHHHHhhcCCchHH
Q 000803          296 MGPIDHYNLEHLLDDDC-WSIFKTHA--FEGRDHNALEISESFRKKVVGKCGGLPLA  349 (1277)
Q Consensus       296 ~~~~~~~~l~~L~~~~~-~~Lf~~~~--~~~~~~~~~~~~~~~~~~i~~~c~glPLa  349 (1277)
                      .....++.+.....++- ..|+....  ..-+.++. -...++++.|...++|+.=-
T Consensus       202 a~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~-l~~~~la~~i~~~s~G~iG~  257 (302)
T PF05621_consen  202 ASRFEPFELPRWELDEEFRRLLASFERALPLRKPSN-LASPELARRIHERSEGLIGE  257 (302)
T ss_pred             HhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCC-CCCHHHHHHHHHHcCCchHH
Confidence            11234566776655543 44433221  11122222 23467899999999998643

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

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=97.75  E-value=3e-05  Score=56.82  Aligned_cols=39  Identities=31%  Similarity=0.445  Sum_probs=25.4

Q ss_pred             eeeEEecCCCCCCCCCcCCCCCCccceeeccCCcccccc
Q 000803          554 KLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLP  592 (1277)
Q Consensus       554 ~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp  592 (1277)
                      +|++|++++|.|+.+|..+++|++|++|++++|.|+.+|
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCCc
Confidence            566777777777777666677777777777777666554

...

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

Probab=97.74  E-value=0.0011  Score=68.41  Aligned_cols=192  Identities=18%  Similarity=0.184  Sum_probs=98.1

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..|||.++-++++.=.+...... +..+-.+-++|++|.||||||.-+++...+.        +-++......-..-+..
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r-~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn--------~k~tsGp~leK~gDlaa   96 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKR-GEALDHVLLFGPPGLGKTTLAHIIANELGVN--------LKITSGPALEKPGDLAA   96 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhc-CCCcCeEEeeCCCCCcHHHHHHHHHHHhcCC--------eEecccccccChhhHHH
Confidence            46999998888876555443322 2567789999999999999999998854332        11221111111111222


Q ss_pred             HHHHhcCCCCC-CCcHHHH----HHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccccccccc
Q 000803          222 LLESITSATCD-LKTVDEV----QVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTM  296 (1277)
Q Consensus       222 il~~l~~~~~~-~~~~~~~----~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~~~  296 (1277)
                      ++..+...+.- .+....+    .+.+.-.+.+-+.=|++.--...     ..+.-.++   +-+-|=.|||.-.+..-+
T Consensus        97 iLt~Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~A-----rsv~ldLp---pFTLIGATTr~G~lt~PL  168 (332)
T COG2255          97 ILTNLEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAA-----RSIRLDLP---PFTLIGATTRAGMLTNPL  168 (332)
T ss_pred             HHhcCCcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCcc-----ceEeccCC---CeeEeeeccccccccchh
Confidence            22222211100 0011111    11111122222222222211000     00111111   123344688876554433


Q ss_pred             CC--CceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHH
Q 000803          297 GP--IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLG  354 (1277)
Q Consensus       297 ~~--~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  354 (1277)
                      ..  .-+.+++..+.+|-.+...+.+.--.    .+..++-+.+|++...|-|--..-+-
T Consensus       169 rdRFGi~~rlefY~~~eL~~Iv~r~a~~l~----i~i~~~~a~eIA~rSRGTPRIAnRLL  224 (332)
T COG2255         169 RDRFGIIQRLEFYTVEELEEIVKRSAKILG----IEIDEEAALEIARRSRGTPRIANRLL  224 (332)
T ss_pred             HHhcCCeeeeecCCHHHHHHHHHHHHHHhC----CCCChHHHHHHHHhccCCcHHHHHHH
Confidence            21  13567888899999888887773211    12335677899999999996554333

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.71  E-value=0.00066  Score=80.99  Aligned_cols=198  Identities=16%  Similarity=0.127  Sum_probs=112.2

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|.+..++.+.+++....     -...+.++|+.|+||||+|+.+++..-...  ..+   +    ...+.-...+.
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~--~~~---~----~pCg~C~~C~~   78 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGR-----INHAYLFSGPRGCGKTSSARILARSLNCAQ--GPT---A----TPCGVCESCVA   78 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcccc--CCC---C----CcccccHHHHH
Confidence            368999999999999886532     234678999999999999999886432211  000   0    00000011111


Q ss_pred             HHHH-------hcCCCCCCCcHHHH---HHHHHHh-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEc-cc
Q 000803          222 LLES-------ITSATCDLKTVDEV---QVQLKKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITT-RN  289 (1277)
Q Consensus       222 il~~-------l~~~~~~~~~~~~~---~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-r~  289 (1277)
                      +...       +..+.......+++   .+.+... ..+++-++|+|++........+.++..+-.......+|++| ..
T Consensus        79 i~~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~  158 (584)
T PRK14952         79 LAPNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEP  158 (584)
T ss_pred             hhcccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCCh
Confidence            1100       00000001122222   2222111 13456688999998877777888877776655566666555 43


Q ss_pred             cccccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchH-HHHHHHhhh
Q 000803          290 SHVAST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL-AAKTLGGLL  357 (1277)
Q Consensus       290 ~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~~L  357 (1277)
                      ..+... ......+.+++++.++..+.+.+.+-....    ....+....|++.++|-+- |+..+-.++
T Consensus       159 ~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi----~i~~~al~~Ia~~s~GdlR~aln~Ldql~  224 (584)
T PRK14952        159 EKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGV----VVDDAVYPLVIRAGGGSPRDTLSVLDQLL  224 (584)
T ss_pred             HhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            333322 122367999999999988888776532211    1224456778999999774 555544433

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.65  E-value=0.0012  Score=77.38  Aligned_cols=181  Identities=14%  Similarity=0.160  Sum_probs=111.2

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccccc------------------CCcce
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS------------------GKFDV  203 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~------------------~~f~~  203 (1277)
                      ..++|-+...+.+...+...     .-..+..++|+.|+||||+|+.+++..-....                  .+++ 
T Consensus        14 deiiGqe~v~~~L~~~I~~g-----rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~d-   87 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNN-----RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHID-   87 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCe-
Confidence            36899988888888888543     22356789999999999999987664321110                  0111 


Q ss_pred             EEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCC
Q 000803          204 KAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAP  279 (1277)
Q Consensus       204 ~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~  279 (1277)
                      ++.+..+.                     ....+++.+.+...    ..+++-++|+|++........+.++..+-....
T Consensus        88 v~eldaas---------------------~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~  146 (535)
T PRK08451         88 IIEMDAAS---------------------NRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPS  146 (535)
T ss_pred             EEEecccc---------------------ccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCC
Confidence            11111111                     11233333333221    124566889999988777777777777765556


Q ss_pred             CcEEEEEcccc-cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          280 NSKMIITTRNS-HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       280 ~s~iivTtr~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      .+++|++|.+. .+.... .....+++.+++.++..+.+...+-..+.    ...++.++.|++.++|.+--+..+
T Consensus       147 ~t~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi----~i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        147 YVKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGV----SYEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             ceEEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCcHHHHHHH
Confidence            67777766553 222111 22357899999999998888766532211    223456778999999988554443

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.64  E-value=0.0014  Score=77.19  Aligned_cols=185  Identities=16%  Similarity=0.148  Sum_probs=105.8

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc-----------------cCCcceE
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-----------------SGKFDVK  204 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-----------------~~~f~~~  204 (1277)
                      ..++|.+.-...+.+++....     -...+.++|+.|+||||+|+.++...-...                 .+.|...
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~-----i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~   90 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQR-----VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDL   90 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcE
Confidence            358899999999988886542     234667899999999999998876432110                 0011112


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEE
Q 000803          205 AWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKM  283 (1277)
Q Consensus       205 ~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~i  283 (1277)
                      +++..+......                  +...+.+.+... ..+++-++|+|+++.......+.+...+........+
T Consensus        91 ~eidaas~~gvd------------------~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~  152 (486)
T PRK14953         91 IEIDAASNRGID------------------DIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIF  152 (486)
T ss_pred             EEEeCccCCCHH------------------HHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEE
Confidence            222211111110                  111222222111 2356679999999776555666666666554445555


Q ss_pred             EEEc-cccccccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          284 IITT-RNSHVAST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       284 ivTt-r~~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      |++| +...+... ......+.+.+++.++....+...+-....    ....+.+..|++.++|.+-.+...
T Consensus       153 Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi----~id~~al~~La~~s~G~lr~al~~  220 (486)
T PRK14953        153 ILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKI----EYEEKALDLLAQASEGGMRDAASL  220 (486)
T ss_pred             EEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            5544 43333221 122246899999999988888776632211    122455677888999976544433

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.64  E-value=0.00052  Score=77.67  Aligned_cols=148  Identities=17%  Similarity=0.169  Sum_probs=82.7

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|.+...+.+..++...     .-..++.++|++|+||||+|+.+++...  .  .   ...++.+. ... ...+.
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~-----~~~~~lll~G~~G~GKT~la~~l~~~~~--~--~---~~~i~~~~-~~~-~~i~~   86 (316)
T PHA02544         21 DECILPAADKETFKSIVKKG-----RIPNMLLHSPSPGTGKTTVAKALCNEVG--A--E---VLFVNGSD-CRI-DFVRN   86 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcC-----CCCeEEEeeCcCCCCHHHHHHHHHHHhC--c--c---ceEeccCc-ccH-HHHHH
Confidence            46899999999999888643     2346788899999999999999987431  1  1   23344333 111 11111


Q ss_pred             HHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccc-cHHhHHhhhcccccCCCCcEEEEEccccccc-ccc-CC
Q 000803          222 LLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNE-DYSLWVDLKAPFLAAAPNSKMIITTRNSHVA-STM-GP  298 (1277)
Q Consensus       222 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~-~~~-~~  298 (1277)
                      .+..+..             ..  .+.+.+-++|+||+... .......+...+.....++++|+||...... ..+ ..
T Consensus        87 ~l~~~~~-------------~~--~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR  151 (316)
T PHA02544         87 RLTRFAS-------------TV--SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSR  151 (316)
T ss_pred             HHHHHHH-------------hh--cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhh
Confidence            1111100             00  01134557889999754 2222233333333345677888888653211 111 11


Q ss_pred             CceeecCCCCHHHHHHHHHH
Q 000803          299 IDHYNLEHLLDDDCWSIFKT  318 (1277)
Q Consensus       299 ~~~~~l~~L~~~~~~~Lf~~  318 (1277)
                      ...+.++..+.++..+++..
T Consensus       152 ~~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        152 CRVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             ceEEEeCCCCHHHHHHHHHH
Confidence            23566767777777665543

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.62  E-value=0.0011  Score=80.34  Aligned_cols=195  Identities=14%  Similarity=0.167  Sum_probs=109.7

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|.+..+..+..++....     -...+.++|+.|+||||+|+.+++..-...  ... .    .......-...+.
T Consensus        16 ~~liGq~~i~~~L~~~l~~~r-----l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~--~~~-~----~~~~Cg~C~~C~~   83 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNR-----IAPAYLFTGPRGTGKTSSARILAKSLNCLN--SDK-P----TPEPCGKCELCRA   83 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCChHHHHHHHHHHhcCCC--cCC-C----CCCCCcccHHHHH
Confidence            358899999999888886542     224678999999999999999987542211  000 0    0011111122222


Q ss_pred             HHHHhcC-----CCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc-cc
Q 000803          222 LLESITS-----ATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-SH  291 (1277)
Q Consensus       222 il~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~-~~  291 (1277)
                      +......     ........+++.+.+...    ..+++-++|+|++.......++.+...+-.......+|++|.+ ..
T Consensus        84 i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~  163 (620)
T PRK14948         84 IAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQR  163 (620)
T ss_pred             HhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhh
Confidence            2211110     000112233333333221    1345668899999877767777777766654445555555443 33


Q ss_pred             ccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHH
Q 000803          292 VASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKT  352 (1277)
Q Consensus       292 v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  352 (1277)
                      +...+ .....+.+..++.++....+.+.+-....    ....+.+..|++.++|.+..+..
T Consensus       164 llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi----~is~~al~~La~~s~G~lr~A~~  221 (620)
T PRK14948        164 VLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESI----EIEPEALTLVAQRSQGGLRDAES  221 (620)
T ss_pred             hhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCC----CCCHHHHHHHHHHcCCCHHHHHH
Confidence            32221 22356788899999888777765532111    11234567899999998765443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.62  E-value=0.001  Score=77.76  Aligned_cols=181  Identities=13%  Similarity=0.166  Sum_probs=105.9

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc-------------------cCCcc
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-------------------SGKFD  202 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-------------------~~~f~  202 (1277)
                      ..++|.+..++.+.+++....     -...+.++|+.|+||||+|+.+.+..-...                   +.+++
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~-----i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d   91 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNR-----AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD   91 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc
Confidence            368899999998888886532     235678999999999999998876432110                   00111


Q ss_pred             eEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHH---HHHHH-hhcCceEEEEecCcccccHHhHHhhhcccccCC
Q 000803          203 VKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQ---VQLKK-AVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAA  278 (1277)
Q Consensus       203 ~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~---~~l~~-~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~  278 (1277)
                       .+++.....                     ...+++.   +.+.. -..+++-++|+|++........+.+...+-...
T Consensus        92 -~~~i~g~~~---------------------~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~  149 (451)
T PRK06305         92 -VLEIDGASH---------------------RGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPP  149 (451)
T ss_pred             -eEEeecccc---------------------CCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCC
Confidence             111111111                     1112221   11111 113566788999997665555666666665544


Q ss_pred             CCcEEEEEccc-ccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchH-HHHHH
Q 000803          279 PNSKMIITTRN-SHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL-AAKTL  353 (1277)
Q Consensus       279 ~~s~iivTtr~-~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  353 (1277)
                      .+..+|++|.. ..+...+ .....+++.++++++....+...+-...    .....+.++.|++.++|.+- |+..+
T Consensus       150 ~~~~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg----~~i~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        150 QHVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEG----IETSREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             CCceEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            56666666533 3332221 2235689999999998888877653211    11234567789999999664 44444

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.61  E-value=0.0021  Score=75.12  Aligned_cols=161  Identities=15%  Similarity=0.142  Sum_probs=92.2

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVD  248 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  248 (1277)
                      ...+.|+|..|+|||+||+++++....+.  .-..+++++.      .+...++...+...     ..+...    +.++
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~--~~~~v~yi~~------~~~~~~~~~~~~~~-----~~~~~~----~~~~  198 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENN--PNAKVVYVSS------EKFTNDFVNALRNN-----KMEEFK----EKYR  198 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhC--CCCcEEEEEH------HHHHHHHHHHHHcC-----CHHHHH----HHHH
Confidence            34688999999999999999998543221  1123556653      23344444444321     222222    2232


Q ss_pred             CceEEEEecCcccccHH-hH-Hhhhccccc-CCCCcEEEEEcccc---------ccccccCCCceeecCCCCHHHHHHHH
Q 000803          249 GKRFLLVLDDVWNEDYS-LW-VDLKAPFLA-AAPNSKMIITTRNS---------HVASTMGPIDHYNLEHLLDDDCWSIF  316 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~~~-~~-~~l~~~l~~-~~~~s~iivTtr~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf  316 (1277)
                      + .-+||+||++..... .+ ..+...+.. ...+..+|+|+...         .+...+.....+.+++.+.++-.+++
T Consensus       199 ~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il  277 (405)
T TIGR00362       199 S-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAIL  277 (405)
T ss_pred             h-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHH
Confidence            2 238889999642211 11 122222211 12355688877642         12233333346899999999999999


Q ss_pred             HHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHH
Q 000803          317 KTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  351 (1277)
                      .+.+-...    ....+++...|++.+.|..-.+.
T Consensus       278 ~~~~~~~~----~~l~~e~l~~ia~~~~~~~r~l~  308 (405)
T TIGR00362       278 QKKAEEEG----LELPDEVLEFIAKNIRSNVRELE  308 (405)
T ss_pred             HHHHHHcC----CCCCHHHHHHHHHhcCCCHHHHH
Confidence            98874321    12335677788888888765433

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).

>PRK06620 hypothetical protein; Validated

Probab=97.61  E-value=0.00088  Score=69.85  Aligned_cols=136  Identities=14%  Similarity=0.039  Sum_probs=79.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      +.+.|+|++|+|||+|++.+++...         ..++.  ..+..                     +       +.. .
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~---------~~~~~--~~~~~---------------------~-------~~~-~   84 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN---------AYIIK--DIFFN---------------------E-------EIL-E   84 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC---------CEEcc--hhhhc---------------------h-------hHH-h
Confidence            5689999999999999999876431         11111  00000                     0       011 1


Q ss_pred             ceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccccc-------ccccCCCceeecCCCCHHHHHHHHHHhhcC
Q 000803          250 KRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHV-------ASTMGPIDHYNLEHLLDDDCWSIFKTHAFE  322 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v-------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~  322 (1277)
                      ..-++++||+..........+...+.  ..|..||+|++....       .+.+...-.++++++++++-.+++.+.+..
T Consensus        85 ~~d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~  162 (214)
T PRK06620         85 KYNAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSI  162 (214)
T ss_pred             cCCEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHH
Confidence            23478899996322111112211122  346789999875432       222333457999999999988888777642


Q ss_pred             CCCCCchhhHHHHHHHHHhhcCCchHHHH
Q 000803          323 GRDHNALEISESFRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       323 ~~~~~~~~~~~~~~~~i~~~c~glPLai~  351 (1277)
                      . .   ....+++.+-|++.+.|---.+.
T Consensus       163 ~-~---l~l~~ev~~~L~~~~~~d~r~l~  187 (214)
T PRK06620        163 S-S---VTISRQIIDFLLVNLPREYSKII  187 (214)
T ss_pred             c-C---CCCCHHHHHHHHHHccCCHHHHH
Confidence            1 1   12335677778888887654443

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.60  E-value=0.00093  Score=72.77  Aligned_cols=159  Identities=15%  Similarity=0.101  Sum_probs=80.4

Q ss_pred             ccccchhhHHHHHHHHhc---c------cccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc
Q 000803          143 VVFGREEDKTKILEMVLT---D------TAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF  213 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~---~------~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~  213 (1277)
                      .++|.++.++++.+....   .      .....+...-+.++|++|+||||+|+.+++......  .-....++.++.. 
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~--~~~~~~~v~~~~~-   83 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMN--VLSKGHLIEVERA-   83 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcC--cccCCceEEecHH-
Confidence            478888777666543211   1      011113456788999999999999999976421110  1111122332221 


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc--------HHhHHhhhcccccCCCCcEEEE
Q 000803          214 DVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED--------YSLWVDLKAPFLAAAPNSKMII  285 (1277)
Q Consensus       214 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~~s~iiv  285 (1277)
                         ++    .....+     .........+.+.   ..-+|++|++..-.        .+..+.+...+........+|+
T Consensus        84 ---~l----~~~~~g-----~~~~~~~~~~~~a---~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vil  148 (261)
T TIGR02881        84 ---DL----VGEYIG-----HTAQKTREVIKKA---LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLIL  148 (261)
T ss_pred             ---Hh----hhhhcc-----chHHHHHHHHHhc---cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEe
Confidence               11    111100     1112222223222   13488999996421        1223334443333333345556


Q ss_pred             Ecccccc----------ccccCCCceeecCCCCHHHHHHHHHHhhc
Q 000803          286 TTRNSHV----------ASTMGPIDHYNLEHLLDDDCWSIFKTHAF  321 (1277)
Q Consensus       286 Ttr~~~v----------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  321 (1277)
                      ++...+.          ...+  ...+.+++++.++-.+++.+.+.
T Consensus       149 a~~~~~~~~~~~~~p~L~sRf--~~~i~f~~~~~~el~~Il~~~~~  192 (261)
T TIGR02881       149 AGYSDEMDYFLSLNPGLRSRF--PISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             cCCcchhHHHHhcChHHHhcc--ceEEEECCCCHHHHHHHHHHHHH
Confidence            6544322          1111  24578899999999999987764

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.

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

Probab=97.60  E-value=0.00038  Score=87.31  Aligned_cols=159  Identities=15%  Similarity=0.170  Sum_probs=84.4

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccccc--CCcceEEEEEeCCCcCHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS--GKFDVKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~--~~f~~~~wv~~s~~~~~~~~~  219 (1277)
                      ..++||+++++++++.|.....      .-+.++|++|+|||++|+.+++.......  ...+..+|..     +...+.
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~------~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~-----~~~~l~  250 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKK------NNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSL-----DMGSLL  250 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCC------CceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEe-----cHHHHh
Confidence            3589999999999988865422      23579999999999999999875321110  0112334421     111111


Q ss_pred             HHHHHHhcCCCCCCCcHHH-HHHHHHHhhcCceEEEEecCccccc--------HHhHHhhhcccccCCCCcEEEEEcccc
Q 000803          220 KALLESITSATCDLKTVDE-VQVQLKKAVDGKRFLLVLDDVWNED--------YSLWVDLKAPFLAAAPNSKMIITTRNS  290 (1277)
Q Consensus       220 ~~il~~l~~~~~~~~~~~~-~~~~l~~~l~~kr~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~~s~iivTtr~~  290 (1277)
                          .   +... ..+.++ +...+.+.-+.++.+|++|++..-.        ..+-..+..+....+ .-++|-+|...
T Consensus       251 ----a---~~~~-~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g-~i~~IgaTt~~  321 (731)
T TIGR02639       251 ----A---GTKY-RGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSG-KLRCIGSTTYE  321 (731)
T ss_pred             ----h---hccc-cchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCC-CeEEEEecCHH
Confidence                0   0000 012222 2222222223468899999995321        011112222222221 23455555432


Q ss_pred             ccccc-------cCCCceeecCCCCHHHHHHHHHHhh
Q 000803          291 HVAST-------MGPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       291 ~v~~~-------~~~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      +....       ......+.+++++.++..+++....
T Consensus       322 e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       322 EYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            22111       1223578999999999999998654

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.60  E-value=0.0013  Score=76.83  Aligned_cols=160  Identities=17%  Similarity=0.115  Sum_probs=92.8

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcc-eEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFD-VKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAV  247 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~-~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  247 (1277)
                      ..-+.|+|..|+|||+||+++++.....   +.. .++|++.      .++..++...+...     ..++    +++.+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~---~~~~~v~yi~~------~~f~~~~~~~~~~~-----~~~~----f~~~~  191 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQN---EPDLRVMYITS------EKFLNDLVDSMKEG-----KLNE----FREKY  191 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHh---CCCCeEEEEEH------HHHHHHHHHHHhcc-----cHHH----HHHHH
Confidence            3458999999999999999999864322   222 4566654      34455555554321     1222    23333


Q ss_pred             cCceEEEEecCccccc-HHhH-Hhhhccccc-CCCCcEEEEEccc-c--------ccccccCCCceeecCCCCHHHHHHH
Q 000803          248 DGKRFLLVLDDVWNED-YSLW-VDLKAPFLA-AAPNSKMIITTRN-S--------HVASTMGPIDHYNLEHLLDDDCWSI  315 (1277)
Q Consensus       248 ~~kr~LlVlDdv~~~~-~~~~-~~l~~~l~~-~~~~s~iivTtr~-~--------~v~~~~~~~~~~~l~~L~~~~~~~L  315 (1277)
                      ..+.-+||+||++... ...+ ..+...+.. ...|..||+||.. +        .+.+.+...-.+.+++.+.++-.++
T Consensus       192 ~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~I  271 (440)
T PRK14088        192 RKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKI  271 (440)
T ss_pred             HhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHH
Confidence            3345589999996421 0111 122222211 1234578888752 2        1223333345788999999999999


Q ss_pred             HHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          316 FKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       316 f~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      +.+.+-...    ....+++...|++.+.|.--.+
T Consensus       272 L~~~~~~~~----~~l~~ev~~~Ia~~~~~~~R~L  302 (440)
T PRK14088        272 ARKMLEIEH----GELPEEVLNFVAENVDDNLRRL  302 (440)
T ss_pred             HHHHHHhcC----CCCCHHHHHHHHhccccCHHHH
Confidence            988874221    1233567778888888765443

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.56  E-value=0.0017  Score=78.74  Aligned_cols=178  Identities=15%  Similarity=0.190  Sum_probs=109.1

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccc-------------------ccCCcc
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVE-------------------DSGKFD  202 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~-------------------~~~~f~  202 (1277)
                      ..++|.+...+.+.+++....     -...+.++|+.|+||||+|+.+....-..                   ...+|+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~-----l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n   91 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNK-----LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN   91 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc
Confidence            368899999999999886532     23568899999999999998876643211                   011232


Q ss_pred             eEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCC
Q 000803          203 VKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAA  278 (1277)
Q Consensus       203 ~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~  278 (1277)
                      . ..+..+..                     ...+++...+.+.    ..+++=++|+|++.......++.+...+-.-.
T Consensus        92 ~-~~ld~~~~---------------------~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp  149 (614)
T PRK14971         92 I-HELDAASN---------------------NSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPP  149 (614)
T ss_pred             e-EEeccccc---------------------CCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCC
Confidence            2 12222111                     1122332222211    12445588999998877777888877776555


Q ss_pred             CCcEEEEEc-ccccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          279 PNSKMIITT-RNSHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       279 ~~s~iivTt-r~~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      .++.+|++| +...+...+ .....+++.+++.++....+.+.+-..+-    ....+.+..|++.++|-.--+
T Consensus       150 ~~tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi----~i~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        150 SYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGI----TAEPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             CCeEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHH
Confidence            566665544 444443322 22357899999999998888776532211    122455678999999966533

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.55  E-value=0.00051  Score=86.68  Aligned_cols=185  Identities=14%  Similarity=0.149  Sum_probs=96.5

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc--cCCcceEEE-EEeCCCcCHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAW-VCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~--~~~f~~~~w-v~~s~~~~~~~~  218 (1277)
                      ..++||+.++.++++.|.....      .-+.++|.+|+||||+|+.+++......  ..-.+..+| +..+.       
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~------~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~-------  253 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQ------NNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGL-------  253 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCc------CceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhh-------
Confidence            4689999999999998866432      2456999999999999999887432111  001122333 22211       


Q ss_pred             HHHHHHHhcCCCCCCCcH-HHHHHHHHHhh-cCceEEEEecCccccc-------HHhHHhhhcccccCCCCcEEEEEccc
Q 000803          219 SKALLESITSATCDLKTV-DEVQVQLKKAV-DGKRFLLVLDDVWNED-------YSLWVDLKAPFLAAAPNSKMIITTRN  289 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~-~~~~~~l~~~l-~~kr~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~~s~iivTtr~  289 (1277)
                             +........+. +.+...+.+.- .+++.+|++|++....       ..+-..+..+.... ..-++|-||..
T Consensus       254 -------l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~-G~l~~IgaTT~  325 (852)
T TIGR03345       254 -------LQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR-GELRTIAATTW  325 (852)
T ss_pred             -------hhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhC-CCeEEEEecCH
Confidence                   00000001111 12222222222 2468999999985421       11111123332222 23456666665


Q ss_pred             cccccc-------cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch
Q 000803          290 SHVAST-------MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP  347 (1277)
Q Consensus       290 ~~v~~~-------~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  347 (1277)
                      .+....       ......+.+++++.+++.+++....-.-..........+....+++.+.++.
T Consensus       326 ~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi  390 (852)
T TIGR03345       326 AEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYI  390 (852)
T ss_pred             HHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccccc
Confidence            433211       1233579999999999999975443211111111223444556666666543

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.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.51  E-value=0.003  Score=69.99  Aligned_cols=196  Identities=13%  Similarity=0.107  Sum_probs=112.0

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccc------------ccCCcceEEEEEeC
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVE------------DSGKFDVKAWVCVS  210 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~------------~~~~f~~~~wv~~s  210 (1277)
                      .++|.+..++.+.+.+....     -....-++|+.|+||+++|..+.+..-..            ...|- -..|+.-.
T Consensus         5 ~iiGq~~~~~~L~~~i~~~r-----l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hP-Dl~~i~p~   78 (314)
T PRK07399          5 NLIGQPLAIELLTAAIKQNR-----IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHP-DLLWVEPT   78 (314)
T ss_pred             HhCCHHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCC-CEEEEecc
Confidence            57899999999998886642     23689999999999999997776532111            11122 23343211


Q ss_pred             CCcCHHHHHHHHHHHhc--CCCCCCCcHHHHHHHHHHhh-----cCceEEEEecCcccccHHhHHhhhcccccCCCCcEE
Q 000803          211 DDFDVLSISKALLESIT--SATCDLKTVDEVQVQLKKAV-----DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKM  283 (1277)
Q Consensus       211 ~~~~~~~~~~~il~~l~--~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~i  283 (1277)
                      ...+...+...-++..+  ........++++. .+.+.+     .+++-++|+|++...+....+.++..+-.-. .+.+
T Consensus        79 ~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir-~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~f  156 (314)
T PRK07399         79 YQHQGKLITASEAEEAGLKRKAPPQIRLEQIR-EIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTL  156 (314)
T ss_pred             ccccccccchhhhhhccccccccccCcHHHHH-HHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeE
Confidence            00000001011111111  1111122334432 333333     3567789999998887777777777765444 4455


Q ss_pred             EEEcc-cccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          284 IITTR-NSHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       284 ivTtr-~~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      |++|. ...+...+ .....+.+.++++++..+.+.......   .    .......++..++|.|..+..+
T Consensus       157 ILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~---~----~~~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        157 ILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEE---I----LNINFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             EEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccc---c----chhHHHHHHHHcCCCHHHHHHH
Confidence            55544 33333322 233679999999999999988764211   0    0111357889999999765543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.51  E-value=0.00038  Score=88.45  Aligned_cols=157  Identities=15%  Similarity=0.157  Sum_probs=85.1

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccC--CcceEEEEEeCCCcCHHHHHH
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSG--KFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~--~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      .++||+++++++++.|.....      .-+.++|++|+|||++|..++.........  .-+..+|.-     +...+  
T Consensus       180 ~~igr~~ei~~~~~~L~r~~~------~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l-----~~~~l--  246 (821)
T CHL00095        180 PVIGREKEIERVIQILGRRTK------NNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITL-----DIGLL--  246 (821)
T ss_pred             CCCCcHHHHHHHHHHHccccc------CCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEe-----eHHHH--
Confidence            589999999999999976432      235699999999999999887754211100  012344421     11111  


Q ss_pred             HHHHHhcCCCCCCCcHH-HHHHHHHHhhcCceEEEEecCccccc-------HHhHHhhhcccccCCCCcEEEEEcccccc
Q 000803          221 ALLESITSATCDLKTVD-EVQVQLKKAVDGKRFLLVLDDVWNED-------YSLWVDLKAPFLAAAPNSKMIITTRNSHV  292 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~-~~~~~l~~~l~~kr~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~~s~iivTtr~~~v  292 (1277)
                           +.+.... .+.+ .+...+.+.-..++.+|++|++..--       ..+-..+..+....+ .-++|.+|...+.
T Consensus       247 -----~ag~~~~-ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg-~l~~IgaTt~~ey  319 (821)
T CHL00095        247 -----LAGTKYR-GEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARG-ELQCIGATTLDEY  319 (821)
T ss_pred             -----hccCCCc-cHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC-CcEEEEeCCHHHH
Confidence                 1111111 1222 22333333334568999999994210       001122222222222 2455656555443


Q ss_pred             cc-------ccCCCceeecCCCCHHHHHHHHHHh
Q 000803          293 AS-------TMGPIDHYNLEHLLDDDCWSIFKTH  319 (1277)
Q Consensus       293 ~~-------~~~~~~~~~l~~L~~~~~~~Lf~~~  319 (1277)
                      ..       ......++.+...+.++...++...
T Consensus       320 ~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        320 RKHIEKDPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HHHHhcCHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence            21       1123356888889999988887643

>CHL00181 cbbX CbbX; Provisional

Probab=97.49  E-value=0.0025  Score=69.73  Aligned_cols=161  Identities=18%  Similarity=0.139  Sum_probs=82.8

Q ss_pred             ccccchhhHHHHHHHH---hccc-----c-cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc
Q 000803          143 VVFGREEDKTKILEMV---LTDT-----A-ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF  213 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L---~~~~-----~-~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~  213 (1277)
                      .++|-++.++++.++.   ....     . ........+.++|++|+||||+|+.+++......  .-...-|+.++.. 
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g--~~~~~~~~~v~~~-  100 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLG--YIKKGHLLTVTRD-  100 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcC--CCCCCceEEecHH-
Confidence            5778776666554432   1110     0 0011234578999999999999999976421111  1111124444421 


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccc---------cHHhHHhhhcccccCCCCcEEE
Q 000803          214 DVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNE---------DYSLWVDLKAPFLAAAPNSKMI  284 (1277)
Q Consensus       214 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~~s~ii  284 (1277)
                         .    +.....+..     .......+.+.   ..-+|++|++..-         ..+.-..+...+.....+.+||
T Consensus       101 ---~----l~~~~~g~~-----~~~~~~~l~~a---~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI  165 (287)
T CHL00181        101 ---D----LVGQYIGHT-----APKTKEVLKKA---MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVI  165 (287)
T ss_pred             ---H----HHHHHhccc-----hHHHHHHHHHc---cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEE
Confidence               1    222221111     11222233332   2348999999541         1122233333343444556777


Q ss_pred             EEcccccccccc--------CCCceeecCCCCHHHHHHHHHHhhc
Q 000803          285 ITTRNSHVASTM--------GPIDHYNLEHLLDDDCWSIFKTHAF  321 (1277)
Q Consensus       285 vTtr~~~v~~~~--------~~~~~~~l~~L~~~~~~~Lf~~~~~  321 (1277)
                      +++....+....        .....+.+++++.+|..+++...+-
T Consensus       166 ~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~  210 (287)
T CHL00181        166 FAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLE  210 (287)
T ss_pred             EeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHH
Confidence            777543321111        1224688999999999999887763

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

Probab=97.49  E-value=0.00033  Score=79.17  Aligned_cols=110  Identities=16%  Similarity=0.183  Sum_probs=73.0

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..+++.++..+.+...|...        +.+.++|++|+|||++|+++++......  .|+.+.||++++.++..+....
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--------~~iil~GppGtGKT~lA~~la~~l~~~~--~~~~v~~VtFHpsySYeDFI~G  244 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--------KNIILQGPPGVGKTFVARRLAYLLTGEK--APQRVNMVQFHQSYSYEDFIQG  244 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--------CCEEEECCCCCCHHHHHHHHHHHhcCCc--ccceeeEEeecccccHHHHhcc
Confidence            35788899999999988643        3578899999999999999988654333  6788899999988876655432


Q ss_pred             HHHHhcCCCCCCC-cHHHHHHHHHHhhc--CceEEEEecCcccccHH
Q 000803          222 LLESITSATCDLK-TVDEVQVQLKKAVD--GKRFLLVLDDVWNEDYS  265 (1277)
Q Consensus       222 il~~l~~~~~~~~-~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~~  265 (1277)
                      +    ......-. ......+.+++..+  ++++++|+|++...+..
T Consensus       245 ~----rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~  287 (459)
T PRK11331        245 Y----RPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLS  287 (459)
T ss_pred             c----CCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHH
Confidence            2    11110000 00112223333322  46899999999776544

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.48  E-value=0.0025  Score=76.31  Aligned_cols=192  Identities=16%  Similarity=0.146  Sum_probs=110.3

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccC-CcceEEEEEeCCCcCHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSG-KFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~-~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      ..++|-+..++.+..++....     -...+.++|+.|+||||+|+.+++..-..... .+.|          ..-...+
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~-----i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC----------~~C~~C~   80 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNK-----IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPC----------GECSSCK   80 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCC----------ccchHHH
Confidence            368899999999988886542     23578899999999999999998743221100 0000          0000001


Q ss_pred             HHHHHhcC-----CCCCCCcHHHHHHHH---HH-hhcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc-c
Q 000803          221 ALLESITS-----ATCDLKTVDEVQVQL---KK-AVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-S  290 (1277)
Q Consensus       221 ~il~~l~~-----~~~~~~~~~~~~~~l---~~-~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~-~  290 (1277)
                      ++...-..     ........+++....   .. -..+++-++|+|++.......++.+...+-.......+|.+|.. .
T Consensus        81 ~i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~  160 (563)
T PRK06647         81 SIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVH  160 (563)
T ss_pred             HHHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChH
Confidence            11110000     000012233332222   11 12356668999999887767777887776655556666666543 3


Q ss_pred             cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHH
Q 000803          291 HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKT  352 (1277)
Q Consensus       291 ~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  352 (1277)
                      .+...+ .....++.++++.++..+.+...+.....    ...++.+..|++.++|.+-.+..
T Consensus       161 kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi----~id~eAl~lLa~~s~GdlR~als  219 (563)
T PRK06647        161 KLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQI----KYEDEALKWIAYKSTGSVRDAYT  219 (563)
T ss_pred             HhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHH
Confidence            332211 22346889999999988888776643211    22345667799999998754433

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.48  E-value=0.0014  Score=75.52  Aligned_cols=157  Identities=17%  Similarity=0.141  Sum_probs=86.7

Q ss_pred             CccccchhhHHHHHHHHhcccc-------cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC
Q 000803          142 PVVFGREEDKTKILEMVLTDTA-------ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~  214 (1277)
                      ..+.|+++.++++.+.+...-.       .+-...+-|.++|++|+|||++|+++++....    .|     +.++.   
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~----~~-----i~v~~---  198 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA----TF-----IRVVG---  198 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCC----CE-----EEeeh---
Confidence            4688999999998887632110       00123456889999999999999999874321    22     22211   


Q ss_pred             HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH-hhcCceEEEEecCcccc-----------cHHhHHhhhccc---cc--C
Q 000803          215 VLSISKALLESITSATCDLKTVDEVQVQLKK-AVDGKRFLLVLDDVWNE-----------DYSLWVDLKAPF---LA--A  277 (1277)
Q Consensus       215 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~~-----------~~~~~~~l~~~l---~~--~  277 (1277)
                       ..+.    ....+      ......+.+.+ .-...+.+|+|||++.-           +...+..+...+   ..  .
T Consensus       199 -~~l~----~~~~g------~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~  267 (389)
T PRK03992        199 -SELV----QKFIG------EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDP  267 (389)
T ss_pred             -HHHh----Hhhcc------chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCC
Confidence             1111    11100      01112222222 22346789999999642           111111122211   11  1


Q ss_pred             CCCcEEEEEccccccccc-c----CCCceeecCCCCHHHHHHHHHHhhc
Q 000803          278 APNSKMIITTRNSHVAST-M----GPIDHYNLEHLLDDDCWSIFKTHAF  321 (1277)
Q Consensus       278 ~~~s~iivTtr~~~v~~~-~----~~~~~~~l~~L~~~~~~~Lf~~~~~  321 (1277)
                      ..+.+||.||...+.... +    .-...+.+++.+.++..++|+.++.
T Consensus       268 ~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~  316 (389)
T PRK03992        268 RGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTR  316 (389)
T ss_pred             CCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhc
Confidence            235677777765432221 1    1234689999999999999988764

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.46  E-value=0.0062  Score=62.41  Aligned_cols=179  Identities=17%  Similarity=0.203  Sum_probs=104.9

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEe-CCCcCHHHHHHHHHHHhcCCCCCCCcH----HHHHHH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCV-SDDFDVLSISKALLESITSATCDLKTV----DEVQVQ  242 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~-s~~~~~~~~~~~il~~l~~~~~~~~~~----~~~~~~  242 (1277)
                      +.+++.++|.-|.|||.+++.......  .    +.++-|.+ .+......+...+...+..+.  ....    +++.+.
T Consensus        50 ~qg~~~vtGevGsGKTv~~Ral~~s~~--~----d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p--~~~~~~~~e~~~~~  121 (269)
T COG3267          50 GQGILAVTGEVGSGKTVLRRALLASLN--E----DQVAVVVIDKPTLSDATLLEAIVADLESQP--KVNVNAVLEQIDRE  121 (269)
T ss_pred             CCceEEEEecCCCchhHHHHHHHHhcC--C----CceEEEEecCcchhHHHHHHHHHHHhccCc--cchhHHHHHHHHHH
Confidence            446999999999999999995543211  1    11222333 344567777788887777632  2233    333344


Q ss_pred             HHHhh-cCce-EEEEecCcccccHHhHHhhhcccccCCCC---cEEEEEcccc--------ccccccCCCce-eecCCCC
Q 000803          243 LKKAV-DGKR-FLLVLDDVWNEDYSLWVDLKAPFLAAAPN---SKMIITTRNS--------HVASTMGPIDH-YNLEHLL  308 (1277)
Q Consensus       243 l~~~l-~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~~~~---s~iivTtr~~--------~v~~~~~~~~~-~~l~~L~  308 (1277)
                      +.... +++| ..++.|+..+......+.++....-...+   -+|+..-..+        .....-..... |.+.|++
T Consensus       122 L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~  201 (269)
T COG3267         122 LAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLT  201 (269)
T ss_pred             HHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcC
Confidence            44333 5677 99999999776555555544332211111   1233322211        00000011123 8999999


Q ss_pred             HHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHh
Q 000803          309 DDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGG  355 (1277)
Q Consensus       309 ~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  355 (1277)
                      .++...++..+.-+... +.+-...+....|..+..|.|.+|.-++.
T Consensus       202 ~~~t~~yl~~~Le~a~~-~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         202 EAETGLYLRHRLEGAGL-PEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             hHHHHHHHHHHHhccCC-CcccCChhHHHHHHHHhccchHHHHHHHH
Confidence            99999988887755422 22222345566799999999999987753

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.45  E-value=0.00078  Score=70.29  Aligned_cols=183  Identities=15%  Similarity=0.184  Sum_probs=111.6

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEE-EEeCCCcCHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAW-VCVSDDFDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~w-v~~s~~~~~~~~~~  220 (1277)
                      ..++|.+..+..+.+.+..      ...++...+|++|.|||+-|..++...-..+  .|.+++- .++|+.-... +.+
T Consensus        36 de~~gQe~vV~~L~~a~~~------~~lp~~LFyGPpGTGKTStalafar~L~~~~--~~~~rvl~lnaSderGis-vvr  106 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLR------RILPHYLFYGPPGTGKTSTALAFARALNCEQ--LFPCRVLELNASDERGIS-VVR  106 (346)
T ss_pred             HhhcchHHHHHHHHHHHhh------cCCceEEeeCCCCCcHhHHHHHHHHHhcCcc--ccccchhhhccccccccc-chh
Confidence            4688999999988888866      2357889999999999999988876543333  5555432 3444432221 111


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHhh--cCce-EEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-cccccc
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAV--DGKR-FLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM  296 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l--~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~~~  296 (1277)
                      +-.          .+.+.+........  .-++ =.+|||+++....+.|..+...+-.....++.|..+..- .+...+
T Consensus       107 ~Ki----------k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi  176 (346)
T KOG0989|consen  107 EKI----------KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPL  176 (346)
T ss_pred             hhh----------cCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHH
Confidence            100          01111110000000  0123 478899999999999999998887766677765554432 222111


Q ss_pred             -CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch
Q 000803          297 -GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP  347 (1277)
Q Consensus       297 -~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  347 (1277)
                       ..-..|..++|.+++...-+...+-..+-    ....+..+.|++.++|--
T Consensus       177 ~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v----~~d~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  177 VSRCQKFRFKKLKDEDIVDRLEKIASKEGV----DIDDDALKLIAKISDGDL  224 (346)
T ss_pred             HhhHHHhcCCCcchHHHHHHHHHHHHHhCC----CCCHHHHHHHHHHcCCcH
Confidence             11245889999999988888777743222    223455677999998853

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.45  E-value=0.0025  Score=69.92  Aligned_cols=161  Identities=17%  Similarity=0.117  Sum_probs=82.6

Q ss_pred             ccccchhhHHHHHHHHh---ccc-----c-cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc
Q 000803          143 VVFGREEDKTKILEMVL---TDT-----A-ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF  213 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~---~~~-----~-~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~  213 (1277)
                      .++|-++.++++.+...   ...     . .......-+.++|++|+|||++|+.++.......  ......|+.++.  
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g--~~~~~~~v~v~~--   98 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLG--YVRKGHLVSVTR--   98 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcC--CcccceEEEecH--
Confidence            47887777666544321   110     0 0001123578999999999999977765321111  111122444442  


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccc---------cHHhHHhhhcccccCCCCcEEE
Q 000803          214 DVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNE---------DYSLWVDLKAPFLAAAPNSKMI  284 (1277)
Q Consensus       214 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~~s~ii  284 (1277)
                        .    ++...+.+..     .......+.+.   ..-+|+||++..-         ....+..+...+.....+.+||
T Consensus        99 --~----~l~~~~~g~~-----~~~~~~~~~~a---~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI  164 (284)
T TIGR02880        99 --D----DLVGQYIGHT-----APKTKEILKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVI  164 (284)
T ss_pred             --H----HHhHhhcccc-----hHHHHHHHHHc---cCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEE
Confidence              1    1222222211     12222233332   2358899999622         1223344444444444566777


Q ss_pred             EEcccccccccc--------CCCceeecCCCCHHHHHHHHHHhhc
Q 000803          285 ITTRNSHVASTM--------GPIDHYNLEHLLDDDCWSIFKTHAF  321 (1277)
Q Consensus       285 vTtr~~~v~~~~--------~~~~~~~l~~L~~~~~~~Lf~~~~~  321 (1277)
                      +++.........        .....+.+++++.+|-.+++...+-
T Consensus       165 ~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~  209 (284)
T TIGR02880       165 LAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLK  209 (284)
T ss_pred             EeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHH
Confidence            776543221111        1124689999999999999887763

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.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.44  E-value=0.0025  Score=71.03  Aligned_cols=158  Identities=16%  Similarity=0.147  Sum_probs=94.3

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccc------------------cCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCC
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVED------------------SGKFDVKAWVCVSDDFDVLSISKALLESITSAT  230 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~------------------~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~  230 (1277)
                      ...+.++|+.|+||||+|..++...-...                  +.|-| ..|+.-..                  .
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD-~~~i~~~~------------------~   82 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPD-NFVLEPEE------------------A   82 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccC------------------C
Confidence            45688999999999999988876432211                  00111 11221100                  0


Q ss_pred             CCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccccc-cccc-cCCCceeec
Q 000803          231 CDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSH-VAST-MGPIDHYNL  304 (1277)
Q Consensus       231 ~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~-v~~~-~~~~~~~~l  304 (1277)
                      .....++++.+.+...    ..+++-++|+|+++..+....+.+...+-.-..++.+|+||.+.+ +... .+....+.+
T Consensus        83 ~~~i~id~iR~l~~~~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~  162 (328)
T PRK05707         83 DKTIKVDQVRELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQAC  162 (328)
T ss_pred             CCCCCHHHHHHHHHHHhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeC
Confidence            0112334443322211    123444556799998888888888887766556777777777653 3322 122356899


Q ss_pred             CCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          305 EHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       305 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      .+++.+++.+.+......        ..++.+..++..++|.|..+..+
T Consensus       163 ~~~~~~~~~~~L~~~~~~--------~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        163 PLPSNEESLQWLQQALPE--------SDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             CCcCHHHHHHHHHHhccc--------CChHHHHHHHHHcCCCHHHHHHH
Confidence            999999999888765311        01233456789999999765544

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.43  E-value=0.0027  Score=75.15  Aligned_cols=160  Identities=15%  Similarity=0.147  Sum_probs=92.3

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVD  248 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  248 (1277)
                      ..-+.|+|..|+|||+||+.+++......  .--.+++++..      .+..++...+...     ..+.    +.+.++
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~--~~~~v~yi~~~------~~~~~~~~~~~~~-----~~~~----~~~~~~  210 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKN--PNAKVVYVTSE------KFTNDFVNALRNN-----TMEE----FKEKYR  210 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhC--CCCeEEEEEHH------HHHHHHHHHHHcC-----cHHH----HHHHHh
Confidence            35688999999999999999998643221  11235566532      2333444444221     1222    233333


Q ss_pred             CceEEEEecCcccccHHh-H-Hhhhccccc-CCCCcEEEEEcccc---------ccccccCCCceeecCCCCHHHHHHHH
Q 000803          249 GKRFLLVLDDVWNEDYSL-W-VDLKAPFLA-AAPNSKMIITTRNS---------HVASTMGPIDHYNLEHLLDDDCWSIF  316 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~~~~-~-~~l~~~l~~-~~~~s~iivTtr~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf  316 (1277)
                       +.-+||+||++...... + ..+...+.. ...|..||+|+...         .+...+.....+.+++.+.++-.+++
T Consensus       211 -~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il  289 (450)
T PRK00149        211 -SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAIL  289 (450)
T ss_pred             -cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHH
Confidence             23489999996421111 1 222222211 12345688877643         12333444457899999999999999


Q ss_pred             HHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          317 KTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      .+.+-..    .....+++..-|++.+.|..-.+
T Consensus       290 ~~~~~~~----~~~l~~e~l~~ia~~~~~~~R~l  319 (450)
T PRK00149        290 KKKAEEE----GIDLPDEVLEFIAKNITSNVREL  319 (450)
T ss_pred             HHHHHHc----CCCCCHHHHHHHHcCcCCCHHHH
Confidence            9888432    11234567788999988876643

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.39  E-value=0.0024  Score=77.36  Aligned_cols=195  Identities=17%  Similarity=0.194  Sum_probs=106.8

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|.+.-++.+.+++....     -...+.++|+.|+||||+|+.+.+..-...  ..+       ....+.-...++
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~G~GKtt~A~~lak~l~c~~--~~~-------~~~c~~c~~c~~   81 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGR-----VAHAFLFTGARGVGKTSTARILAKALNCEQ--GLT-------AEPCNVCPPCVE   81 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhcCCC--CCC-------CCCCCccHHHHH
Confidence            368999988888888886532     235678999999999999998876432211  000       000000011111


Q ss_pred             HHHHhcC-----CCCCCCcHHHH---HHHHHHh-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEc-cccc
Q 000803          222 LLESITS-----ATCDLKTVDEV---QVQLKKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITT-RNSH  291 (1277)
Q Consensus       222 il~~l~~-----~~~~~~~~~~~---~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-r~~~  291 (1277)
                      |...-..     ........+++   .+.++.. ..+++-++|+|++........+.+...+-.......+|++| ....
T Consensus        82 i~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~k  161 (576)
T PRK14965         82 ITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHK  161 (576)
T ss_pred             HhcCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhh
Confidence            1000000     00001112222   2222111 13455688999998776666777777665544566666544 4444


Q ss_pred             ccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch-HHHHHHH
Q 000803          292 VASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP-LAAKTLG  354 (1277)
Q Consensus       292 v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~  354 (1277)
                      +...+ .....+++++++.++....+...+-...    .....+....|++.++|.. .|+..+-
T Consensus       162 l~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~eg----i~i~~~al~~la~~a~G~lr~al~~Ld  222 (576)
T PRK14965        162 VPITILSRCQRFDFRRIPLQKIVDRLRYIADQEG----ISISDAALALVARKGDGSMRDSLSTLD  222 (576)
T ss_pred             hhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhC----CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            43322 2235688899999988877766553211    1122455677899999865 4554443

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.38  E-value=0.0031  Score=64.93  Aligned_cols=127  Identities=21%  Similarity=0.255  Sum_probs=74.3

Q ss_pred             CCCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          139 PTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       139 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      +.-..++|.+.+++.+++-...--..  ....-+-++|..|.|||++++++.+....+.      .--|.|...      
T Consensus        24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl~G--~pannvLL~G~rGtGKSSlVkall~~y~~~G------LRlIev~k~------   89 (249)
T PF05673_consen   24 IRLDDLIGIERQKEALIENTEQFLQG--LPANNVLLWGARGTGKSSLVKALLNEYADQG------LRLIEVSKE------   89 (249)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHcC--CCCcceEEecCCCCCHHHHHHHHHHHHhhcC------ceEEEECHH------
Confidence            34567999999999888654322111  2234577899999999999999988543221      112222221      


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc-HHhHHhhhccccc----CCCCcEEEEEccccccc
Q 000803          219 SKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED-YSLWVDLKAPFLA----AAPNSKMIITTRNSHVA  293 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-~~~~~~l~~~l~~----~~~~s~iivTtr~~~v~  293 (1277)
                                   +..++..+.+.++.  ...||+|++||+.-+. ...+..++..+-.    ...+..|.+||-.++..
T Consensus        90 -------------~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv  154 (249)
T PF05673_consen   90 -------------DLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLV  154 (249)
T ss_pred             -------------HhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhcc
Confidence                         22344455555553  3579999999984322 2345555554432    22355566666555544


Q ss_pred             c
Q 000803          294 S  294 (1277)
Q Consensus       294 ~  294 (1277)
                      .
T Consensus       155 ~  155 (249)
T PF05673_consen  155 P  155 (249)
T ss_pred             c
Confidence            3

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.35  E-value=1.2e-05  Score=72.69  Aligned_cols=91  Identities=30%  Similarity=0.308  Sum_probs=56.2

Q ss_pred             cCCCCeeeEEecCCCCCCCCCcCCCC-CCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCe
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFED-LRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCH  627 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~i~~lp~~~~~-l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~  627 (1277)
                      +.+..+|...+|++|.+..+|..|.. ...+..|+|++|.|..+|.++..++.|+.|+++. +.+...|..|..|.+|-.
T Consensus        49 l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~-N~l~~~p~vi~~L~~l~~  127 (177)
T KOG4579|consen   49 LSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRF-NPLNAEPRVIAPLIKLDM  127 (177)
T ss_pred             HhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhccccc-CccccchHHHHHHHhHHH
Confidence            34455666666666666666655533 3366666666666666666666666666666666 356666666666666666


Q ss_pred             eeecCccccccCCC
Q 000803          628 LDIRGAILLKEMPF  641 (1277)
Q Consensus       628 L~l~~~~~l~~~p~  641 (1277)
                      |+..+|. ...+|-
T Consensus       128 Lds~~na-~~eid~  140 (177)
T KOG4579|consen  128 LDSPENA-RAEIDV  140 (177)
T ss_pred             hcCCCCc-cccCcH
Confidence            6666555 444443

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.33  E-value=0.005  Score=71.74  Aligned_cols=153  Identities=14%  Similarity=0.087  Sum_probs=85.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      .-+.|+|+.|+|||+||+++++.....   . ..+++++.      ..+...+...+...     ..    ..+++.++ 
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~---~-~~v~yi~~------~~f~~~~~~~l~~~-----~~----~~f~~~~~-  201 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRES---G-GKILYVRS------ELFTEHLVSAIRSG-----EM----QRFRQFYR-  201 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHc---C-CCEEEeeH------HHHHHHHHHHHhcc-----hH----HHHHHHcc-
Confidence            467899999999999999999854321   1 23455542      33344444444321     11    22333333 


Q ss_pred             ceEEEEecCcccccHHhH--Hhhhccccc-CCCCcEEEEEcccc---------ccccccCCCceeecCCCCHHHHHHHHH
Q 000803          250 KRFLLVLDDVWNEDYSLW--VDLKAPFLA-AAPNSKMIITTRNS---------HVASTMGPIDHYNLEHLLDDDCWSIFK  317 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~--~~l~~~l~~-~~~~s~iivTtr~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~  317 (1277)
                      +.-++++||+.......|  +.+...+.. ...|..||+||...         .+...+...-.+.+.+++.++-.+++.
T Consensus       202 ~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~  281 (445)
T PRK12422        202 NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLE  281 (445)
T ss_pred             cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHH
Confidence            334888899855321111  122222211 12356788887542         222333344578999999999999998


Q ss_pred             HhhcCCCCCCchhhHHHHHHHHHhhcCCc
Q 000803          318 THAFEGRDHNALEISESFRKKVVGKCGGL  346 (1277)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  346 (1277)
                      +++-...    ....+++..-|++.+.|.
T Consensus       282 ~k~~~~~----~~l~~evl~~la~~~~~d  306 (445)
T PRK12422        282 RKAEALS----IRIEETALDFLIEALSSN  306 (445)
T ss_pred             HHHHHcC----CCCCHHHHHHHHHhcCCC
Confidence            8874321    122345555566666543

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.32  E-value=0.0054  Score=73.91  Aligned_cols=192  Identities=16%  Similarity=0.142  Sum_probs=106.9

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|.+...+.+.+++....     -...+-++|+.|+||||+|+.+....-...  .-+       ..+.+.-...+.
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~--~~~-------~~pC~~C~~C~~   81 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGK-----ISHAYLFSGPRGTGKTSAAKIFAKAVNCLN--PPD-------GEPCNECEICKA   81 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCC--CCC-------CCCCCccHHHHH
Confidence            468999999999998887642     235677899999999999998875332111  000       001111111111


Q ss_pred             HHHHhcCC-----CCCCCcHHHHHHHHHH---h-hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEE-Eccccc
Q 000803          222 LLESITSA-----TCDLKTVDEVQVQLKK---A-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMII-TTRNSH  291 (1277)
Q Consensus       222 il~~l~~~-----~~~~~~~~~~~~~l~~---~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv-Ttr~~~  291 (1277)
                      +......+     .......+++.+.+.+   . ..+++-++|+|++.......+..+...+-.......+|+ ||....
T Consensus        82 i~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~k  161 (559)
T PRK05563         82 ITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHK  161 (559)
T ss_pred             HhcCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhh
Confidence            11110000     0011122222222111   1 245667889999987766677777766654444555554 444433


Q ss_pred             ccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHH
Q 000803          292 VASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       292 v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  351 (1277)
                      +...+ .....+...+++.++....+...+-...-    ....+....|++.++|-+..+.
T Consensus       162 i~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi----~i~~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        162 IPATILSRCQRFDFKRISVEDIVERLKYILDKEGI----EYEDEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             CcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHH
Confidence            33221 22356888999999988888776632111    1224556778889988775443

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.30  E-value=0.00056  Score=65.94  Aligned_cols=22  Identities=45%  Similarity=0.492  Sum_probs=19.9

Q ss_pred             EEEEccCCCcHHHHHHHHhccc
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      |.|+|++|+||||+|+.++++.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            5699999999999999999854

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 ....

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.29  E-value=0.0052  Score=68.98  Aligned_cols=166  Identities=16%  Similarity=0.146  Sum_probs=92.2

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcc-eEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFD-VKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~-~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      ....+.|+|..|.|||.|++++.+.....   ..+ .+++++      ......++...+..         .-.+..++.
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~---~~~a~v~y~~------se~f~~~~v~a~~~---------~~~~~Fk~~  173 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALAN---GPNARVVYLT------SEDFTNDFVKALRD---------NEMEKFKEK  173 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhh---CCCceEEecc------HHHHHHHHHHHHHh---------hhHHHHHHh
Confidence            35689999999999999999999854322   122 233332      23333344433322         112344444


Q ss_pred             hcCceEEEEecCcccccH-HhHH-hhhccccc-CCCCcEEEEEcccc---------ccccccCCCceeecCCCCHHHHHH
Q 000803          247 VDGKRFLLVLDDVWNEDY-SLWV-DLKAPFLA-AAPNSKMIITTRNS---------HVASTMGPIDHYNLEHLLDDDCWS  314 (1277)
Q Consensus       247 l~~kr~LlVlDdv~~~~~-~~~~-~l~~~l~~-~~~~s~iivTtr~~---------~v~~~~~~~~~~~l~~L~~~~~~~  314 (1277)
                      .  .-=++++||++--.. +.|. .+...|.. ...|..||+|++..         ++.+.+...-.+.+.+.+.+....
T Consensus       174 y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~a  251 (408)
T COG0593         174 Y--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLA  251 (408)
T ss_pred             h--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHH
Confidence            4  334888999965211 1122 22222221 12344899998653         233344455679999999999999


Q ss_pred             HHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          315 IFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       315 Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      .+.+++....-.-+.+...-++..+.+-..-+.=|+..+
T Consensus       252 iL~kka~~~~~~i~~ev~~~la~~~~~nvReLegaL~~l  290 (408)
T COG0593         252 ILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGALNRL  290 (408)
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHhhccHHHHHHHHHHH
Confidence            999877543333333334444444444344444444333

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

Probab=97.28  E-value=0.0012  Score=81.54  Aligned_cols=158  Identities=16%  Similarity=0.207  Sum_probs=86.7

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCC---cceEEEEEeCCCcCHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGK---FDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~---f~~~~wv~~s~~~~~~~~  218 (1277)
                      ..++||+++++++++.|.....      .-+.++|.+|+|||++|+.++....... ..   .++.+|..     +...+
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~------~n~LLvGppGvGKT~lae~la~~i~~~~-vP~~l~~~~~~~l-----~~~~l  253 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRK------NNPLLVGESGVGKTAIAEGLAWRIVQGD-VPEVMADCTIYSL-----DIGSL  253 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCC------CCeEEECCCCCCHHHHHHHHHHHHHhcC-CCchhcCCeEEec-----cHHHH
Confidence            3589999999999998876422      2346899999999999999886431111 01   23444421     11111


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHH-HHHHhhcCceEEEEecCcccc--------cHHhHHhhhcccccCCCCcEEEEEccc
Q 000803          219 SKALLESITSATCDLKTVDEVQV-QLKKAVDGKRFLLVLDDVWNE--------DYSLWVDLKAPFLAAAPNSKMIITTRN  289 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~~~~~-~l~~~l~~kr~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~~s~iivTtr~  289 (1277)
                          +   .+... ..+.+...+ .+...-+.++.+|++|++..-        ...+...+..++...+ .-+||-+|..
T Consensus       254 ----l---aG~~~-~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g-~i~vIgATt~  324 (758)
T PRK11034        254 ----L---AGTKY-RGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTTY  324 (758)
T ss_pred             ----h---cccch-hhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCC-CeEEEecCCh
Confidence                1   11110 112222222 222222346789999999531        1222333344443322 3445555544


Q ss_pred             cccccc-------cCCCceeecCCCCHHHHHHHHHHhh
Q 000803          290 SHVAST-------MGPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       290 ~~v~~~-------~~~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      .+....       ......+.+++.+.+++.+++....
T Consensus       325 ~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        325 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            332111       1233579999999999999988654

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.27  E-value=0.0034  Score=74.32  Aligned_cols=159  Identities=12%  Similarity=0.104  Sum_probs=90.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      ..+.|+|..|+|||.|++++++......  .-..+++++.      .++..++...+...     ..+.    +++.++.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~--~g~~V~Yita------eef~~el~~al~~~-----~~~~----f~~~y~~  377 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLY--PGTRVRYVSS------EEFTNEFINSIRDG-----KGDS----FRRRYRE  377 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhC--CCCeEEEeeH------HHHHHHHHHHHHhc-----cHHH----HHHHhhc
Confidence            3489999999999999999998543211  1123456553      33344444433211     1122    2233332


Q ss_pred             ceEEEEecCcccccH-HhHHh-hhccccc-CCCCcEEEEEcccc---------ccccccCCCceeecCCCCHHHHHHHHH
Q 000803          250 KRFLLVLDDVWNEDY-SLWVD-LKAPFLA-AAPNSKMIITTRNS---------HVASTMGPIDHYNLEHLLDDDCWSIFK  317 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~-~~~~~-l~~~l~~-~~~~s~iivTtr~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~  317 (1277)
                       -=+|||||+..... ..|.. +...+.. ...|..|||||...         .+.+.+...-.+.+++.+.+.-.+++.
T Consensus       378 -~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~  456 (617)
T PRK14086        378 -MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILR  456 (617)
T ss_pred             -CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHH
Confidence             34788999965322 22222 2222211 12356788888753         233344445678999999999999999


Q ss_pred             HhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          318 THAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      +++-...    ....+++.+-|++.+.+..-.+
T Consensus       457 kka~~r~----l~l~~eVi~yLa~r~~rnvR~L  485 (617)
T PRK14086        457 KKAVQEQ----LNAPPEVLEFIASRISRNIREL  485 (617)
T ss_pred             HHHHhcC----CCCCHHHHHHHHHhccCCHHHH
Confidence            8874322    1223566677777776654433

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.26  E-value=4.4e-05  Score=69.07  Aligned_cols=102  Identities=19%  Similarity=0.213  Sum_probs=59.2

Q ss_pred             eeeEEecCCCCCCCCCcC---CCCCCccceeeccCCcccccccccccc-ccCcEEEecCCcCccccchhhccccCcCeee
Q 000803          554 KLRLLSLQGYYIGELPIP---FEDLRLLRYLNLADTDIRSLPESSCSL-LNLEILILRNCSSLIKLPSKIRRLINLCHLD  629 (1277)
Q Consensus       554 ~Lr~L~L~~~~i~~lp~~---~~~l~~Lr~L~L~~~~i~~lp~~i~~L-~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~  629 (1277)
                      .+..++|+.|.+..+++.   +....+|...+|++|.++..|+.+... +.+.+|++++ +.+..+|..+..++.|+.|+
T Consensus        28 E~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~-neisdvPeE~Aam~aLr~lN  106 (177)
T KOG4579|consen   28 ELHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLAN-NEISDVPEELAAMPALRSLN  106 (177)
T ss_pred             HhhhcccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcch-hhhhhchHHHhhhHHhhhcc
Confidence            344456666665544432   344555666666666666666655433 3666666666 45666666666666666666


Q ss_pred             ecCccccccCCCCCCCCCCCcccCceee
Q 000803          630 IRGAILLKEMPFGMKELKNLQTLSNFVV  657 (1277)
Q Consensus       630 l~~~~~l~~~p~~i~~L~~L~~L~~~~~  657 (1277)
                      ++.|. +...|.-|..|.+|-.|+.-.+
T Consensus       107 l~~N~-l~~~p~vi~~L~~l~~Lds~~n  133 (177)
T KOG4579|consen  107 LRFNP-LNAEPRVIAPLIKLDMLDSPEN  133 (177)
T ss_pred             cccCc-cccchHHHHHHHhHHHhcCCCC
Confidence            66665 5555555555555555554443

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

Probab=97.21  E-value=5.7e-05  Score=88.58  Aligned_cols=107  Identities=25%  Similarity=0.369  Sum_probs=87.6

Q ss_pred             CCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCeeee
Q 000803          551 KFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDI  630 (1277)
Q Consensus       551 ~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l  630 (1277)
                      .+..+..+++..|.+..+-..++.+.+|.+|++.+|.|..+...+..+.+|++|++++ +.|+.+.. +..|..|+.|++
T Consensus        70 ~l~~l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~-N~I~~i~~-l~~l~~L~~L~l  147 (414)
T KOG0531|consen   70 SLTSLKELNLRQNLIAKILNHLSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSF-NKITKLEG-LSTLTLLKELNL  147 (414)
T ss_pred             HhHhHHhhccchhhhhhhhcccccccceeeeeccccchhhcccchhhhhcchheeccc-cccccccc-hhhccchhhhee
Confidence            3455666668888888765668899999999999999999977789999999999999 57888764 788888999999


Q ss_pred             cCccccccCCCCCCCCCCCcccCceeeCCCC
Q 000803          631 RGAILLKEMPFGMKELKNLQTLSNFVVGKGG  661 (1277)
Q Consensus       631 ~~~~~l~~~p~~i~~L~~L~~L~~~~~~~~~  661 (1277)
                      .+|. +..++ ++..+++|+.+++.++.+..
T Consensus       148 ~~N~-i~~~~-~~~~l~~L~~l~l~~n~i~~  176 (414)
T KOG0531|consen  148 SGNL-ISDIS-GLESLKSLKLLDLSYNRIVD  176 (414)
T ss_pred             ccCc-chhcc-CCccchhhhcccCCcchhhh
Confidence            9997 66554 46668899999888887665

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.19  E-value=0.0028  Score=80.91  Aligned_cols=159  Identities=15%  Similarity=0.165  Sum_probs=84.2

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc--cCCcceEEEEEeCCCcCHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~--~~~f~~~~wv~~s~~~~~~~~~  219 (1277)
                      ..++||+.++++++..|....      ..-+.++|.+|+|||++|..++.......  ..-....+|.-     ++..+.
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~------~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l-----~~~~l~  241 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT------KNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLAL-----DMGALI  241 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEe-----eHHHHh
Confidence            358999999999999986642      13455899999999999998877532111  00012233321     111110


Q ss_pred             HHHHHHhcCCCCCCCcHH-HHHHHHHHhhc-CceEEEEecCccccc-------HHhHHhhhcccccCCCCcEEEEEcccc
Q 000803          220 KALLESITSATCDLKTVD-EVQVQLKKAVD-GKRFLLVLDDVWNED-------YSLWVDLKAPFLAAAPNSKMIITTRNS  290 (1277)
Q Consensus       220 ~~il~~l~~~~~~~~~~~-~~~~~l~~~l~-~kr~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~~s~iivTtr~~  290 (1277)
                             .+.... .+.+ .+...+.+.-+ +++.+|++|++..-.       ..+-..+..+....+ .-++|-+|...
T Consensus       242 -------a~~~~~-g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g-~i~~IgaTt~~  312 (852)
T TIGR03346       242 -------AGAKYR-GEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARG-ELHCIGATTLD  312 (852)
T ss_pred             -------hcchhh-hhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcC-ceEEEEeCcHH
Confidence                   000001 1122 22223332222 468999999995321       011122333332222 23455555544


Q ss_pred             ccccc-------cCCCceeecCCCCHHHHHHHHHHhh
Q 000803          291 HVAST-------MGPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       291 ~v~~~-------~~~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      +....       ......+.++..+.++..+++....
T Consensus       313 e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       313 EYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             HHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence            33111       1233568899999999999887653

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.

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

Probab=97.18  E-value=4.8e-05  Score=78.05  Aligned_cols=88  Identities=11%  Similarity=0.129  Sum_probs=49.3

Q ss_pred             cccEEEeecccccccCc--CCCCCCCCcCEEeccCCCCccccc---CCCCCCCCceEEEccccCccchhhhhhhcccccC
Q 000803         1081 TISHVTISYCEKLDALP--NGMHKLQSLQYLKIKECPSILSFS---EEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLT 1155 (1277)
Q Consensus      1081 ~L~~L~l~~~~~l~~lp--~~l~~l~~L~~L~l~~c~~l~~l~---~~~~~~~L~~L~l~~~~~~~~l~~~~~~~~~~l~ 1155 (1277)
                      .|+.|+++.|..++...  --+.+|+.|.+|+++.|...+..-   .....++|..|.++|....-... -......++|
T Consensus       235 ~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~s-h~~tL~~rcp  313 (419)
T KOG2120|consen  235 NLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKS-HLSTLVRRCP  313 (419)
T ss_pred             cceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhh-HHHHHHHhCC
Confidence            56666666666655432  124678888888888876544321   11234567777776633322222 1122335677


Q ss_pred             CcccccccccCCCc
Q 000803         1156 SLIGLSIEECHDAE 1169 (1277)
Q Consensus      1156 ~L~~L~l~~~~~l~ 1169 (1277)
                      +|.+||++.|..++
T Consensus       314 ~l~~LDLSD~v~l~  327 (419)
T KOG2120|consen  314 NLVHLDLSDSVMLK  327 (419)
T ss_pred             ceeeeccccccccC
Confidence            77777777776554

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.17  E-value=0.015  Score=64.20  Aligned_cols=178  Identities=12%  Similarity=0.084  Sum_probs=100.0

Q ss_pred             HHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccccc------CCcceEEEEEeCCCcCHHHHHHHHHH
Q 000803          151 KTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS------GKFDVKAWVCVSDDFDVLSISKALLE  224 (1277)
Q Consensus       151 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~------~~f~~~~wv~~s~~~~~~~~~~~il~  224 (1277)
                      .+.+.+.+..+     .-....-+.|+.|+||+++|..++...-....      +.....-++.....+|...+      
T Consensus        11 ~~~l~~~~~~~-----rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i------   79 (325)
T PRK06871         11 YQQITQAFQQG-----LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHIL------   79 (325)
T ss_pred             HHHHHHHHHcC-----CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEE------
Confidence            34455555443     22356779999999999999888653322110      00000001111111111100      


Q ss_pred             HhcCCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-cccccc-CC
Q 000803          225 SITSATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-GP  298 (1277)
Q Consensus       225 ~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~~~-~~  298 (1277)
                        .........++++.+..+..    ..+++=++|+|+++.........++..+-.-..++.+|++|.+. .+...+ +.
T Consensus        80 --~p~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SR  157 (325)
T PRK06871         80 --EPIDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSR  157 (325)
T ss_pred             --ccccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhh
Confidence              00001112344443322221    23566688899999888888888888887666677777777654 343222 22


Q ss_pred             CceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          299 IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       299 ~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      ...+.+.+++.++..+.+.....   .  .    ...+...++.++|.|..+
T Consensus       158 C~~~~~~~~~~~~~~~~L~~~~~---~--~----~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        158 CQTWLIHPPEEQQALDWLQAQSS---A--E----ISEILTALRINYGRPLLA  200 (325)
T ss_pred             ceEEeCCCCCHHHHHHHHHHHhc---c--C----hHHHHHHHHHcCCCHHHH
Confidence            35789999999999988876541   1  0    112456778899999644

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.14  E-value=0.017  Score=63.84  Aligned_cols=95  Identities=9%  Similarity=0.131  Sum_probs=64.9

Q ss_pred             CceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCC
Q 000803          249 GKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDH  326 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~  326 (1277)
                      +++=++|+|+++..+...-+.+...+-.-..++.+|++|... .+...+ +....+.+.+++.+++.+.+....   .+ 
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~---~~-  187 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG---VS-  187 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC---CC-
Confidence            466799999998877767777777666555677777776643 333222 223568899999999988876531   11 


Q ss_pred             CchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          327 NALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       327 ~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                            ++.+..++..++|.|+.+..+
T Consensus       188 ------~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        188 ------ERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             ------hHHHHHHHHHcCCCHHHHHHH
Confidence                  223567899999999876544

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.12  E-value=0.0024  Score=76.71  Aligned_cols=52  Identities=13%  Similarity=0.176  Sum_probs=40.3

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      -..++|-++.++++..++....... ...+++.|+|++|+||||+++.++...
T Consensus        83 ldel~~~~~ki~~l~~~l~~~~~~~-~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        83 QHELAVHKKKIEEVETWLKAQVLEN-APKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             HHHhcCcHHHHHHHHHHHHhccccc-CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4568999999999998886542211 234689999999999999999998743

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

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

Probab=97.06  E-value=0.0065  Score=69.98  Aligned_cols=147  Identities=18%  Similarity=0.126  Sum_probs=87.3

Q ss_pred             EEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGK  250 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  250 (1277)
                      ++.|+|+-++||||+++.+....  ..  .   .+++...+......-+.+.                 ...+.+.-..+
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~--~~--~---~iy~~~~d~~~~~~~l~d~-----------------~~~~~~~~~~~   94 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGL--LE--E---IIYINFDDLRLDRIELLDL-----------------LRAYIELKERE   94 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhC--Cc--c---eEEEEecchhcchhhHHHH-----------------HHHHHHhhccC
Confidence            99999999999999997775532  11  1   4555433321111111111                 11111111227


Q ss_pred             eEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccccccc-----c-cCCCceeecCCCCHHHHHHHHHHhhcCCC
Q 000803          251 RFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVAS-----T-MGPIDHYNLEHLLDDDCWSIFKTHAFEGR  324 (1277)
Q Consensus       251 r~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~-----~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~  324 (1277)
                      +..|+||.|...  ..|......+.+.++. +|++|+-+.....     . .|....+.+-||+-.|...+-...+.   
T Consensus        95 ~~yifLDEIq~v--~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~~~~~~---  168 (398)
T COG1373          95 KSYIFLDEIQNV--PDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLKGEEIE---  168 (398)
T ss_pred             CceEEEecccCc--hhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhcccccc---
Confidence            889999999766  7899988888887666 8999887654322     1 23446789999999998664320000   


Q ss_pred             CCCchhhHHHHHHHHHhhcCCchHHHHH
Q 000803          325 DHNALEISESFRKKVVGKCGGLPLAAKT  352 (1277)
Q Consensus       325 ~~~~~~~~~~~~~~i~~~c~glPLai~~  352 (1277)
                       .   ..... .-+-.-..||.|-++..
T Consensus       169 -~---~~~~~-~f~~Yl~~GGfP~~v~~  191 (398)
T COG1373         169 -P---SKLEL-LFEKYLETGGFPESVKA  191 (398)
T ss_pred             -h---hHHHH-HHHHHHHhCCCcHHHhC
Confidence             0   01111 22233357888887764

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.04  E-value=0.02  Score=63.19  Aligned_cols=153  Identities=13%  Similarity=0.126  Sum_probs=93.9

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccc-----------------cCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCC
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVED-----------------SGKFDVKAWVCVSDDFDVLSISKALLESITSATC  231 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-----------------~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~  231 (1277)
                      ...+-++|+.|+||+++|..+..-.-...                 +.|.|. .|+.-..                  ..
T Consensus        25 ~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~-~~i~p~~------------------~~   85 (319)
T PRK06090         25 PGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDL-HVIKPEK------------------EG   85 (319)
T ss_pred             ceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCE-EEEecCc------------------CC
Confidence            45788999999999999988765321111                 112221 1111100                  00


Q ss_pred             CCCcHHHHHHHHHHhh-----cCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-cccccc-CCCceeec
Q 000803          232 DLKTVDEVQVQLKKAV-----DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-GPIDHYNL  304 (1277)
Q Consensus       232 ~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~~~-~~~~~~~l  304 (1277)
                      ....++++.+ +.+.+     .+++=++|+|++........+.+...+-.-..++.+|.+|.+. .+...+ +....+.+
T Consensus        86 ~~I~vdqiR~-l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~  164 (319)
T PRK06090         86 KSITVEQIRQ-CNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVV  164 (319)
T ss_pred             CcCCHHHHHH-HHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeC
Confidence            1123344432 22322     3445688999998888888888888877666677776666654 343322 23357899


Q ss_pred             CCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          305 EHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       305 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      .+++.+++.+.+.....   +         .+..+++.++|.|+.+..+
T Consensus       165 ~~~~~~~~~~~L~~~~~---~---------~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        165 TPPSTAQAMQWLKGQGI---T---------VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             CCCCHHHHHHHHHHcCC---c---------hHHHHHHHcCCCHHHHHHH
Confidence            99999999888865321   1         1246788999999977644

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.04  E-value=0.0048  Score=78.36  Aligned_cols=158  Identities=13%  Similarity=0.145  Sum_probs=82.7

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc--cCCcceEE-EEEeCCCcCHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKA-WVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~--~~~f~~~~-wv~~s~~~~~~~~  218 (1277)
                      ..++||+.+++++++.|....      ..-+.++|.+|+|||++|..+........  ..-....+ ++.++.      +
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~------~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~------l  245 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------L  245 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCC------cCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh------h
Confidence            358999999999999986643      23456999999999999999887432110  00012222 222221      1


Q ss_pred             HHHHHHHhcCCCCCCCcHH-HHHHHHHHhh-cCceEEEEecCcccccH-------HhHHhhhcccccCCCCcEEEEEccc
Q 000803          219 SKALLESITSATCDLKTVD-EVQVQLKKAV-DGKRFLLVLDDVWNEDY-------SLWVDLKAPFLAAAPNSKMIITTRN  289 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~-~~~~~l~~~l-~~kr~LlVlDdv~~~~~-------~~~~~l~~~l~~~~~~s~iivTtr~  289 (1277)
                      .       .+.... .+.+ .+...+.+.- .+++.+|++|++..-..       .+-..+..+.... ..-++|-+|..
T Consensus       246 ~-------ag~~~~-g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~-g~l~~IgaTt~  316 (857)
T PRK10865        246 V-------AGAKYR-GEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-GELHCVGATTL  316 (857)
T ss_pred             h-------hccchh-hhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhc-CCCeEEEcCCC
Confidence            0       000000 1111 2222222221 25689999999954210       0112223333222 23456656555


Q ss_pred             ccccccc-------CCCceeecCCCCHHHHHHHHHHhh
Q 000803          290 SHVASTM-------GPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       290 ~~v~~~~-------~~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      .+....+       .....+.+..-+.++...++....
T Consensus       317 ~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        317 DEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             HHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence            4432111       122356677778888888876543

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.04  E-value=0.0026  Score=62.32  Aligned_cols=88  Identities=20%  Similarity=0.064  Sum_probs=47.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      ..+.|+|++|+||||+|+.++......    ...++++..+...........  ...................+.+..+.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPP----GGGVIYIDGEDILEEVLDQLL--LIIVGGKKASGSGELRLRLALALARK   76 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCC----CCCEEEECCEEccccCHHHHH--hhhhhccCCCCCHHHHHHHHHHHHHh
Confidence            578999999999999999998754321    123555554443322211111  11111111112222223334444443


Q ss_pred             c-eEEEEecCccccc
Q 000803          250 K-RFLLVLDDVWNED  263 (1277)
Q Consensus       250 k-r~LlVlDdv~~~~  263 (1277)
                      . ..+|++|+++...
T Consensus        77 ~~~~viiiDei~~~~   91 (148)
T smart00382       77 LKPDVLILDEITSLL   91 (148)
T ss_pred             cCCCEEEEECCcccC
Confidence            3 4999999997653

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.

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

Probab=97.01  E-value=3.1e-05  Score=88.87  Aligned_cols=110  Identities=25%  Similarity=0.235  Sum_probs=62.3

Q ss_pred             hhhhcCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccC
Q 000803          545 LYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLIN  624 (1277)
Q Consensus       545 ~~~~~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~  624 (1277)
                      ....+.-++.|+.|+|++|.+...- .+..|.+|+.|||++|.+..+|.--..=.+|+.|.+++| .++.+- +|.+|.+
T Consensus       179 mD~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrnN-~l~tL~-gie~Lks  255 (1096)
T KOG1859|consen  179 MDESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRNN-ALTTLR-GIENLKS  255 (1096)
T ss_pred             HHHHHHHHHHhhhhccchhhhhhhH-HHHhcccccccccccchhccccccchhhhhheeeeeccc-HHHhhh-hHHhhhh
Confidence            3344455566677777777666653 566667777777777776666652212223777777763 555553 3667777


Q ss_pred             cCeeeecCccccccCCC--CCCCCCCCcccCceeeC
Q 000803          625 LCHLDIRGAILLKEMPF--GMKELKNLQTLSNFVVG  658 (1277)
Q Consensus       625 L~~L~l~~~~~l~~~p~--~i~~L~~L~~L~~~~~~  658 (1277)
                      |++||+++|- +.....  -++.|..|..|++-+|.
T Consensus       256 L~~LDlsyNl-l~~hseL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  256 LYGLDLSYNL-LSEHSELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             hhccchhHhh-hhcchhhhHHHHHHHHHHHhhcCCc
Confidence            7777777664 222111  13445555556555543

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=97.00  E-value=0.0043  Score=71.45  Aligned_cols=158  Identities=17%  Similarity=0.158  Sum_probs=86.1

Q ss_pred             CccccchhhHHHHHHHHhcccc-------cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC
Q 000803          142 PVVFGREEDKTKILEMVLTDTA-------ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~  214 (1277)
                      ..+.|.+..++++.+.+.-.-.       -+-...+-+.++|++|+|||++|+.+++...  .  .|   +.+..+.   
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~--~--~f---i~V~~se---  252 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETS--A--TF---LRVVGSE---  252 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhC--C--CE---EEEecch---
Confidence            3567889888888877632100       0002345678999999999999999988432  1  33   1121111   


Q ss_pred             HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc-----------HH---hHHhhhccccc--CC
Q 000803          215 VLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED-----------YS---LWVDLKAPFLA--AA  278 (1277)
Q Consensus       215 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-----------~~---~~~~l~~~l~~--~~  278 (1277)
                         +.    ....+     .....+...+.....+.+.+|+||+++...           ..   ....+...+..  ..
T Consensus       253 ---L~----~k~~G-----e~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~  320 (438)
T PTZ00361        253 ---LI----QKYLG-----DGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSR  320 (438)
T ss_pred             ---hh----hhhcc-----hHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhccc
Confidence               11    11100     011112222333334578899999984310           00   01112211211  12


Q ss_pred             CCcEEEEEccccccccc-c----CCCceeecCCCCHHHHHHHHHHhhc
Q 000803          279 PNSKMIITTRNSHVAST-M----GPIDHYNLEHLLDDDCWSIFKTHAF  321 (1277)
Q Consensus       279 ~~s~iivTtr~~~v~~~-~----~~~~~~~l~~L~~~~~~~Lf~~~~~  321 (1277)
                      .+.+||+||...+.... +    .-...+.+...+.++..++|..++.
T Consensus       321 ~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~  368 (438)
T PTZ00361        321 GDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTS  368 (438)
T ss_pred             CCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHh
Confidence            35678888875433221 1    1235689999999999999987763

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

Probab=96.98  E-value=0.039  Score=69.11  Aligned_cols=166  Identities=17%  Similarity=0.224  Sum_probs=87.1

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHH
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      +...+|.++-+++|++++............++.++|++|+||||+|+.++....  .  .|-   -+..+...+...+..
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~--~--~~~---~i~~~~~~d~~~i~g  393 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATG--R--KYV---RMALGGVRDEAEIRG  393 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhC--C--CEE---EEEcCCCCCHHHhcc
Confidence            456889999999999988743211112346899999999999999999986321  1  231   233333323322211


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHHh----HHhhhccccc---------------CCCCc
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSL----WVDLKAPFLA---------------AAPNS  281 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~----~~~l~~~l~~---------------~~~~s  281 (1277)
                      .- ...     .......+...+.+.-. ..-+++||.++......    ...+...+-+               .-.+.
T Consensus       394 ~~-~~~-----~g~~~G~~~~~l~~~~~-~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v  466 (784)
T PRK10787        394 HR-RTY-----IGSMPGKLIQKMAKVGV-KNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDV  466 (784)
T ss_pred             ch-hcc-----CCCCCcHHHHHHHhcCC-CCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCce
Confidence            00 000     01112233333433222 33478899996543211    1222222111               11334


Q ss_pred             EEEEEccccccccc-cCCCceeecCCCCHHHHHHHHHHhh
Q 000803          282 KMIITTRNSHVAST-MGPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       282 ~iivTtr~~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      -+|.|+....+... .+....+.+.+++.+|-.++..++.
T Consensus       467 ~~i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        467 MFVATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             EEEEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            44555544333221 1233568889999888888777665

>PRK10536 hypothetical protein; Provisional

Probab=96.97  E-value=0.0052  Score=64.22  Aligned_cols=130  Identities=17%  Similarity=0.254  Sum_probs=72.4

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEE----eCCC--c---
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVC----VSDD--F---  213 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~----~s~~--~---  213 (1277)
                      .+.+|......+..++.+.        .++.++|.+|.|||+||.++..+.-...  .|+.++.+.    +.+.  |   
T Consensus        56 ~i~p~n~~Q~~~l~al~~~--------~lV~i~G~aGTGKT~La~a~a~~~l~~~--~~~kIiI~RP~v~~ge~LGfLPG  125 (262)
T PRK10536         56 PILARNEAQAHYLKAIESK--------QLIFATGEAGCGKTWISAAKAAEALIHK--DVDRIIVTRPVLQADEDLGFLPG  125 (262)
T ss_pred             cccCCCHHHHHHHHHHhcC--------CeEEEECCCCCCHHHHHHHHHHHHHhcC--CeeEEEEeCCCCCchhhhCcCCC
Confidence            4667888888888877542        4899999999999999998876422122  454333321    1110  0   


Q ss_pred             CHHHH----HHHHHHHhcCCCCCCCcHHHHHHHHH-----------HhhcCceE---EEEecCcccccHHhHHhhhcccc
Q 000803          214 DVLSI----SKALLESITSATCDLKTVDEVQVQLK-----------KAVDGKRF---LLVLDDVWNEDYSLWVDLKAPFL  275 (1277)
Q Consensus       214 ~~~~~----~~~il~~l~~~~~~~~~~~~~~~~l~-----------~~l~~kr~---LlVlDdv~~~~~~~~~~l~~~l~  275 (1277)
                      +..+-    ++.+...+..-    ...+.+...+.           .+++++.+   +||+|.+.+.+..+...+..   
T Consensus       126 ~~~eK~~p~~~pi~D~L~~~----~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~lt---  198 (262)
T PRK10536        126 DIAEKFAPYFRPVYDVLVRR----LGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLT---  198 (262)
T ss_pred             CHHHHHHHHHHHHHHHHHHH----hChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHh---
Confidence            11111    12222222110    00111111111           25566654   99999998876655444443   


Q ss_pred             cCCCCcEEEEEccc
Q 000803          276 AAAPNSKMIITTRN  289 (1277)
Q Consensus       276 ~~~~~s~iivTtr~  289 (1277)
                      ..+.+|++|+|--.
T Consensus       199 R~g~~sk~v~~GD~  212 (262)
T PRK10536        199 RLGENVTVIVNGDI  212 (262)
T ss_pred             hcCCCCEEEEeCCh
Confidence            34579999998543

>PRK08116 hypothetical protein; Validated

Probab=96.96  E-value=0.002  Score=69.78  Aligned_cols=103  Identities=20%  Similarity=0.189  Sum_probs=58.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      .-+.++|..|+|||.||.++++....+    ...+++++      ..+++..+........  ..+..+.    .+.+.+
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~----~~~v~~~~------~~~ll~~i~~~~~~~~--~~~~~~~----~~~l~~  178 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEK----GVPVIFVN------FPQLLNRIKSTYKSSG--KEDENEI----IRSLVN  178 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHc----CCeEEEEE------HHHHHHHHHHHHhccc--cccHHHH----HHHhcC
Confidence            358899999999999999999865322    12356665      3334445544433211  1112222    233333


Q ss_pred             ceEEEEecCcccccHHhHHh--hhccccc-CCCCcEEEEEccc
Q 000803          250 KRFLLVLDDVWNEDYSLWVD--LKAPFLA-AAPNSKMIITTRN  289 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~~s~iivTtr~  289 (1277)
                      -. ||||||+......+|..  +...+.. ...+..+||||..
T Consensus       179 ~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        179 AD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             CC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            33 89999996544445543  2222221 1345678999864

>TIGR00763 lon ATP-dependent protease La

Probab=96.95  E-value=0.04  Score=69.83  Aligned_cols=52  Identities=23%  Similarity=0.375  Sum_probs=38.6

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ..++|.++-++.+.+++............++.++|++|+|||++|+.+++..
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l  371 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL  371 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999998887653321111233589999999999999999998754

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.

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=96.93  E-value=0.0092  Score=59.26  Aligned_cols=122  Identities=16%  Similarity=0.180  Sum_probs=71.7

Q ss_pred             cchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccccc----------------CCcceEEEEEe
Q 000803          146 GREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS----------------GKFDVKAWVCV  209 (1277)
Q Consensus       146 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~----------------~~f~~~~wv~~  209 (1277)
                      |-++..+.+.+.+..+     .-...+.++|..|+||+++|..+++..-....                +...-..|+.-
T Consensus         1 gq~~~~~~L~~~~~~~-----~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~   75 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG-----RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKP   75 (162)
T ss_dssp             S-HHHHHHHHHHHHCT-----C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEET
T ss_pred             CcHHHHHHHHHHHHcC-----CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEec
Confidence            4455666666666543     22356889999999999999887653322110                01112233322


Q ss_pred             CCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhh-----cCceEEEEecCcccccHHhHHhhhcccccCCCCcEEE
Q 000803          210 SDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAV-----DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMI  284 (1277)
Q Consensus       210 s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~ii  284 (1277)
                      ....                  .....+++. .+.+.+     .+++=++|+||++......+..++..+-....++++|
T Consensus        76 ~~~~------------------~~i~i~~ir-~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fi  136 (162)
T PF13177_consen   76 DKKK------------------KSIKIDQIR-EIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFI  136 (162)
T ss_dssp             TTSS------------------SSBSHHHHH-HHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEE
T ss_pred             cccc------------------chhhHHHHH-HHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEE
Confidence            2110                  012233333 222222     2456689999999988888999998887777899999


Q ss_pred             EEccccc
Q 000803          285 ITTRNSH  291 (1277)
Q Consensus       285 vTtr~~~  291 (1277)
                      ++|++..
T Consensus       137 L~t~~~~  143 (162)
T PF13177_consen  137 LITNNPS  143 (162)
T ss_dssp             EEES-GG
T ss_pred             EEECChH
Confidence            8888754

...

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=96.93  E-value=0.0076  Score=69.03  Aligned_cols=179  Identities=16%  Similarity=0.110  Sum_probs=94.6

Q ss_pred             CccccchhhHHHHHHHHhcc----c---ccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC
Q 000803          142 PVVFGREEDKTKILEMVLTD----T---AADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~----~---~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~  214 (1277)
                      ..+.|.+..++++.+.+...    +   ..+-...+-+.++|++|+|||++|+.+++....    .|   +.+..     
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~----~f---i~i~~-----  212 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTA----TF---IRVVG-----  212 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC----CE---EEEeh-----
Confidence            35788888888877765321    1   001123567889999999999999999885321    23   22211     


Q ss_pred             HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc-----------HH---hHHhhhccccc--CC
Q 000803          215 VLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED-----------YS---LWVDLKAPFLA--AA  278 (1277)
Q Consensus       215 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-----------~~---~~~~l~~~l~~--~~  278 (1277)
                       ..+.    ....+     .....+.+.+.......+.+|++|+++..-           ..   .+..+...+..  ..
T Consensus       213 -s~l~----~k~~g-----e~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~  282 (398)
T PTZ00454        213 -SEFV----QKYLG-----EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQT  282 (398)
T ss_pred             -HHHH----HHhcc-----hhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCC
Confidence             1111    11100     111122223333334678999999985310           00   11122222211  22


Q ss_pred             CCcEEEEEccccccccc--c---CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch
Q 000803          279 PNSKMIITTRNSHVAST--M---GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP  347 (1277)
Q Consensus       279 ~~s~iivTtr~~~v~~~--~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  347 (1277)
                      .+..||+||...+....  .   .-...+.+...+.++..++|..+.... ........    .++++.+.|+-
T Consensus       283 ~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~-~l~~dvd~----~~la~~t~g~s  351 (398)
T PTZ00454        283 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKM-NLSEEVDL----EDFVSRPEKIS  351 (398)
T ss_pred             CCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcC-CCCcccCH----HHHHHHcCCCC
Confidence            45678888875543221  1   123468898899999888888665321 11111222    34666666654

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

Probab=96.90  E-value=6.7e-05  Score=77.01  Aligned_cols=150  Identities=17%  Similarity=0.176  Sum_probs=96.8

Q ss_pred             cCcCCCCCCCCcCEEeccCCCCcccccCCCC---CCCCceEEEccccCccchhhhhhhcccc-cCCcccccccccCCCcc
Q 000803         1095 ALPNGMHKLQSLQYLKIKECPSILSFSEEGF---PTNLKLIRIGGGVDAKMYKAVIQWGLHR-LTSLIGLSIEECHDAES 1170 (1277)
Q Consensus      1095 ~lp~~l~~l~~L~~L~l~~c~~l~~l~~~~~---~~~L~~L~l~~~~~~~~l~~~~~~~~~~-l~~L~~L~l~~~~~l~~ 1170 (1277)
                      .+-..+..-.+|+.|+++.|+.++.....-+   .+.|.+|.++++.......   .....+ -+.|..|+|+||...-.
T Consensus       225 ~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~V---tv~V~hise~l~~LNlsG~rrnl~  301 (419)
T KOG2120|consen  225 PIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKV---TVAVAHISETLTQLNLSGYRRNLQ  301 (419)
T ss_pred             HHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhh---hHHHhhhchhhhhhhhhhhHhhhh
Confidence            3444556678999999999999886543322   3577888886643322221   111222 36788899999754211


Q ss_pred             CchhhhhccCCcccceeeecccccccccCccCCCCCCCCCceeccCCCCCCCCCC----CCCCCccceeeccCChh----
Q 000803         1171 FPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPE----VGLPSSLLSLEIKNCPK---- 1242 (1277)
Q Consensus      1171 lp~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~lp~----~~~~~~L~~L~i~~c~~---- 1242 (1277)
                      ...-..-..-.++|.+|++++|..++.=-...+..++.|++|.++.|=.+  .|+    ..--|+|..|++.||-.    
T Consensus       302 ~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i--~p~~~~~l~s~psl~yLdv~g~vsdt~m  379 (419)
T KOG2120|consen  302 KSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDI--IPETLLELNSKPSLVYLDVFGCVSDTTM  379 (419)
T ss_pred             hhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCC--ChHHeeeeccCcceEEEEeccccCchHH
Confidence            11111112357889999999998887644456788999999999999433  343    22248999999999832    


Q ss_pred             --hHHHhcc
Q 000803         1243 --LRKQCKR 1249 (1277)
Q Consensus      1243 --L~~~~~~ 1249 (1277)
                        +++.|..
T Consensus       380 el~~e~~~~  388 (419)
T KOG2120|consen  380 ELLKEMLSH  388 (419)
T ss_pred             HHHHHhCcc
Confidence              5555543

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

Probab=96.88  E-value=0.00074  Score=82.55  Aligned_cols=109  Identities=20%  Similarity=0.164  Sum_probs=78.9

Q ss_pred             hcccccccccccccCcccceeehhhhhhhhhhcCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCcccccc--cc
Q 000803          517 FYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLP--ES  594 (1277)
Q Consensus       517 ~~~~~~lrsl~~~~~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp--~~  594 (1277)
                      ..-+|.||+|...+..-       ...-+...+.+|++|+.||+++++++.+ .++++|++|+.|.+++-.+..-+  ..
T Consensus       144 g~~LPsL~sL~i~~~~~-------~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L~mrnLe~e~~~~l~~  215 (699)
T KOG3665|consen  144 GTMLPSLRSLVISGRQF-------DNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQVLSMRNLEFESYQDLID  215 (699)
T ss_pred             hhhCcccceEEecCcee-------cchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHHHhccCCCCCchhhHHH
Confidence            34578888887644321       1122445678899999999999999888 78999999999999987776432  46


Q ss_pred             ccccccCcEEEecCCcCccccchh-------hccccCcCeeeecCcc
Q 000803          595 SCSLLNLEILILRNCSSLIKLPSK-------IRRLINLCHLDIRGAI  634 (1277)
Q Consensus       595 i~~L~~L~~L~L~~~~~l~~lp~~-------i~~L~~L~~L~l~~~~  634 (1277)
                      +.+|++|++||+|.. .....|.-       -..|++||.||.+++.
T Consensus       216 LF~L~~L~vLDIS~~-~~~~~~~ii~qYlec~~~LpeLrfLDcSgTd  261 (699)
T KOG3665|consen  216 LFNLKKLRVLDISRD-KNNDDTKIIEQYLECGMVLPELRFLDCSGTD  261 (699)
T ss_pred             HhcccCCCeeecccc-ccccchHHHHHHHHhcccCccccEEecCCcc
Confidence            788999999999974 33333321       1348899999998875

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=96.87  E-value=0.02  Score=64.49  Aligned_cols=150  Identities=12%  Similarity=0.079  Sum_probs=88.7

Q ss_pred             cccc-chhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc------------------cCCcce
Q 000803          143 VVFG-REEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED------------------SGKFDV  203 (1277)
Q Consensus       143 ~~vG-r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~------------------~~~f~~  203 (1277)
                      .++| -+.-++.+.+.+...     .-....-++|+.|+||||+|..+.+..-...                  +.|.|.
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~-----~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~   80 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKN-----RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDV   80 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCE
Confidence            3566 455566666666443     2345778999999999999988865422111                  001111


Q ss_pred             EEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCC
Q 000803          204 KAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAP  279 (1277)
Q Consensus       204 ~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~  279 (1277)
                      . ++...                    ......+++.+.+...    ..+++=++|+|++...+....+.+...+-....
T Consensus        81 ~-~i~~~--------------------~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~  139 (329)
T PRK08058         81 H-LVAPD--------------------GQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSG  139 (329)
T ss_pred             E-Eeccc--------------------cccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCC
Confidence            1 11000                    0112233433333221    234556789999988777777778877776666


Q ss_pred             CcEEEEEccccc-ccccc-CCCceeecCCCCHHHHHHHHHH
Q 000803          280 NSKMIITTRNSH-VASTM-GPIDHYNLEHLLDDDCWSIFKT  318 (1277)
Q Consensus       280 ~s~iivTtr~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~  318 (1277)
                      ++.+|.+|.+.. +...+ .....+.+.+++.++..+.+..
T Consensus       140 ~~~~Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        140 GTTAILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             CceEEEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHH
Confidence            777777776532 33222 2235799999999998777764

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.87  E-value=0.028  Score=62.88  Aligned_cols=179  Identities=13%  Similarity=0.064  Sum_probs=100.8

Q ss_pred             HHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc------cCCcceEEEEEeCCCcCHHHHHHHHHH
Q 000803          151 KTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED------SGKFDVKAWVCVSDDFDVLSISKALLE  224 (1277)
Q Consensus       151 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~------~~~f~~~~wv~~s~~~~~~~~~~~il~  224 (1277)
                      -+++.+.+..+     .-...+-+.|+.|+||+++|..++...-...      .+.....-++.....+|+..+      
T Consensus        11 ~~~l~~~~~~~-----rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i------   79 (334)
T PRK07993         11 YEQLVGSYQAG-----RGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTL------   79 (334)
T ss_pred             HHHHHHHHHcC-----CcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEE------
Confidence            44555555443     2345788999999999999988765332111      000000011111111111100      


Q ss_pred             HhcCCCC-CCCcHHHHHHHHHHh----hcCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-ccccc-cC
Q 000803          225 SITSATC-DLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVAST-MG  297 (1277)
Q Consensus       225 ~l~~~~~-~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~~-~~  297 (1277)
                        ..... ....++++.+..+..    ..+++=++|+|+++..+....+.+...+-.-..++.+|.+|.+. .+... .+
T Consensus        80 --~p~~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrS  157 (334)
T PRK07993         80 --TPEKGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRS  157 (334)
T ss_pred             --ecccccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHh
Confidence              00000 112344444322221    23567799999998888778888888776666677777766654 34432 22


Q ss_pred             CCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHH
Q 000803          298 PIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       298 ~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  351 (1277)
                      ....+.+.+++.+++.+.+.....         ...+.+..+++.++|.|..+.
T Consensus       158 RCq~~~~~~~~~~~~~~~L~~~~~---------~~~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        158 RCRLHYLAPPPEQYALTWLSREVT---------MSQDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             ccccccCCCCCHHHHHHHHHHccC---------CCHHHHHHHHHHcCCCHHHHH
Confidence            235689999999998887765321         012335678999999996443

>PRK08118 topology modulation protein; Reviewed

Probab=96.84  E-value=0.00056  Score=68.31  Aligned_cols=35  Identities=34%  Similarity=0.583  Sum_probs=27.5

Q ss_pred             EEEEEccCCCcHHHHHHHHhccccccccCCcceEEE
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAW  206 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~w  206 (1277)
                      -|.|+|++|+||||||+.+++...... .+||..+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~-~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPV-HHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCc-eecchhhc
Confidence            488999999999999999998654431 25676665

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

Probab=96.73  E-value=0.038  Score=69.61  Aligned_cols=120  Identities=15%  Similarity=0.187  Sum_probs=69.1

Q ss_pred             CccccchhhHHHHHHHHhcccc---cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      ..++|.+..++.+.+.+.....   ..+....++.++|+.|+|||+||+.++...       +...+.++.++-.+... 
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l-------~~~~~~~d~se~~~~~~-  525 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL-------GVHLERFDMSEYMEKHT-  525 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh-------cCCeEEEeCchhhhccc-
Confidence            4578888888888888764321   111234578899999999999999998743       12235555544222111 


Q ss_pred             HHHHHHHhcCCCC--CCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccc
Q 000803          219 SKALLESITSATC--DLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFL  275 (1277)
Q Consensus       219 ~~~il~~l~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~  275 (1277)
                         +...++....  .......+.+.+++   ...-+++||+++..+.+.++.+...+.
T Consensus       526 ---~~~lig~~~gyvg~~~~~~l~~~~~~---~p~~VvllDEieka~~~~~~~Ll~~ld  578 (731)
T TIGR02639       526 ---VSRLIGAPPGYVGFEQGGLLTEAVRK---HPHCVLLLDEIEKAHPDIYNILLQVMD  578 (731)
T ss_pred             ---HHHHhcCCCCCcccchhhHHHHHHHh---CCCeEEEEechhhcCHHHHHHHHHhhc
Confidence               1112222111  11112223333321   334699999999887777777766554

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

Probab=96.73  E-value=0.00029  Score=74.55  Aligned_cols=64  Identities=31%  Similarity=0.425  Sum_probs=36.3

Q ss_pred             hhhcCCCCeeeEEecCCCCC----CCCCcC-------CCCCCccceeeccCCccc-c----ccccccccccCcEEEecCC
Q 000803          546 YDLLPKFKKLRLLSLQGYYI----GELPIP-------FEDLRLLRYLNLADTDIR-S----LPESSCSLLNLEILILRNC  609 (1277)
Q Consensus       546 ~~~~~~l~~Lr~L~L~~~~i----~~lp~~-------~~~l~~Lr~L~L~~~~i~-~----lp~~i~~L~~L~~L~L~~~  609 (1277)
                      ...+.+.+.||..+|++-..    .++|+.       +-...+|++||||.|-+. .    +-.-+.+.+.|+.|.|.+|
T Consensus        51 ~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~  130 (382)
T KOG1909|consen   51 AKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNC  130 (382)
T ss_pred             HHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcC
Confidence            34455566777777776432    233432       234457777777777543 1    2223455667777777766

>TIGR03689 pup_AAA proteasome ATPase

Probab=96.71  E-value=0.021  Score=66.85  Aligned_cols=169  Identities=15%  Similarity=0.112  Sum_probs=87.9

Q ss_pred             CccccchhhHHHHHHHHhccc-------ccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccC-CcceEEEEEeCCCc
Q 000803          142 PVVFGREEDKTKILEMVLTDT-------AADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSG-KFDVKAWVCVSDDF  213 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~-------~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~-~f~~~~wv~~s~~~  213 (1277)
                      ..+.|.+..++++.+.+...-       ...-...+-+.++|++|+|||++|+.+++........ ......|+.+... 
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~-  260 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGP-  260 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccch-
Confidence            357789999988888763210       0000224568899999999999999999865322100 1122344444331 


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh-hcCceEEEEecCcccccH-------Hh-----HHhhhcccccC--C
Q 000803          214 DVLSISKALLESITSATCDLKTVDEVQVQLKKA-VDGKRFLLVLDDVWNEDY-------SL-----WVDLKAPFLAA--A  278 (1277)
Q Consensus       214 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~-------~~-----~~~l~~~l~~~--~  278 (1277)
                         .    ++....+.  .......+....++. -.+++++|+||+++..-.       .+     ...+...+...  .
T Consensus       261 ---e----Ll~kyvGe--te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~  331 (512)
T TIGR03689       261 ---E----LLNKYVGE--TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESL  331 (512)
T ss_pred             ---h----hcccccch--HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccC
Confidence               0    11110000  000111122222222 235789999999964210       01     11222222221  1


Q ss_pred             CCcEEEEEcccccccc-cc----CCCceeecCCCCHHHHHHHHHHhh
Q 000803          279 PNSKMIITTRNSHVAS-TM----GPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       279 ~~s~iivTtr~~~v~~-~~----~~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      .+..||.||...+... .+    .-...+.++..+.++..++|..+.
T Consensus       332 ~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       332 DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             CceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHh
Confidence            3445566665443221 11    123468999999999999999876

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.

>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=96.70  E-value=0.0025  Score=66.34  Aligned_cols=36  Identities=31%  Similarity=0.360  Sum_probs=28.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEe
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCV  209 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~  209 (1277)
                      -.++|+|..|.|||||+..+..+..  .  .|..+++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~--~--~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLR--H--KFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhc--c--cCCEEEEEec
Confidence            3578999999999999999987542  2  6777776654

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

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

Probab=96.70  E-value=5e-05  Score=87.20  Aligned_cols=104  Identities=22%  Similarity=0.189  Sum_probs=86.6

Q ss_pred             CeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchh-hccccCcCeeeec
Q 000803          553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSK-IRRLINLCHLDIR  631 (1277)
Q Consensus       553 ~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~-i~~L~~L~~L~l~  631 (1277)
                      ..|.+-+.++|.+..+-.++.-+.+|+.|||++|++...- .+..|.+|++|||++ +.+..+|.- ...+ +|+.|.++
T Consensus       164 n~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsy-N~L~~vp~l~~~gc-~L~~L~lr  240 (1096)
T KOG1859|consen  164 NKLATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSY-NCLRHVPQLSMVGC-KLQLLNLR  240 (1096)
T ss_pred             hhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhH-HHHhccccccccccc-chhccccccchhhh-hheeeeec
Confidence            4677788889988888888888999999999999998875 789999999999999 478888862 2233 49999999


Q ss_pred             CccccccCCCCCCCCCCCcccCceeeCCCC
Q 000803          632 GAILLKEMPFGMKELKNLQTLSNFVVGKGG  661 (1277)
Q Consensus       632 ~~~~l~~~p~~i~~L~~L~~L~~~~~~~~~  661 (1277)
                      +|. ++.+ .+|.+|++|+.|++.+|-+..
T Consensus       241 nN~-l~tL-~gie~LksL~~LDlsyNll~~  268 (1096)
T KOG1859|consen  241 NNA-LTTL-RGIENLKSLYGLDLSYNLLSE  268 (1096)
T ss_pred             ccH-HHhh-hhHHhhhhhhccchhHhhhhc
Confidence            997 6655 479999999999999886654

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

Probab=96.69  E-value=0.025  Score=66.50  Aligned_cols=167  Identities=22%  Similarity=0.277  Sum_probs=92.1

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHH
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      +..-+|-++-+++|+++|....-...-+-+++.+||++|||||.|++.++.....    .|   +-+.+..--|..++--
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~R----kf---vR~sLGGvrDEAEIRG  394 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGR----KF---VRISLGGVRDEAEIRG  394 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCC----CE---EEEecCccccHHHhcc
Confidence            4567899999999999996543222234479999999999999999999874321    34   2233333333322210


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccH-------HhHHhhhcc-----ccc----C-CCCcEE
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDY-------SLWVDLKAP-----FLA----A-APNSKM  283 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------~~~~~l~~~-----l~~----~-~~~s~i  283 (1277)
                      .      ....-..-+..+.+.+++. +-+.=+++||.++....       ..+-.++.|     |.+    . --=|.|
T Consensus       395 H------RRTYIGamPGrIiQ~mkka-~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~V  467 (782)
T COG0466         395 H------RRTYIGAMPGKIIQGMKKA-GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKV  467 (782)
T ss_pred             c------cccccccCChHHHHHHHHh-CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhhe
Confidence            0      0000111223333334332 34556888999865322       112222222     111    0 012333


Q ss_pred             -EEEccc-cc-cc-cccCCCceeecCCCCHHHHHHHHHHhhc
Q 000803          284 -IITTRN-SH-VA-STMGPIDHYNLEHLLDDDCWSIFKTHAF  321 (1277)
Q Consensus       284 -ivTtr~-~~-v~-~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  321 (1277)
                       -|||-+ -+ +. ..+....++++.+.+++|-.++-+++..
T Consensus       468 mFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         468 MFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             EEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcc
Confidence             334433 22 22 2234457899999999998888777663

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.67  E-value=0.012  Score=65.27  Aligned_cols=102  Identities=17%  Similarity=0.225  Sum_probs=63.0

Q ss_pred             HHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcce-EEEEEeCCC-cCHHHHHHHHHHHhcC
Q 000803          151 KTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDV-KAWVCVSDD-FDVLSISKALLESITS  228 (1277)
Q Consensus       151 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~-~~wv~~s~~-~~~~~~~~~il~~l~~  228 (1277)
                      ..++++.+..-     +.-.-+.|+|..|+|||||++.+++.....   +-+. ++|+.+.+. ..+.++.+.+...+..
T Consensus       120 ~~RvID~l~Pi-----GkGQR~LIvG~pGtGKTTLl~~la~~i~~~---~~dv~~vv~lIgER~~EV~df~~~i~~~Vva  191 (380)
T PRK12608        120 SMRVVDLVAPI-----GKGQRGLIVAPPRAGKTVLLQQIAAAVAAN---HPEVHLMVLLIDERPEEVTDMRRSVKGEVYA  191 (380)
T ss_pred             hHhhhhheeec-----CCCceEEEECCCCCCHHHHHHHHHHHHHhc---CCCceEEEEEecCCCCCHHHHHHHHhhhEEe
Confidence            34566766543     122456899999999999999988754221   2233 467666664 4677888888777765


Q ss_pred             CCCCCCcHHH-----HHHHHHHhh--cCceEEEEecCcc
Q 000803          229 ATCDLKTVDE-----VQVQLKKAV--DGKRFLLVLDDVW  260 (1277)
Q Consensus       229 ~~~~~~~~~~-----~~~~l~~~l--~~kr~LlVlDdv~  260 (1277)
                      ...+......     ....+-+++  ++++++||+|++-
T Consensus       192 st~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt  230 (380)
T PRK12608        192 STFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLT  230 (380)
T ss_pred             ecCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence            4433222111     111122222  5899999999993

>CHL00176 ftsH cell division protein; Validated

Probab=96.64  E-value=0.027  Score=68.48  Aligned_cols=178  Identities=16%  Similarity=0.156  Sum_probs=94.9

Q ss_pred             CccccchhhHHHHHHH---Hhcccc---cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH
Q 000803          142 PVVFGREEDKTKILEM---VLTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV  215 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~---L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~  215 (1277)
                      ..++|.++.++++.+.   +.....   -.....+-+.++|++|+|||+||+.++.....    .     |+.++..   
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~----p-----~i~is~s---  250 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEV----P-----FFSISGS---  250 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCC----C-----eeeccHH---
Confidence            3577877666555444   332211   00122456899999999999999999874321    2     2222211   


Q ss_pred             HHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc----------HHh----HHhhhccccc--CCC
Q 000803          216 LSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED----------YSL----WVDLKAPFLA--AAP  279 (1277)
Q Consensus       216 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~----------~~~----~~~l~~~l~~--~~~  279 (1277)
                       ++.    ....     ......+...+.+.....+++|++||++.-.          ...    +..+...+..  ...
T Consensus       251 -~f~----~~~~-----g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~  320 (638)
T CHL00176        251 -EFV----EMFV-----GVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNK  320 (638)
T ss_pred             -HHH----HHhh-----hhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCC
Confidence             110    0000     0112233344555556788999999995321          111    2222222211  234


Q ss_pred             CcEEEEEccccccccc-c----CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCc
Q 000803          280 NSKMIITTRNSHVAST-M----GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGL  346 (1277)
Q Consensus       280 ~s~iivTtr~~~v~~~-~----~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  346 (1277)
                      +-.||.||...+.... +    .-...+.++..+.++-.++++.++-.. ..    ........+++.+.|.
T Consensus       321 ~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~-~~----~~d~~l~~lA~~t~G~  387 (638)
T CHL00176        321 GVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNK-KL----SPDVSLELIARRTPGF  387 (638)
T ss_pred             CeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhc-cc----chhHHHHHHHhcCCCC
Confidence            5567777765432221 1    123568888899999999998877421 11    1122345677888773

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

Probab=96.64  E-value=0.002  Score=64.95  Aligned_cols=100  Identities=21%  Similarity=0.256  Sum_probs=50.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      .-+.++|..|+|||.||..+.+....+   .+ .+.|+++      .+++..    +.... .....+...+.    +. 
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~~~~---g~-~v~f~~~------~~L~~~----l~~~~-~~~~~~~~~~~----l~-  107 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEAIRK---GY-SVLFITA------SDLLDE----LKQSR-SDGSYEELLKR----LK-  107 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT---T---EEEEEH------HHHHHH----HHCCH-CCTTHCHHHHH----HH-
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHhccC---Cc-ceeEeec------Cceecc----ccccc-cccchhhhcCc----cc-
Confidence            568999999999999999998754322   22 3566653      333333    33221 11122222222    22 


Q ss_pred             ceEEEEecCcccccHHhHHh--hhcccccCCCCcEEEEEccc
Q 000803          250 KRFLLVLDDVWNEDYSLWVD--LKAPFLAAAPNSKMIITTRN  289 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~~~--l~~~l~~~~~~s~iivTtr~  289 (1277)
                      +-=||||||+.......|..  +...+.....+..+||||..
T Consensus       108 ~~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~~~~tIiTSN~  149 (178)
T PF01695_consen  108 RVDLLILDDLGYEPLSEWEAELLFEIIDERYERKPTIITSNL  149 (178)
T ss_dssp             TSSCEEEETCTSS---HHHHHCTHHHHHHHHHT-EEEEEESS
T ss_pred             cccEecccccceeeecccccccchhhhhHhhcccCeEeeCCC
Confidence            23478899997765555543  11111111112368888864

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.64  E-value=0.045  Score=63.47  Aligned_cols=88  Identities=19%  Similarity=0.135  Sum_probs=46.9

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH--HHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV--LSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~--~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      ..+++|+|.+|+||||++..+......+.  ....+..++.. .+..  .+.++.....++.......+...+...+++.
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~--~gkkVaLIdtD-tyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l  426 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQH--APRDVALVTTD-TQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERL  426 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhc--CCCceEEEecc-cccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHh
Confidence            47999999999999999988876432221  12234445432 2222  2222222223322222223344555555443


Q ss_pred             hcCceEEEEecCccc
Q 000803          247 VDGKRFLLVLDDVWN  261 (1277)
Q Consensus       247 l~~kr~LlVlDdv~~  261 (1277)
                       . +.=+||+|....
T Consensus       427 -~-~~DLVLIDTaG~  439 (559)
T PRK12727        427 -R-DYKLVLIDTAGM  439 (559)
T ss_pred             -c-cCCEEEecCCCc
Confidence             3 345888898854

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.62  E-value=0.03  Score=60.90  Aligned_cols=21  Identities=43%  Similarity=0.526  Sum_probs=18.9

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000803          171 VIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      -+.+.|.+|+|||++|+.+..
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~   43 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVAR   43 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            466899999999999999976

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).

>PRK08181 transposase; Validated

Probab=96.58  E-value=0.0043  Score=66.74  Aligned_cols=101  Identities=19%  Similarity=0.073  Sum_probs=53.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      .-+.++|++|+|||.||..+.+....    ....+.|+++      .++...+.....     ....+.....+     .
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~----~g~~v~f~~~------~~L~~~l~~a~~-----~~~~~~~l~~l-----~  166 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIE----NGWRVLFTRT------TDLVQKLQVARR-----ELQLESAIAKL-----D  166 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHH----cCCceeeeeH------HHHHHHHHHHHh-----CCcHHHHHHHH-----h
Confidence            35899999999999999999874321    1223556553      334444432211     11222222222     1


Q ss_pred             ceEEEEecCcccccHHhHH--hhhcccccCCCCcEEEEEcccc
Q 000803          250 KRFLLVLDDVWNEDYSLWV--DLKAPFLAAAPNSKMIITTRNS  290 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~~--~l~~~l~~~~~~s~iivTtr~~  290 (1277)
                      +-=|||+||+.......|.  .+...+.....+..+||||...
T Consensus       167 ~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        167 KFDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             cCCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            3349999999654332322  2222222222234688888753

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

Probab=96.57  E-value=0.0012  Score=80.81  Aligned_cols=36  Identities=39%  Similarity=0.486  Sum_probs=17.5

Q ss_pred             ccccCcCeeeecCccccccCCCCCCCCCCCcccCceee
Q 000803          620 RRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVV  657 (1277)
Q Consensus       620 ~~L~~L~~L~l~~~~~l~~~p~~i~~L~~L~~L~~~~~  657 (1277)
                      .+.++|..||++++. +..+ .|+++|++||+|.+.+.
T Consensus       170 ~sFpNL~sLDIS~Tn-I~nl-~GIS~LknLq~L~mrnL  205 (699)
T KOG3665|consen  170 ASFPNLRSLDISGTN-ISNL-SGISRLKNLQVLSMRNL  205 (699)
T ss_pred             hccCccceeecCCCC-ccCc-HHHhccccHHHHhccCC
Confidence            344555555555554 3333 44555555555544433

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

Probab=96.57  E-value=0.046  Score=58.85  Aligned_cols=201  Identities=16%  Similarity=0.129  Sum_probs=110.6

Q ss_pred             ccccchhhHHHHHHHHhccccc-------CCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH
Q 000803          143 VVFGREEDKTKILEMVLTDTAA-------DHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV  215 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~  215 (1277)
                      .+=|-++.+++|.+.+--.-..       +-..++=|-++|++|.|||-||++|+++...    .|     +.|...   
T Consensus       152 dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~A----tF-----IrvvgS---  219 (406)
T COG1222         152 DIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDA----TF-----IRVVGS---  219 (406)
T ss_pred             hccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCc----eE-----EEeccH---
Confidence            4557788888887765322100       0133566889999999999999999985322    33     222221   


Q ss_pred             HHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC-ceEEEEecCccccc--------------HHhHHhhhcccccC--C
Q 000803          216 LSISKALLESITSATCDLKTVDEVQVQLKKAVDG-KRFLLVLDDVWNED--------------YSLWVDLKAPFLAA--A  278 (1277)
Q Consensus       216 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~--------------~~~~~~l~~~l~~~--~  278 (1277)
                       +    +.+..-+.      -..+.+.+.+..+. .+..|++|.++...              +-..-+++..+-.+  .
T Consensus       220 -E----lVqKYiGE------GaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~  288 (406)
T COG1222         220 -E----LVQKYIGE------GARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPR  288 (406)
T ss_pred             -H----HHHHHhcc------chHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCC
Confidence             1    22222111      13444555555544 58999999884311              11122334444333  3


Q ss_pred             CCcEEEEEcccccccccc-----CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch----HH
Q 000803          279 PNSKMIITTRNSHVASTM-----GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP----LA  349 (1277)
Q Consensus       279 ~~s~iivTtr~~~v~~~~-----~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP----La  349 (1277)
                      .+-|||..|-..++..-.     .-.+.+++..-+.+.-.++|.-++-.- .....-.++    .+++.|.|.-    -|
T Consensus       289 ~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM-~l~~dvd~e----~la~~~~g~sGAdlka  363 (406)
T COG1222         289 GNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKM-NLADDVDLE----LLARLTEGFSGADLKA  363 (406)
T ss_pred             CCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhc-cCccCcCHH----HHHHhcCCCchHHHHH
Confidence            466899888766654322     223567888666666677787776322 111222333    4666666653    45


Q ss_pred             HHHHHhhhcCC------ChhhHHHHHhh
Q 000803          350 AKTLGGLLRTT------TYDMWDDILDS  371 (1277)
Q Consensus       350 i~~~~~~L~~~------~~~~w~~~l~~  371 (1277)
                      +.+=|++++-+      +.+++..+.+.
T Consensus       364 ictEAGm~AiR~~R~~Vt~~DF~~Av~K  391 (406)
T COG1222         364 ICTEAGMFAIRERRDEVTMEDFLKAVEK  391 (406)
T ss_pred             HHHHHhHHHHHhccCeecHHHHHHHHHH
Confidence            55556665322      45566555543

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.57  E-value=0.00071  Score=69.75  Aligned_cols=81  Identities=26%  Similarity=0.332  Sum_probs=38.8

Q ss_pred             CCeeeEEecCCCCCCCC---CcCCCCCCccceeeccCCccccccccc-cccccCcEEEecCCcCcc--ccchhhccccCc
Q 000803          552 FKKLRLLSLQGYYIGEL---PIPFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEILILRNCSSLI--KLPSKIRRLINL  625 (1277)
Q Consensus       552 l~~Lr~L~L~~~~i~~l---p~~~~~l~~Lr~L~L~~~~i~~lp~~i-~~L~~L~~L~L~~~~~l~--~lp~~i~~L~~L  625 (1277)
                      .+.++.|||.+|.|+.-   -..+.+|++|++|+|+.|.+..--.+. ..+.||++|-|.+ +.+.  ..-..+..++++
T Consensus        70 ~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNg-T~L~w~~~~s~l~~lP~v  148 (418)
T KOG2982|consen   70 VTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNG-TGLSWTQSTSSLDDLPKV  148 (418)
T ss_pred             hhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcC-CCCChhhhhhhhhcchhh
Confidence            45566666666665432   223455666666666666443221111 2445666666655 2221  122223444445


Q ss_pred             CeeeecCc
Q 000803          626 CHLDIRGA  633 (1277)
Q Consensus       626 ~~L~l~~~  633 (1277)
                      +.|+++.|
T Consensus       149 telHmS~N  156 (418)
T KOG2982|consen  149 TELHMSDN  156 (418)
T ss_pred             hhhhhccc
Confidence            55554444

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

Probab=96.56  E-value=0.0028  Score=62.07  Aligned_cols=103  Identities=23%  Similarity=0.214  Sum_probs=74.1

Q ss_pred             CeeeEEecCCCCCCCCCcCCCCCCccceeeccCCcccccccccc-ccccCcEEEecCCcCccccch--hhccccCcCeee
Q 000803          553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSC-SLLNLEILILRNCSSLIKLPS--KIRRLINLCHLD  629 (1277)
Q Consensus       553 ~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~-~L~~L~~L~L~~~~~l~~lp~--~i~~L~~L~~L~  629 (1277)
                      .....+||++|.+..++ .|..+..|.+|.|.+|+|+.+-..+. .+.+|++|.|.+| ++.++-+  .+..+++|++|.
T Consensus        42 d~~d~iDLtdNdl~~l~-~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnN-si~~l~dl~pLa~~p~L~~Lt  119 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKLD-NLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNN-SIQELGDLDPLASCPKLEYLT  119 (233)
T ss_pred             cccceecccccchhhcc-cCCCccccceEEecCCcceeeccchhhhccccceEEecCc-chhhhhhcchhccCCccceee
Confidence            35567899999887774 57788899999999999998855554 4567999999984 6666543  245678888888


Q ss_pred             ecCccccccCCCC----CCCCCCCcccCceeeC
Q 000803          630 IRGAILLKEMPFG----MKELKNLQTLSNFVVG  658 (1277)
Q Consensus       630 l~~~~~l~~~p~~----i~~L~~L~~L~~~~~~  658 (1277)
                      +-+|. ...-+.-    +.++++|++|+...+.
T Consensus       120 ll~Np-v~~k~~YR~yvl~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen  120 LLGNP-VEHKKNYRLYVLYKLPSLRTLDFQKVT  151 (233)
T ss_pred             ecCCc-hhcccCceeEEEEecCcceEeehhhhh
Confidence            88876 4433321    6677888888765543

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=96.56  E-value=0.011  Score=68.50  Aligned_cols=188  Identities=15%  Similarity=0.163  Sum_probs=111.6

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHH
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKAL  222 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  222 (1277)
                      .+||-+.-...|...+....-     ..-....|+-|+||||+|+-++...-...        | ....++..-...++|
T Consensus        17 evvGQe~v~~~L~nal~~~ri-----~hAYlfsG~RGvGKTt~Ari~AkalNC~~--------~-~~~ePC~~C~~Ck~I   82 (515)
T COG2812          17 DVVGQEHVVKTLSNALENGRI-----AHAYLFSGPRGVGKTTIARILAKALNCEN--------G-PTAEPCGKCISCKEI   82 (515)
T ss_pred             HhcccHHHHHHHHHHHHhCcc-----hhhhhhcCCCCcCchhHHHHHHHHhcCCC--------C-CCCCcchhhhhhHhh
Confidence            579999999999998876532     24567899999999999998876332221        1 112222222333333


Q ss_pred             HHHhcC-----CCCCCCcHHHHHHHHHHhh----cCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-cc
Q 000803          223 LESITS-----ATCDLKTVDEVQVQLKKAV----DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HV  292 (1277)
Q Consensus       223 l~~l~~-----~~~~~~~~~~~~~~l~~~l----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v  292 (1277)
                      ...-..     +......++++.+.+.+..    ++|-=+.|+|.|.-.....|..+..-+-.-...-..|..|++. .+
T Consensus        83 ~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Ki  162 (515)
T COG2812          83 NEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKI  162 (515)
T ss_pred             hcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcC
Confidence            222000     0001122333333333222    3455588999998777788888888776655566666655554 44


Q ss_pred             ccc-cCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchH
Q 000803          293 AST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL  348 (1277)
Q Consensus       293 ~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  348 (1277)
                      ... ......|.++.++.++-...+...+-....    ...++....|+++.+|..-
T Consensus       163 p~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I----~~e~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         163 PNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGI----NIEEDALSLIARAAEGSLR  215 (515)
T ss_pred             chhhhhccccccccCCCHHHHHHHHHHHHHhcCC----ccCHHHHHHHHHHcCCChh
Confidence            332 233467999999999888888776643222    2223445567777777543

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.53  E-value=0.082  Score=62.10  Aligned_cols=205  Identities=17%  Similarity=0.132  Sum_probs=121.8

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccc----ccccCCcceEEEEEeCCCcCHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKA----VEDSGKFDVKAWVCVSDDFDVLS  217 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~----~~~~~~f~~~~wv~~s~~~~~~~  217 (1277)
                      ..+-+|+.+..+|.+.+...-.. .+....+-|.|.+|.|||+.+..|.+...    .+.-..|+ .+.|+.-.-....+
T Consensus       396 ~sLpcRe~E~~~I~~f~~~~i~~-~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~~  473 (767)
T KOG1514|consen  396 ESLPCRENEFSEIEDFLRSFISD-QGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPRE  473 (767)
T ss_pred             ccccchhHHHHHHHHHHHhhcCC-CCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHH
Confidence            34668999999988877543222 13345899999999999999999987432    11111343 45566666667889


Q ss_pred             HHHHHHHHhcCCCCCCCcHHHHHHHHHHhhc-----CceEEEEecCccc---ccHHhHHhhhcc-ccc-CCCCcEEEEEc
Q 000803          218 ISKALLESITSATCDLKTVDEVQVQLKKAVD-----GKRFLLVLDDVWN---EDYSLWVDLKAP-FLA-AAPNSKMIITT  287 (1277)
Q Consensus       218 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~-----~kr~LlVlDdv~~---~~~~~~~~l~~~-l~~-~~~~s~iivTt  287 (1277)
                      +...|..++.+....   .....+.+..++.     .+..++++|+++.   ..+    +++-. |.+ ..++||++|.+
T Consensus       474 ~Y~~I~~~lsg~~~~---~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~Q----dVlYn~fdWpt~~~sKLvvi~  546 (767)
T KOG1514|consen  474 IYEKIWEALSGERVT---WDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQ----DVLYNIFDWPTLKNSKLVVIA  546 (767)
T ss_pred             HHHHHHHhcccCccc---HHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccH----HHHHHHhcCCcCCCCceEEEE
Confidence            999999998865432   3333344444442     4568888998732   111    22222 222 34688876654


Q ss_pred             cc--c---------ccccccCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHHhh
Q 000803          288 RN--S---------HVASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGL  356 (1277)
Q Consensus       288 r~--~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~  356 (1277)
                      =-  .         .+...+| ...+...|.+.++-.++...+..+. +.-.....+-+|++|+.-.|-.-.|+.+.-+.
T Consensus       547 IaNTmdlPEr~l~nrvsSRlg-~tRi~F~pYth~qLq~Ii~~RL~~~-~~f~~~aielvarkVAavSGDaRraldic~RA  624 (767)
T KOG1514|consen  547 IANTMDLPERLLMNRVSSRLG-LTRICFQPYTHEQLQEIISARLKGL-DAFENKAIELVARKVAAVSGDARRALDICRRA  624 (767)
T ss_pred             ecccccCHHHHhccchhhhcc-ceeeecCCCCHHHHHHHHHHhhcch-hhcchhHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            21  1         1222222 2346777888888777777666433 11122344555666666666666666655444


Q ss_pred             h
Q 000803          357 L  357 (1277)
Q Consensus       357 L  357 (1277)
                      .
T Consensus       625 ~  625 (767)
T KOG1514|consen  625 A  625 (767)
T ss_pred             H
Confidence            3

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.50  E-value=0.01  Score=62.79  Aligned_cols=103  Identities=17%  Similarity=0.211  Sum_probs=56.8

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVD  248 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  248 (1277)
                      ...+.++|.+|+|||+||.++++....+    -..++++++      .++...+-.....   .....+.+    .+.+.
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~----g~~v~~it~------~~l~~~l~~~~~~---~~~~~~~~----l~~l~  161 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLR----GKSVLIITV------ADIMSAMKDTFSN---SETSEEQL----LNDLS  161 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhc----CCeEEEEEH------HHHHHHHHHHHhh---ccccHHHH----HHHhc
Confidence            3478899999999999999999864322    124555543      3344443333211   11122222    22233


Q ss_pred             CceEEEEecCcccccHHhHHh-hhccccc-C-CCCcEEEEEccc
Q 000803          249 GKRFLLVLDDVWNEDYSLWVD-LKAPFLA-A-APNSKMIITTRN  289 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~~~~~~~-l~~~l~~-~-~~~s~iivTtr~  289 (1277)
                       +.=+||+||+......+|.. +...+.+ . ...-.+||||-.
T Consensus       162 -~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        162 -NVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             -cCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence             34488889997765556653 2222222 1 224567777754

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.50  E-value=0.043  Score=65.95  Aligned_cols=179  Identities=18%  Similarity=0.142  Sum_probs=92.1

Q ss_pred             CccccchhhHHHHHHHHh---cccc---cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH
Q 000803          142 PVVFGREEDKTKILEMVL---TDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV  215 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~---~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~  215 (1277)
                      ..++|.++.++++.+.+.   ....   ......+-+.++|++|+|||++|+.+++....    .|     +.++.    
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~----~~-----~~i~~----  121 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGV----PF-----FSISG----  121 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCC----Ce-----eeccH----
Confidence            467888777666554432   2110   00122345889999999999999999874321    22     22221    


Q ss_pred             HHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc----------HHhHHh----hhcccc--cCCC
Q 000803          216 LSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED----------YSLWVD----LKAPFL--AAAP  279 (1277)
Q Consensus       216 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~----------~~~~~~----l~~~l~--~~~~  279 (1277)
                      ..+.    ....+     .....+...+.......+.+|++|+++...          ...+..    +...+.  ....
T Consensus       122 ~~~~----~~~~g-----~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~  192 (495)
T TIGR01241       122 SDFV----EMFVG-----VGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNT  192 (495)
T ss_pred             HHHH----HHHhc-----ccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCC
Confidence            1111    11100     112233334444445567899999995421          011222    221111  1223


Q ss_pred             CcEEEEEcccccccc-----ccCCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch
Q 000803          280 NSKMIITTRNSHVAS-----TMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP  347 (1277)
Q Consensus       280 ~s~iivTtr~~~v~~-----~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  347 (1277)
                      +-.||.||...+...     ...-...+.++..+.++-.++|..+.-.... ...    ....++++.+.|.-
T Consensus       193 ~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~-~~~----~~l~~la~~t~G~s  260 (495)
T TIGR01241       193 GVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKL-APD----VDLKAVARRTPGFS  260 (495)
T ss_pred             CeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCC-Ccc----hhHHHHHHhCCCCC
Confidence            445666665543211     1122356889989998888988877632211 111    12346777887743

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.

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.50  E-value=0.031  Score=62.79  Aligned_cols=148  Identities=15%  Similarity=0.210  Sum_probs=86.5

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      ..+.-+.+.|++|+|||+||..++...      .|..+--++..+-...               .+......+.......
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~S------~FPFvKiiSpe~miG~---------------sEsaKc~~i~k~F~DA  594 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALSS------DFPFVKIISPEDMIGL---------------SESAKCAHIKKIFEDA  594 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhhc------CCCeEEEeChHHccCc---------------cHHHHHHHHHHHHHHh
Confidence            456778899999999999999997632      5655433321111000               0111223333444455


Q ss_pred             hcCceEEEEecCcccccHHhHHhhhcc---------------cccCCCCcEEEEEccccccccccCCC----ceeecCCC
Q 000803          247 VDGKRFLLVLDDVWNEDYSLWVDLKAP---------------FLAAAPNSKMIITTRNSHVASTMGPI----DHYNLEHL  307 (1277)
Q Consensus       247 l~~kr~LlVlDdv~~~~~~~~~~l~~~---------------l~~~~~~s~iivTtr~~~v~~~~~~~----~~~~l~~L  307 (1277)
                      .+..--.||+||+..  ..+|..+...               .++.++.--|+-||....|...|+-.    ..|.++.+
T Consensus       595 YkS~lsiivvDdiEr--LiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl  672 (744)
T KOG0741|consen  595 YKSPLSIIVVDDIER--LLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNL  672 (744)
T ss_pred             hcCcceEEEEcchhh--hhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCcc
Confidence            566778999999943  2455433322               23333333456677777888777532    46888888


Q ss_pred             CH-HHHHHHHHHhh-cCCCCCCchhhHHHHHHHHHhhc
Q 000803          308 LD-DDCWSIFKTHA-FEGRDHNALEISESFRKKVVGKC  343 (1277)
Q Consensus       308 ~~-~~~~~Lf~~~~-~~~~~~~~~~~~~~~~~~i~~~c  343 (1277)
                      +. ++..+.++..- |.      +...+.++++...+|
T Consensus       673 ~~~~~~~~vl~~~n~fs------d~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  673 TTGEQLLEVLEELNIFS------DDEVRAIAEQLLSKK  704 (744)
T ss_pred             CchHHHHHHHHHccCCC------cchhHHHHHHHhccc
Confidence            77 66777766543 31      233455566666666

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.48  E-value=0.031  Score=71.20  Aligned_cols=138  Identities=18%  Similarity=0.183  Sum_probs=74.6

Q ss_pred             CccccchhhHHHHHHHHhcccc---cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      ..++|.+..++.+...+.....   ..+....++.++|+.|+|||++|+.+++..- ..   -...+.++++.-.. .. 
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~-~~---~~~~i~id~se~~~-~~-  641 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMF-DS---DDAMVRIDMSEFME-KH-  641 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhh-cC---CCcEEEEEhHHhhh-hh-
Confidence            4688999999888888764321   1112235788999999999999999986321 11   11234444433211 11 


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC-ceEEEEecCcccccHHhHHhhhcccccC-----------CCCcEEEEE
Q 000803          219 SKALLESITSATCDLKTVDEVQVQLKKAVDG-KRFLLVLDDVWNEDYSLWVDLKAPFLAA-----------APNSKMIIT  286 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~~s~iivT  286 (1277)
                         ....+.+........+. ...+.+.++. ..-+|+||++...+...+..+...+..+           -.++-||+|
T Consensus       642 ---~~~~LiG~~pgy~g~~~-~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~T  717 (857)
T PRK10865        642 ---SVSRLVGAPPGYVGYEE-GGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMT  717 (857)
T ss_pred             ---hHHHHhCCCCcccccch-hHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEe
Confidence               11122221111111111 1112222222 2369999999877777777776655332           123347778


Q ss_pred             ccc
Q 000803          287 TRN  289 (1277)
Q Consensus       287 tr~  289 (1277)
                      |..
T Consensus       718 SN~  720 (857)
T PRK10865        718 SNL  720 (857)
T ss_pred             CCc
Confidence            765

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=96.47  E-value=0.012  Score=70.61  Aligned_cols=44  Identities=30%  Similarity=0.382  Sum_probs=35.0

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      .++|.+..++.+...+...      ...-+.|+|..|+|||++|+.+++.
T Consensus        66 ~iiGqs~~i~~l~~al~~~------~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGP------NPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999888776432      2245679999999999999999753

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.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.46  E-value=0.05  Score=60.66  Aligned_cols=93  Identities=14%  Similarity=0.219  Sum_probs=64.0

Q ss_pred             CceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc-ccccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCC
Q 000803          249 GKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-SHVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDH  326 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~-~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~  326 (1277)
                      +++=++|+|+++..+...++.+...+-.-.+++.+|.+|.+ ..+...+ +....+.+.+++.++..+.+....   .. 
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~---~~-  206 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG---VA-  206 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC---CC-
Confidence            45568889999998888899988888766667766665555 4444322 223678999999999998887642   11 


Q ss_pred             CchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          327 NALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       327 ~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                         +     ...++..++|.|..+..+
T Consensus       207 ---~-----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        207 ---D-----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             ---h-----HHHHHHHcCCCHHHHHHH
Confidence               1     123577889999755443

>PRK07261 topology modulation protein; Provisional

Probab=96.43  E-value=0.0065  Score=61.07  Aligned_cols=23  Identities=43%  Similarity=0.671  Sum_probs=20.1

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .|.|+|++|+||||||+++....
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999987643

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.43  E-value=0.011  Score=65.17  Aligned_cols=122  Identities=20%  Similarity=0.278  Sum_probs=70.3

Q ss_pred             cchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHH
Q 000803          146 GREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLES  225 (1277)
Q Consensus       146 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~  225 (1277)
                      +|........+++..-...  ...+-+.++|..|+|||.||.++++....+   .+ .+.++++.      .++.++...
T Consensus       135 ~~~~~~~~~~~fi~~~~~~--~~~~gl~L~G~~G~GKThLa~Aia~~l~~~---g~-~v~~~~~~------~l~~~lk~~  202 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPG--EKVKGLYLYGDFGVGKSYLLAAIANELAKK---GV-SSTLLHFP------EFIRELKNS  202 (306)
T ss_pred             HHHHHHHHHHHHHHHhhcc--CCCCeEEEECCCCCCHHHHHHHHHHHHHHc---CC-CEEEEEHH------HHHHHHHHH
Confidence            4444445455555432111  234568999999999999999999865422   23 35566543      444555444


Q ss_pred             hcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHh--hhccccc-C-CCCcEEEEEccc
Q 000803          226 ITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVD--LKAPFLA-A-APNSKMIITTRN  289 (1277)
Q Consensus       226 l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~--l~~~l~~-~-~~~s~iivTtr~  289 (1277)
                      ....     ...+   .+.. + .+-=||||||+..+....|..  +...+.. . ..+-.+|+||--
T Consensus       203 ~~~~-----~~~~---~l~~-l-~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        203 ISDG-----SVKE---KIDA-V-KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             HhcC-----cHHH---HHHH-h-cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            3211     1222   2222 2 245589999998776677864  4444432 2 345678888753

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.42  E-value=0.015  Score=74.33  Aligned_cols=137  Identities=15%  Similarity=0.180  Sum_probs=77.4

Q ss_pred             CccccchhhHHHHHHHHhccccc---CCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAA---DHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      ..++|.+..++.+.+.+......   ......++.++|+.|+|||++|+.+......    .-...+.++.+.-.....+
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~----~~~~~i~~d~s~~~~~~~~  640 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFD----DEDAMVRIDMSEYMEKHSV  640 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcC----CCCcEEEEechhhcccchH
Confidence            46899999999999988653211   1122457889999999999999999764211    1122344444432221111


Q ss_pred             HHHHHHHhcCCCC--CCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccC-----------CCCcEEEE
Q 000803          219 SKALLESITSATC--DLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAA-----------APNSKMII  285 (1277)
Q Consensus       219 ~~~il~~l~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~~s~iiv  285 (1277)
                          ...++....  .......+...+++   ....+|+||++...+...+..+...+-.+           -.++-||+
T Consensus       641 ----~~l~g~~~g~~g~~~~g~l~~~v~~---~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~  713 (852)
T TIGR03346       641 ----ARLIGAPPGYVGYEEGGQLTEAVRR---KPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIM  713 (852)
T ss_pred             ----HHhcCCCCCccCcccccHHHHHHHc---CCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEE
Confidence                111221111  11111223333332   23459999999988888888777666432           13344777


Q ss_pred             Eccc
Q 000803          286 TTRN  289 (1277)
Q Consensus       286 Ttr~  289 (1277)
                      ||..
T Consensus       714 TSn~  717 (852)
T TIGR03346       714 TSNL  717 (852)
T ss_pred             eCCc
Confidence            7654

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.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=96.39  E-value=0.0074  Score=61.44  Aligned_cols=129  Identities=18%  Similarity=0.227  Sum_probs=62.5

Q ss_pred             chhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeC----CCc--CHHHH--
Q 000803          147 REEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVS----DDF--DVLSI--  218 (1277)
Q Consensus       147 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s----~~~--~~~~~--  218 (1277)
                      +..+-...++.|..        ..++.+.|++|.|||.||.+..-+.-..  +.|+.++++.-.    +..  -+-..  
T Consensus         5 ~~~~Q~~~~~al~~--------~~~v~~~G~AGTGKT~LA~a~Al~~v~~--g~~~kiii~Rp~v~~~~~lGflpG~~~e   74 (205)
T PF02562_consen    5 KNEEQKFALDALLN--------NDLVIVNGPAGTGKTFLALAAALELVKE--GEYDKIIITRPPVEAGEDLGFLPGDLEE   74 (205)
T ss_dssp             -SHHHHHHHHHHHH---------SEEEEE--TTSSTTHHHHHHHHHHHHT--TS-SEEEEEE-S--TT----SS------
T ss_pred             CCHHHHHHHHHHHh--------CCeEEEECCCCCcHHHHHHHHHHHHHHh--CCCcEEEEEecCCCCccccccCCCCHHH
Confidence            44455556666652        2489999999999999998877654322  478877776421    111  00000  


Q ss_pred             -----HHHHHHHhcCCCCCCCcHHHHHHHH------HHhhcCc---eEEEEecCcccccHHhHHhhhcccccCCCCcEEE
Q 000803          219 -----SKALLESITSATCDLKTVDEVQVQL------KKAVDGK---RFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMI  284 (1277)
Q Consensus       219 -----~~~il~~l~~~~~~~~~~~~~~~~l------~~~l~~k---r~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~ii  284 (1277)
                           ..-+...+..-. .....+.+.+.-      -.+++|+   ...||+|.+.+....++..+...   .+.|||||
T Consensus        75 K~~p~~~p~~d~l~~~~-~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~skii  150 (205)
T PF02562_consen   75 KMEPYLRPIYDALEELF-GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSKII  150 (205)
T ss_dssp             ---TTTHHHHHHHTTTS--TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-EEE
T ss_pred             HHHHHHHHHHHHHHHHh-ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcEEE
Confidence                 111111111110 111222222110      0245564   46999999998877676666544   46799999


Q ss_pred             EEccc
Q 000803          285 ITTRN  289 (1277)
Q Consensus       285 vTtr~  289 (1277)
                      ++--.
T Consensus       151 ~~GD~  155 (205)
T PF02562_consen  151 ITGDP  155 (205)
T ss_dssp             EEE--
T ss_pred             EecCc
Confidence            98543

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.37  E-value=0.012  Score=74.63  Aligned_cols=137  Identities=16%  Similarity=0.135  Sum_probs=76.2

Q ss_pred             CccccchhhHHHHHHHHhcccc---cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      ..++|.+..++.+.+.+.....   ..+....++.++|+.|+|||.+|+.+....-  .  .....+-++++.-.+.   
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~--~--~~~~~~~~dmse~~~~---  638 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLY--G--GEQNLITINMSEFQEA---  638 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHh--C--CCcceEEEeHHHhhhh---
Confidence            4689999999999988854311   1113346889999999999999998865321  1  1112222333221111   


Q ss_pred             HHHHHHHhcCCCC--CCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCC-----------CCcEEEE
Q 000803          219 SKALLESITSATC--DLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAA-----------PNSKMII  285 (1277)
Q Consensus       219 ~~~il~~l~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~~s~iiv  285 (1277)
                       +.+..-++....  .......+.+.+++   ...-+|+||++...+...++.+...+..+.           .++-||+
T Consensus       639 -~~~~~l~g~~~gyvg~~~~g~L~~~v~~---~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~  714 (852)
T TIGR03345       639 -HTVSRLKGSPPGYVGYGEGGVLTEAVRR---KPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILL  714 (852)
T ss_pred             -hhhccccCCCCCcccccccchHHHHHHh---CCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEE
Confidence             111111221111  11111223334433   456799999998877777777665554332           4556666


Q ss_pred             Eccc
Q 000803          286 TTRN  289 (1277)
Q Consensus       286 Ttr~  289 (1277)
                      ||..
T Consensus       715 TSNl  718 (852)
T TIGR03345       715 TSNA  718 (852)
T ss_pred             eCCC
Confidence            6653

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.

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.37  E-value=0.0048  Score=68.04  Aligned_cols=64  Identities=17%  Similarity=0.248  Sum_probs=47.5

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccc---cccCCcceEEE
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAV---EDSGKFDVKAW  206 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~---~~~~~f~~~~w  206 (1277)
                      .++|.++.++++++++.......+..-+++.++|++|+||||||+.+.+....   ...|.|-..-|
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            69999999999999997654322244689999999999999999999875432   12234555556

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

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.37  E-value=0.013  Score=67.31  Aligned_cols=43  Identities=21%  Similarity=0.268  Sum_probs=37.1

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..++||++.++.+...+..+.        -|.|.|++|+|||++|+.+...
T Consensus        20 ~~i~gre~vI~lll~aalag~--------hVLL~GpPGTGKT~LAraLa~~   62 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE--------SVFLLGPPGIAKSLIARRLKFA   62 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC--------CEEEECCCChhHHHHHHHHHHH
Confidence            468999999999998887653        4789999999999999999763

>PRK06526 transposase; Provisional

Probab=96.33  E-value=0.0047  Score=66.08  Aligned_cols=24  Identities=29%  Similarity=0.279  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .-+.++|++|+|||+||..+.+..
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHH
Confidence            458999999999999999987643

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

Probab=96.33  E-value=0.0091  Score=72.23  Aligned_cols=122  Identities=19%  Similarity=0.264  Sum_probs=74.5

Q ss_pred             CccccchhhHHHHHHHHhcccc---cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCc---ceEEEEEeCCCcCH
Q 000803          142 PVVFGREEDKTKILEMVLTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKF---DVKAWVCVSDDFDV  215 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f---~~~~wv~~s~~~~~  215 (1277)
                      ..++|.+..+..+.+.+.....   ..+....+...+|+.|||||.||++++..       -|   +..+-++.|+-...
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~-------Lfg~e~aliR~DMSEy~Ek  563 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEA-------LFGDEQALIRIDMSEYMEK  563 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHH-------hcCCCccceeechHHHHHH
Confidence            4688999999999888765432   11244578888999999999999998753       23   33444444442211


Q ss_pred             HHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceE-EEEecCcccccHHhHHhhhccccc
Q 000803          216 LSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRF-LLVLDDVWNEDYSLWVDLKAPFLA  276 (1277)
Q Consensus       216 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~-LlVlDdv~~~~~~~~~~l~~~l~~  276 (1277)
                          +.+-+-++.+. .--..++ .-.+-+..+.++| +|.||.|...+.+..+.+...+-+
T Consensus       564 ----HsVSrLIGaPP-GYVGyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDd  619 (786)
T COG0542         564 ----HSVSRLIGAPP-GYVGYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDD  619 (786)
T ss_pred             ----HHHHHHhCCCC-CCceecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcC
Confidence                12222333222 1111111 2234445556776 888999998888777777766644

>PRK12377 putative replication protein; Provisional

Probab=96.33  E-value=0.011  Score=62.83  Aligned_cols=101  Identities=23%  Similarity=0.141  Sum_probs=55.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      ..+.++|..|+|||+||.++++....    ....++++++.      ++...+-.....    .......   ++. + .
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~----~g~~v~~i~~~------~l~~~l~~~~~~----~~~~~~~---l~~-l-~  162 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLA----KGRSVIVVTVP------DVMSRLHESYDN----GQSGEKF---LQE-L-C  162 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHH----cCCCeEEEEHH------HHHHHHHHHHhc----cchHHHH---HHH-h-c
Confidence            56899999999999999999986532    22235666643      333333333211    1111222   222 2 3


Q ss_pred             ceEEEEecCcccccHHhHHh--hhcccccC-CCCcEEEEEccc
Q 000803          250 KRFLLVLDDVWNEDYSLWVD--LKAPFLAA-APNSKMIITTRN  289 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~~s~iivTtr~  289 (1277)
                      +-=||||||+.......|..  +...+... .++--+||||-.
T Consensus       163 ~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl  205 (248)
T PRK12377        163 KVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNL  205 (248)
T ss_pred             CCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCC
Confidence            55699999995543344532  22222221 223456777753

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.31  E-value=0.025  Score=58.36  Aligned_cols=203  Identities=13%  Similarity=0.202  Sum_probs=110.4

Q ss_pred             cccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccc----cccccCCcceEEEEEeCCC-------
Q 000803          144 VFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK----AVEDSGKFDVKAWVCVSDD-------  212 (1277)
Q Consensus       144 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~----~~~~~~~f~~~~wv~~s~~-------  212 (1277)
                      +.++++....+......      +..+-.-++|+.|.||-|.+..+.++.    ..+-  .-+...|.+-+..       
T Consensus        15 l~~~~e~~~~Lksl~~~------~d~PHll~yGPSGaGKKTrimclL~elYG~gvekl--ki~~~t~~tpS~kklEistv   86 (351)
T KOG2035|consen   15 LIYHEELANLLKSLSST------GDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKL--KIETRTFTTPSKKKLEISTV   86 (351)
T ss_pred             cccHHHHHHHHHHhccc------CCCCeEEEECCCCCCchhhHHHHHHHHhCCCchhe--eeeeEEEecCCCceEEEEEe
Confidence            55666666666665432      446788999999999998876554421    1111  2234445443322       


Q ss_pred             ---c-----------CHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC-ceE-EEEecCcccccHHhHHhhhccccc
Q 000803          213 ---F-----------DVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG-KRF-LLVLDDVWNEDYSLWVDLKAPFLA  276 (1277)
Q Consensus       213 ---~-----------~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~-kr~-LlVlDdv~~~~~~~~~~l~~~l~~  276 (1277)
                         +           ..+.+.++++.++.....           +  ..++ +.| ++|+-.+++-..+....+++-.-.
T Consensus        87 sS~yHlEitPSDaG~~DRvViQellKevAQt~q-----------i--e~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEk  153 (351)
T KOG2035|consen   87 SSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQ-----------I--ETQGQRPFKVVVINEADELTRDAQHALRRTMEK  153 (351)
T ss_pred             cccceEEeChhhcCcccHHHHHHHHHHHHhhcc-----------h--hhccccceEEEEEechHhhhHHHHHHHHHHHHH
Confidence               1           122333333333322110           0  0112 233 566666655444555566665555


Q ss_pred             CCCCcEEEEEcccc-cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHHH
Q 000803          277 AAPNSKMIITTRNS-HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLG  354 (1277)
Q Consensus       277 ~~~~s~iivTtr~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  354 (1277)
                      -.+.+|+|+..-+. .+.... ...-.+++...+++|-...+++.+-...    .....+++.+|+++++|.---...+-
T Consensus       154 Ys~~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~----l~lp~~~l~rIa~kS~~nLRrAllml  229 (351)
T KOG2035|consen  154 YSSNCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEG----LQLPKELLKRIAEKSNRNLRRALLML  229 (351)
T ss_pred             HhcCceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhc----ccCcHHHHHHHHHHhcccHHHHHHHH
Confidence            56788888764332 111111 1113478889999999998887763221    12236788999999998754332222


Q ss_pred             hhhcCC-----------ChhhHHHHHhh
Q 000803          355 GLLRTT-----------TYDMWDDILDS  371 (1277)
Q Consensus       355 ~~L~~~-----------~~~~w~~~l~~  371 (1277)
                      ..++-+           ..-+|+-.+.+
T Consensus       230 E~~~~~n~~~~a~~~~i~~~dWe~~i~e  257 (351)
T KOG2035|consen  230 EAVRVNNEPFTANSQVIPKPDWEIYIQE  257 (351)
T ss_pred             HHHHhccccccccCCCCCCccHHHHHHH
Confidence            222111           35678877664

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=96.31  E-value=0.057  Score=61.46  Aligned_cols=46  Identities=15%  Similarity=0.212  Sum_probs=34.0

Q ss_pred             hhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccc
Q 000803          148 EEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       148 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~  196 (1277)
                      +.-.+.+.+.+.....   ....+|+|.|.-|+|||++.+.+.+.....
T Consensus         2 ~~~a~~la~~I~~~~~---~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDS---DDPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             hHHHHHHHHHHhccCC---CCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            3445667777765432   456899999999999999999997755443

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=96.28  E-value=0.15  Score=57.31  Aligned_cols=206  Identities=13%  Similarity=0.174  Sum_probs=120.2

Q ss_pred             chhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHH-HHHhccccccccCCcceEEEEEeCCC---cCHHHHHHHH
Q 000803          147 REEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLA-REVYNDKAVEDSGKFDVKAWVCVSDD---FDVLSISKAL  222 (1277)
Q Consensus       147 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa-~~~~~~~~~~~~~~f~~~~wv~~s~~---~~~~~~~~~i  222 (1277)
                      |.+..++|..||....      -.+|.|.|+-|.||+.|+ .++..+.+        .+..+++.+-   -+-......+
T Consensus         1 R~e~~~~L~~wL~e~~------~TFIvV~GPrGSGK~elV~d~~L~~r~--------~vL~IDC~~i~~ar~D~~~I~~l   66 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENP------NTFIVVQGPRGSGKRELVMDHVLKDRK--------NVLVIDCDQIVKARGDAAFIKNL   66 (431)
T ss_pred             CchHHHHHHHHHhcCC------CeEEEEECCCCCCccHHHHHHHHhCCC--------CEEEEEChHhhhccChHHHHHHH
Confidence            6678899999998753      269999999999999999 77766432        2455554321   1233334444


Q ss_pred             HHHhc-----------------------CCCCC-CCcH-HHHHH-------HHHH-------------------hhc---
Q 000803          223 LESIT-----------------------SATCD-LKTV-DEVQV-------QLKK-------------------AVD---  248 (1277)
Q Consensus       223 l~~l~-----------------------~~~~~-~~~~-~~~~~-------~l~~-------------------~l~---  248 (1277)
                      +.++|                       ++..+ ..+. .++..       .|++                   +++   
T Consensus        67 A~qvGY~PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hP  146 (431)
T PF10443_consen   67 ASQVGYFPVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHP  146 (431)
T ss_pred             HHhcCCCcchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCC
Confidence            44433                       22211 1111 12221       1221                   111   


Q ss_pred             CceEEEEecCccccc---------HHhHHhhhcccccCCCCcEEEEEcccccccccc------CCCceeecCCCCHHHHH
Q 000803          249 GKRFLLVLDDVWNED---------YSLWVDLKAPFLAAAPNSKMIITTRNSHVASTM------GPIDHYNLEHLLDDDCW  313 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~---------~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~~~------~~~~~~~l~~L~~~~~~  313 (1277)
                      .+|=+||+|++-...         ..+|....    -..+=.+||++|-+......+      ...+.+.+.-.+.+.|.
T Consensus       147 e~~PVVVIdnF~~k~~~~~~iy~~laeWAa~L----v~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak  222 (431)
T PF10443_consen  147 ERRPVVVIDNFLHKAEENDFIYDKLAEWAASL----VQNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAK  222 (431)
T ss_pred             ccCCEEEEcchhccCcccchHHHHHHHHHHHH----HhcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHH
Confidence            135689999984321         12343322    123456899998876554432      23356889999999999


Q ss_pred             HHHHHhhcCCCCC------------Cch----hhHHHHHHHHHhhcCCchHHHHHHHhhhcCC-C-hhhHHHHHh
Q 000803          314 SIFKTHAFEGRDH------------NAL----EISESFRKKVVGKCGGLPLAAKTLGGLLRTT-T-YDMWDDILD  370 (1277)
Q Consensus       314 ~Lf~~~~~~~~~~------------~~~----~~~~~~~~~i~~~c~glPLai~~~~~~L~~~-~-~~~w~~~l~  370 (1277)
                      ++...+.-.....            ...    ....+.....++..||=-.-+..+++.++.. + .+....+.+
T Consensus       223 ~yV~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p~~Av~~iI~  297 (431)
T PF10443_consen  223 QYVLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESPEEAVEEIIS  297 (431)
T ss_pred             HHHHHHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            9998887532110            000    1233344567888999999999999988876 3 333444443

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.22  E-value=0.026  Score=64.32  Aligned_cols=147  Identities=16%  Similarity=0.172  Sum_probs=84.6

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccc-----------------cCCcceEE
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED-----------------SGKFDVKA  205 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~-----------------~~~f~~~~  205 (1277)
                      .++|-+....++..+.....    .....+-++|+.|+||||+|..+.+..-...                 .+....+.
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~l   77 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFL   77 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceE
Confidence            35677777888888876442    1223589999999999999998877442111                 00112333


Q ss_pred             EEEeCCCcC---HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCCCCcE
Q 000803          206 WVCVSDDFD---VLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSK  282 (1277)
Q Consensus       206 wv~~s~~~~---~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~  282 (1277)
                      .++.++...   ..+..+++.+......                ..+++-++++|+++....+.-..+...+-.....++
T Consensus        78 el~~s~~~~~~i~~~~vr~~~~~~~~~~----------------~~~~~kviiidead~mt~~A~nallk~lEep~~~~~  141 (325)
T COG0470          78 ELNPSDLRKIDIIVEQVRELAEFLSESP----------------LEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTR  141 (325)
T ss_pred             EecccccCCCcchHHHHHHHHHHhccCC----------------CCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeE
Confidence            444443332   1222222222222111                035678999999988776666667666666667888


Q ss_pred             EEEEcccc-cccccc-CCCceeecCCCCH
Q 000803          283 MIITTRNS-HVASTM-GPIDHYNLEHLLD  309 (1277)
Q Consensus       283 iivTtr~~-~v~~~~-~~~~~~~l~~L~~  309 (1277)
                      +|++|... .+...+ .....+++.+.+.
T Consensus       142 ~il~~n~~~~il~tI~SRc~~i~f~~~~~  170 (325)
T COG0470         142 FILITNDPSKILPTIRSRCQRIRFKPPSR  170 (325)
T ss_pred             EEEEcCChhhccchhhhcceeeecCCchH
Confidence            88888743 333222 1123466666333

>PRK06921 hypothetical protein; Provisional

Probab=96.19  E-value=0.014  Score=63.18  Aligned_cols=38  Identities=21%  Similarity=0.155  Sum_probs=27.7

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEe
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCV  209 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~  209 (1277)
                      ..-+.++|..|+|||+||.++++....+.   -..++|++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~---g~~v~y~~~  154 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKK---GVPVLYFPF  154 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhc---CceEEEEEH
Confidence            35689999999999999999988543221   234567664

>PRK09183 transposase/IS protein; Provisional

Probab=96.17  E-value=0.012  Score=63.44  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..+.|+|++|+|||+||..+.+.
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~  125 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYE  125 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHH
Confidence            46779999999999999999764

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.14  E-value=0.024  Score=72.35  Aligned_cols=136  Identities=15%  Similarity=0.170  Sum_probs=75.7

Q ss_pred             CccccchhhHHHHHHHHhcccc---cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      ..++|.+..++.+.+.+.....   ..+.....+.++|+.|+|||+||+.+++..--    .-...+-++.+.-.+...+
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~----~~~~~~~~d~s~~~~~~~~  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFG----SEDAMIRLDMSEYMEKHTV  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcC----CccceEEEEchhccccccH
Confidence            4688999999999888764321   11122356778999999999999998763210    0122334444432221111


Q ss_pred             HHHHHHHhcCCCC--CCCcHHHHHHHHHHhhcCce-EEEEecCcccccHHhHHhhhcccccC-----------CCCcEEE
Q 000803          219 SKALLESITSATC--DLKTVDEVQVQLKKAVDGKR-FLLVLDDVWNEDYSLWVDLKAPFLAA-----------APNSKMI  284 (1277)
Q Consensus       219 ~~~il~~l~~~~~--~~~~~~~~~~~l~~~l~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~~s~ii  284 (1277)
                          ..-++.+..  .......+    .+.++.++ .+++||++...+...+..+...+-.+           -.++-||
T Consensus       585 ----~~l~g~~~gyvg~~~~~~l----~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I  656 (821)
T CHL00095        585 ----SKLIGSPPGYVGYNEGGQL----TEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLII  656 (821)
T ss_pred             ----HHhcCCCCcccCcCccchH----HHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEE
Confidence                111221110  11111223    33343444 58999999888877777777665432           1345566


Q ss_pred             EEccc
Q 000803          285 ITTRN  289 (1277)
Q Consensus       285 vTtr~  289 (1277)
                      +||..
T Consensus       657 ~Tsn~  661 (821)
T CHL00095        657 MTSNL  661 (821)
T ss_pred             EeCCc
Confidence            66654

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

Probab=96.10  E-value=0.00079  Score=81.90  Aligned_cols=236  Identities=19%  Similarity=0.247  Sum_probs=114.0

Q ss_pred             ccccccceeEeeccCCccccc---CCCCCCcccceeeccccccceeccCC-CCCcccc----CcCccccccCceeeecCC
Q 000803          976 DNNSRLESLYIGYCGSLKFVT---KGKLPSSLKSLQIENLTLESLKIRDC-PQLTCLS----SGIHLLEALEDLHIRNCP 1047 (1277)
Q Consensus       976 ~~l~~L~~L~l~~c~~l~~~~---~~~~~~sL~~L~l~~~~L~~L~l~~~-~~l~~l~----~~~~~l~~L~~L~l~~c~ 1047 (1277)
                      ..+++|+.|.+..|..+....   ......          .|+.|++++| ......+    .....+++|+.|++++|.
T Consensus       185 ~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~----------~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~  254 (482)
T KOG1947|consen  185 SSCPLLKRLSLSGCSKITDDSLDALALKCP----------NLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCG  254 (482)
T ss_pred             hhCchhhHhhhcccccCChhhHHHHHhhCc----------hhheecccCcccccccchhHhhhhhhhcCCcCccchhhhh
Confidence            457889999998887665321   111112          3555555542 2211111    122244667777777776


Q ss_pred             Ccccc-----ccccccccEEEecccCCccccccc---CccCcccEEEeeccccccc--CcCCCCCCCCcCEEeccCCCCc
Q 000803         1048 KLESI-----PKGLHKLRSIYIKKCPSLVSLAEK---GLPNTISHVTISYCEKLDA--LPNGMHKLQSLQYLKIKECPSI 1117 (1277)
Q Consensus      1048 ~l~~~-----p~~l~~L~~L~l~~c~~l~~l~~~---~~~~~L~~L~l~~~~~l~~--lp~~l~~l~~L~~L~l~~c~~l 1117 (1277)
                      .+...     ....++|+.|.+.+|..+++....   ...++|++|++++|..+..  +.....++++|+.|.+..+.. 
T Consensus       255 ~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~~~~~~-  333 (482)
T KOG1947|consen  255 LVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKLLSLNG-  333 (482)
T ss_pred             ccCchhHHHHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhhhhcCC-
Confidence            43322     122446777776666654433221   1223566666666655421  111122344444443333221 


Q ss_pred             ccccCCCCCCCCceEEEccccCccch--hhhhhhcccccCCcccccccccCCCccCchhhhhccCCcccceeeecccccc
Q 000803         1118 LSFSEEGFPTNLKLIRIGGGVDAKMY--KAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKL 1195 (1277)
Q Consensus      1118 ~~l~~~~~~~~L~~L~l~~~~~~~~l--~~~~~~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~~~~~~L~~L~l~~~~~l 1195 (1277)
                              ...++.+.+.+   |...  ..........++.|+.+.+.+|. .....            ..+.+.+|+++
T Consensus       334 --------c~~l~~~~l~~---~~~~~~d~~~~~~~~~~~~l~~~~l~~~~-~~~~~------------~~~~l~gc~~l  389 (482)
T KOG1947|consen  334 --------CPSLTDLSLSG---LLTLTSDDLAELILRSCPKLTDLSLSYCG-ISDLG------------LELSLRGCPNL  389 (482)
T ss_pred             --------CccHHHHHHHH---hhccCchhHhHHHHhcCCCcchhhhhhhh-ccCcc------------hHHHhcCCccc
Confidence                    01111111111   1111  11222234556666666666654 22211            14567778777


Q ss_pred             -cccCccCCCCCCCCCceeccCCCCCCCCCCCCC---CCccceeeccCChhhHHHh
Q 000803         1196 -KYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGL---PSSLLSLEIKNCPKLRKQC 1247 (1277)
Q Consensus      1196 -~~l~~~~~~~l~~L~~L~l~~c~~l~~lp~~~~---~~~L~~L~i~~c~~L~~~~ 1247 (1277)
                       ..+.. -.....+|+.|+++.|...+.--....   ..++..+++.+|+......
T Consensus       390 ~~~l~~-~~~~~~~l~~L~l~~~~~~t~~~l~~~~~~~~~~~~l~~~~~~~~~~~~  444 (482)
T KOG1947|consen  390 TESLEL-RLCRSDSLRVLNLSDCRLVTDKGLRCLADSCSNLKDLDLSGCRVITLKS  444 (482)
T ss_pred             chHHHH-HhccCCccceEecccCccccccchHHHhhhhhccccCCccCcccccchh
Confidence             33331 123334489999999876554321111   4567888888888766543

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=96.05  E-value=0.011  Score=58.93  Aligned_cols=102  Identities=19%  Similarity=0.210  Sum_probs=61.6

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..+||-++-++.+--.-.+      ++.+-+.|.||+|+||||-+..+++..--..  .-+.+.-.++|           
T Consensus        27 ~dIVGNe~tv~rl~via~~------gnmP~liisGpPG~GKTTsi~~LAr~LLG~~--~ke~vLELNAS-----------   87 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKE------GNMPNLIISGPPGTGKTTSILCLARELLGDS--YKEAVLELNAS-----------   87 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHc------CCCCceEeeCCCCCchhhHHHHHHHHHhChh--hhhHhhhccCc-----------
Confidence            4689988888876544332      5567889999999999998877765321110  11222222222           


Q ss_pred             HHHHhcCCCCCCCcHHHHHHHHHHhhc-------CceEEEEecCcccccHHhHHhhhc
Q 000803          222 LLESITSATCDLKTVDEVQVQLKKAVD-------GKRFLLVLDDVWNEDYSLWVDLKA  272 (1277)
Q Consensus       222 il~~l~~~~~~~~~~~~~~~~l~~~l~-------~kr~LlVlDdv~~~~~~~~~~l~~  272 (1277)
                                +....+.+...++.+.+       ++--.||||..++........+++
T Consensus        88 ----------deRGIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRR  135 (333)
T KOG0991|consen   88 ----------DERGIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRR  135 (333)
T ss_pred             ----------cccccHHHHHHHHHHHHhhccCCCCceeEEEeeccchhhhHHHHHHHH
Confidence                      33445555555555443       344578999998865544444443

>PRK04132 replication factor C small subunit; Provisional

Probab=96.02  E-value=0.095  Score=65.22  Aligned_cols=154  Identities=13%  Similarity=0.029  Sum_probs=94.3

Q ss_pred             cCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEe
Q 000803          177 MGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVL  256 (1277)
Q Consensus       177 ~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVl  256 (1277)
                      +.|+||||+|..++++.--..  .-..++-+++++...... .++++..+.....              .-..+.-++|+
T Consensus       574 Ph~lGKTT~A~ala~~l~g~~--~~~~~lElNASd~rgid~-IR~iIk~~a~~~~--------------~~~~~~KVvII  636 (846)
T PRK04132        574 PTVLHNTTAALALARELFGEN--WRHNFLELNASDERGINV-IREKVKEFARTKP--------------IGGASFKIIFL  636 (846)
T ss_pred             CCcccHHHHHHHHHHhhhccc--ccCeEEEEeCCCcccHHH-HHHHHHHHHhcCC--------------cCCCCCEEEEE
Confidence            788999999999988531110  112356677776544443 3333333221110              00124579999


Q ss_pred             cCcccccHHhHHhhhcccccCCCCcEEEEEcccc-cccccc-CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHH
Q 000803          257 DDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISES  334 (1277)
Q Consensus       257 Ddv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~  334 (1277)
                      |+++......+..++..+-.....+++|.+|.+. .+.... .....+.+++++.++-...+...+-...-    ...++
T Consensus       637 DEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi----~i~~e  712 (846)
T PRK04132        637 DEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGL----ELTEE  712 (846)
T ss_pred             ECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCC----CCCHH
Confidence            9999888777888877776555667777766553 333222 22357999999999988877765532111    11245


Q ss_pred             HHHHHHhhcCCchHHHH
Q 000803          335 FRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       335 ~~~~i~~~c~glPLai~  351 (1277)
                      ....|++.++|-+-.+.
T Consensus       713 ~L~~Ia~~s~GDlR~AI  729 (846)
T PRK04132        713 GLQAILYIAEGDMRRAI  729 (846)
T ss_pred             HHHHHHHHcCCCHHHHH
Confidence            66789999999885443

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.01  E-value=0.061  Score=63.27  Aligned_cols=180  Identities=13%  Similarity=0.052  Sum_probs=88.0

Q ss_pred             ccccchhhHHHHHHHHh---cc-cccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          143 VVFGREEDKTKILEMVL---TD-TAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~---~~-~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      .+.|.+..++.+.+...   .. ...+-...+-|-++|++|+|||.+|+.+++....    .|   +-+..+.      +
T Consensus       229 dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~----~~---~~l~~~~------l  295 (489)
T CHL00195        229 DIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQL----PL---LRLDVGK------L  295 (489)
T ss_pred             HhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC----CE---EEEEhHH------h
Confidence            56676665555543221   10 0001123467889999999999999999885422    22   1122111      1


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccH--------HhHHh----hhcccccCCCCcEEEEE
Q 000803          219 SKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDY--------SLWVD----LKAPFLAAAPNSKMIIT  286 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--------~~~~~----l~~~l~~~~~~s~iivT  286 (1277)
                      .    .    ... ......+.+.++..-...+++|++|+++..-.        ..-..    +...+.....+--||.|
T Consensus       296 ~----~----~~v-Gese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaT  366 (489)
T CHL00195        296 F----G----GIV-GESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVAT  366 (489)
T ss_pred             c----c----ccc-ChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEe
Confidence            0    0    000 01112222223322235789999999953110        00011    11111122334446667


Q ss_pred             cccccc-cccc----CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch
Q 000803          287 TRNSHV-ASTM----GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP  347 (1277)
Q Consensus       287 tr~~~v-~~~~----~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  347 (1277)
                      |...+. -..+    .-...+.++.-+.++-.++|..+..........   ......+++.+.|+-
T Consensus       367 TN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~---~~dl~~La~~T~GfS  429 (489)
T CHL00195        367 ANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWK---KYDIKKLSKLSNKFS  429 (489)
T ss_pred             cCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCccc---ccCHHHHHhhcCCCC
Confidence            755432 1111    223568888889999999998877432211100   111245666666653

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.99  E-value=0.061  Score=59.90  Aligned_cols=89  Identities=13%  Similarity=0.164  Sum_probs=49.2

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC--HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD--VLSISKALLESITSATCDLKTVDEVQVQLKK  245 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~--~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~  245 (1277)
                      ..++|+++|++|+||||++..++.....+   .+ .+..++. +.+.  ..+-++...+.++.+.....+.+++.+.+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~---Gk-kVglI~a-Dt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~  314 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGK---KK-TVGFITT-DHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTY  314 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHc---CC-cEEEEec-CCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHH
Confidence            45899999999999999999997643211   22 3444443 3333  2222333333333332223455566655554


Q ss_pred             hhcC-ceEEEEecCccc
Q 000803          246 AVDG-KRFLLVLDDVWN  261 (1277)
Q Consensus       246 ~l~~-kr~LlVlDdv~~  261 (1277)
                      .-.. +.=+|++|-...
T Consensus       315 lk~~~~~DvVLIDTaGR  331 (436)
T PRK11889        315 FKEEARVDYILIDTAGK  331 (436)
T ss_pred             HHhccCCCEEEEeCccc
Confidence            4321 234677887754

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=95.96  E-value=0.0034  Score=38.09  Aligned_cols=21  Identities=33%  Similarity=0.621  Sum_probs=11.7

Q ss_pred             ccceeeccCCccccccccccc
Q 000803          577 LLRYLNLADTDIRSLPESSCS  597 (1277)
Q Consensus       577 ~Lr~L~L~~~~i~~lp~~i~~  597 (1277)
                      +|++|+|++|.++.+|.+|++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            355666666665555555443

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 ....

>PRK06835 DNA replication protein DnaC; Validated

Probab=95.91  E-value=0.0081  Score=66.76  Aligned_cols=102  Identities=22%  Similarity=0.197  Sum_probs=54.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      .-+.++|..|+|||+||..+++....+   . ..++++++.+      ++..+...-...   ..+....   +. .+. 
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~---g-~~V~y~t~~~------l~~~l~~~~~~~---~~~~~~~---~~-~l~-  245 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDR---G-KSVIYRTADE------LIEILREIRFNN---DKELEEV---YD-LLI-  245 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHC---C-CeEEEEEHHH------HHHHHHHHHhcc---chhHHHH---HH-Hhc-
Confidence            568999999999999999998854322   2 2466766433      232222211110   1111111   22 222 


Q ss_pred             ceEEEEecCcccccHHhHHh--hhcccccC-CCCcEEEEEccc
Q 000803          250 KRFLLVLDDVWNEDYSLWVD--LKAPFLAA-APNSKMIITTRN  289 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~~s~iivTtr~  289 (1277)
                      +-=||||||+.......|..  +...+... ..+-.+||||..
T Consensus       246 ~~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        246 NCDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             cCCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            22489999996654344432  22222221 235568888864

>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=95.91  E-value=0.0057  Score=57.76  Aligned_cols=22  Identities=50%  Similarity=0.635  Sum_probs=20.3

Q ss_pred             EEEEEccCCCcHHHHHHHHhcc
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      +|+|+|++|+||||+|+.+.+.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999874

...

>PRK04296 thymidine kinase; Provisional

Probab=95.88  E-value=0.017  Score=59.27  Aligned_cols=114  Identities=11%  Similarity=-0.034  Sum_probs=61.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCC--CCcHHHHHHHHHHhh
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCD--LKTVDEVQVQLKKAV  247 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~l~~~l  247 (1277)
                      .++.|+|..|.||||+|..++.....    +-..++.+.  ..++.......++..++.....  ....+++.+.+++ .
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~----~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~   75 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEE----RGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-E   75 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHH----cCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-h
Confidence            57889999999999999888764322    222333332  1112122222344444322111  2234455555555 3


Q ss_pred             cCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccccc
Q 000803          248 DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHV  292 (1277)
Q Consensus       248 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v  292 (1277)
                      .++.-+||+|.+.--+.++..++...+  ...|..||+|.++...
T Consensus        76 ~~~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~~  118 (190)
T PRK04296         76 GEKIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTDF  118 (190)
T ss_pred             CCCCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCccc
Confidence            334558999999653222222233222  2357899999888543

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.85  E-value=0.028  Score=61.69  Aligned_cols=87  Identities=20%  Similarity=0.263  Sum_probs=47.4

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC--HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD--VLSISKALLESITSATCDLKTVDEVQVQLKK  245 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~--~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~  245 (1277)
                      ..++++|+|++|+||||++..++.....+. +.+ .+..|+... +.  ....+....+.++.......+..++...+.+
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~-g~~-~V~li~~D~-~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~  269 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEH-GNK-KVALITTDT-YRIGAVEQLKTYAKILGVPVKVARDPKELRKALDR  269 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHc-CCC-eEEEEECCc-cchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHH
Confidence            457999999999999999998876443221 112 345555432 22  2222333333333332223344555555554


Q ss_pred             hhcCceEEEEecCc
Q 000803          246 AVDGKRFLLVLDDV  259 (1277)
Q Consensus       246 ~l~~kr~LlVlDdv  259 (1277)
                      . .+ .=+|++|..
T Consensus       270 ~-~~-~d~vliDt~  281 (282)
T TIGR03499       270 L-RD-KDLILIDTA  281 (282)
T ss_pred             c-cC-CCEEEEeCC
Confidence            3 33 347777754

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.84  E-value=0.033  Score=56.37  Aligned_cols=109  Identities=21%  Similarity=0.259  Sum_probs=65.6

Q ss_pred             CCCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          139 PTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       139 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      ++-..++|-+...+.+++--..-...  ....-|-+||.-|.|||.|++++.+....+.    -.  -|.|.+.      
T Consensus        57 i~L~~l~Gvd~qk~~L~~NT~~F~~G--~pANnVLLwGaRGtGKSSLVKA~~~e~~~~g----lr--LVEV~k~------  122 (287)
T COG2607          57 IDLADLVGVDRQKEALVRNTEQFAEG--LPANNVLLWGARGTGKSSLVKALLNEYADEG----LR--LVEVDKE------  122 (287)
T ss_pred             cCHHHHhCchHHHHHHHHHHHHHHcC--CcccceEEecCCCCChHHHHHHHHHHHHhcC----Ce--EEEEcHH------
Confidence            34457899999988887643221110  2234578999999999999999988554332    11  2333321      


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccc-cHHhHHhhhccccc
Q 000803          219 SKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNE-DYSLWVDLKAPFLA  276 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~  276 (1277)
                                   +..+...+.+.++.  ..+||.|..||..-+ ....+..++..+-.
T Consensus       123 -------------dl~~Lp~l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG  166 (287)
T COG2607         123 -------------DLATLPDLVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEG  166 (287)
T ss_pred             -------------HHhhHHHHHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcC
Confidence                         11223333344432  368999999999433 23456666666644

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

Probab=95.83  E-value=0.0045  Score=60.13  Aligned_cols=87  Identities=23%  Similarity=0.141  Sum_probs=46.8

Q ss_pred             EEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCce
Q 000803          172 IPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKR  251 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr  251 (1277)
                      |.++|.+|+|||+||+.++....       ....-+.++...+..++....--.  ... .......+...+     .+.
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~-------~~~~~i~~~~~~~~~dl~g~~~~~--~~~-~~~~~~~l~~a~-----~~~   66 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLG-------RPVIRINCSSDTTEEDLIGSYDPS--NGQ-FEFKDGPLVRAM-----RKG   66 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHT-------CEEEEEE-TTTSTHHHHHCEEET---TTT-TCEEE-CCCTTH-----HEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh-------cceEEEEeccccccccceeeeeec--ccc-cccccccccccc-----cce
Confidence            67999999999999999987431       123445677776766554321111  000 000000000011     178


Q ss_pred             EEEEecCcccccHHhHHhhhcc
Q 000803          252 FLLVLDDVWNEDYSLWVDLKAP  273 (1277)
Q Consensus       252 ~LlVlDdv~~~~~~~~~~l~~~  273 (1277)
                      .++|||++.......+..+...
T Consensus        67 ~il~lDEin~a~~~v~~~L~~l   88 (139)
T PF07728_consen   67 GILVLDEINRAPPEVLESLLSL   88 (139)
T ss_dssp             EEEEESSCGG--HHHHHTTHHH
T ss_pred             eEEEECCcccCCHHHHHHHHHH
Confidence            9999999987655545554433

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.

>PRK06696 uridine kinase; Validated

Probab=95.79  E-value=0.011  Score=62.49  Aligned_cols=45  Identities=27%  Similarity=0.303  Sum_probs=35.7

Q ss_pred             cchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          146 GREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       146 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .|.+-+++|.+.+.....   +...+|+|.|.+|+||||||+.+....
T Consensus         2 ~~~~~~~~la~~~~~~~~---~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          2 SRKQLIKELAEHILTLNL---TRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             cHHHHHHHHHHHHHHhCC---CCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            366777888888765332   567899999999999999999998743

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=95.79  E-value=0.0051  Score=62.83  Aligned_cols=84  Identities=23%  Similarity=0.249  Sum_probs=52.4

Q ss_pred             CCCeeeEEecCCCCCCC-----CCcCCCCCCccceeeccCCcc----ccccc-------cccccccCcEEEecCCcCccc
Q 000803          551 KFKKLRLLSLQGYYIGE-----LPIPFEDLRLLRYLNLADTDI----RSLPE-------SSCSLLNLEILILRNCSSLIK  614 (1277)
Q Consensus       551 ~l~~Lr~L~L~~~~i~~-----lp~~~~~l~~Lr~L~L~~~~i----~~lp~-------~i~~L~~L~~L~L~~~~~l~~  614 (1277)
                      .+..+..++|+||.|+.     +...|.+-++|+.-+++.-..    .++|+       .+-++++|++.+|+.|..-..
T Consensus        28 ~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~  107 (388)
T COG5238          28 MMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSE  107 (388)
T ss_pred             hhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcc
Confidence            46788899999998743     455677778888888876421    13343       335566777777776543334


Q ss_pred             cchh----hccccCcCeeeecCcc
Q 000803          615 LPSK----IRRLINLCHLDIRGAI  634 (1277)
Q Consensus       615 lp~~----i~~L~~L~~L~l~~~~  634 (1277)
                      .|+.    |.+-+.|.||.+++|.
T Consensus       108 ~~e~L~d~is~~t~l~HL~l~NnG  131 (388)
T COG5238         108 FPEELGDLISSSTDLVHLKLNNNG  131 (388)
T ss_pred             cchHHHHHHhcCCCceeEEeecCC
Confidence            4443    3444566666666654

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.78  E-value=0.023  Score=66.53  Aligned_cols=77  Identities=18%  Similarity=0.266  Sum_probs=55.4

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      +.-+++-++|++|+||||||.-++++.      .| .++=|++|+.-....+-..|...+.......             
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqa------GY-sVvEINASDeRt~~~v~~kI~~avq~~s~l~-------------  383 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQA------GY-SVVEINASDERTAPMVKEKIENAVQNHSVLD-------------  383 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhc------Cc-eEEEecccccccHHHHHHHHHHHHhhccccc-------------
Confidence            567899999999999999999998753      33 4677888888777777666665554322110             


Q ss_pred             hcCceEEEEecCccccc
Q 000803          247 VDGKRFLLVLDDVWNED  263 (1277)
Q Consensus       247 l~~kr~LlVlDdv~~~~  263 (1277)
                      ..+++.-+|+|.++-..
T Consensus       384 adsrP~CLViDEIDGa~  400 (877)
T KOG1969|consen  384 ADSRPVCLVIDEIDGAP  400 (877)
T ss_pred             cCCCcceEEEecccCCc
Confidence            01577888999987654

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.77  E-value=0.034  Score=59.24  Aligned_cols=46  Identities=15%  Similarity=0.141  Sum_probs=34.2

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      .-.++.|+|.+|+|||++|.+++.....    .-..++|++.. .++...+
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~~----~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAAK----NGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH----CCCeEEEEECC-CCCHHHH
Confidence            3479999999999999999998764422    23568899877 5555443

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=95.75  E-value=0.029  Score=58.96  Aligned_cols=49  Identities=14%  Similarity=0.134  Sum_probs=35.8

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHH
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      +.-.++-|+|.+|+|||++|.+++....  .  .-..++|++... +...++.+
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~~~--~--~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVNAA--R--QGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH--h--CCCeEEEEECCC-CCHHHHHH
Confidence            3458999999999999999999876432  1  335789999875 55554443

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>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=95.75  E-value=0.038  Score=55.06  Aligned_cols=46  Identities=24%  Similarity=0.393  Sum_probs=32.9

Q ss_pred             cccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          144 VFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       144 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      +||....+.++++.+.....   .. .-|.|+|..|+||+.+|+.+++..
T Consensus         1 liG~s~~m~~~~~~~~~~a~---~~-~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAAS---SD-LPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTT---ST-S-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             CEeCCHHHHHHHHHHHHHhC---CC-CCEEEEcCCCCcHHHHHHHHHHhh
Confidence            47888888888887765432   22 345699999999999999998843

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 ....

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.72  E-value=0.1  Score=55.77  Aligned_cols=172  Identities=17%  Similarity=0.183  Sum_probs=91.5

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHH-HHHHH
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVL-SISKA  221 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~-~~~~~  221 (1277)
                      .++|-.++..++-.++......  +...-+.|+|+.|.|||+|...+..+.  +.  .-+..+-|........+ -.++.
T Consensus        25 ~l~g~~~~~~~l~~~lkqt~~~--gEsnsviiigprgsgkT~li~~~Ls~~--q~--~~E~~l~v~Lng~~~~dk~al~~   98 (408)
T KOG2228|consen   25 NLFGVQDEQKHLSELLKQTILH--GESNSVIIIGPRGSGKTILIDTRLSDI--QE--NGENFLLVRLNGELQTDKIALKG   98 (408)
T ss_pred             ceeehHHHHHHHHHHHHHHHHh--cCCCceEEEccCCCCceEeeHHHHhhH--Hh--cCCeEEEEEECccchhhHHHHHH
Confidence            4789888888888888664322  334567899999999999998887762  11  11222334444433222 23344


Q ss_pred             HHHHhc----CCCCCCCcHHHHHHHHHHhhc------CceEEEEecCcccccHHhHHhhhccc-----ccCCCCcEEEEE
Q 000803          222 LLESIT----SATCDLKTVDEVQVQLKKAVD------GKRFLLVLDDVWNEDYSLWVDLKAPF-----LAAAPNSKMIIT  286 (1277)
Q Consensus       222 il~~l~----~~~~~~~~~~~~~~~l~~~l~------~kr~LlVlDdv~~~~~~~~~~l~~~l-----~~~~~~s~iivT  286 (1277)
                      |.+++.    .......+..+....+-+.|+      +-++..|+|.++-.....-..+.-.+     ....+=|-|-+|
T Consensus        99 I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~T  178 (408)
T KOG2228|consen   99 ITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVT  178 (408)
T ss_pred             HHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEee
Confidence            444443    222122222222223333332      23678888877542111101111111     123456778889


Q ss_pred             cccc-------ccccccCCCceeecCCCCHHHHHHHHHHhh
Q 000803          287 TRNS-------HVASTMGPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       287 tr~~-------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      ||-.       .|-.......++-++.+.-++...++++..
T Consensus       179 trld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  179 TRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             ccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            9864       333333333456667777788777777655

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

Probab=95.72  E-value=0.043  Score=68.18  Aligned_cols=119  Identities=14%  Similarity=0.170  Sum_probs=67.0

Q ss_pred             ccccchhhHHHHHHHHhcccc---cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHH
Q 000803          143 VVFGREEDKTKILEMVLTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~  219 (1277)
                      .++|.++.++.+.+.+.....   ..+.....+.++|+.|+|||++|+.++....  .  .   .+.++.+.-....   
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~--~--~---~i~id~se~~~~~---  528 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG--I--E---LLRFDMSEYMERH---  528 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC--C--C---cEEeechhhcccc---
Confidence            578989988888888763211   1112345789999999999999999977431  1  2   2344444322111   


Q ss_pred             HHHHHHhcCCCC--CCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccc
Q 000803          220 KALLESITSATC--DLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFL  275 (1277)
Q Consensus       220 ~~il~~l~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~  275 (1277)
                       .+..-++.+..  .......+.+.++   +....+|+||++...+.+.+..+...+-
T Consensus       529 -~~~~LiG~~~gyvg~~~~g~L~~~v~---~~p~sVlllDEieka~~~v~~~LLq~ld  582 (758)
T PRK11034        529 -TVSRLIGAPPGYVGFDQGGLLTDAVI---KHPHAVLLLDEIEKAHPDVFNLLLQVMD  582 (758)
T ss_pred             -cHHHHcCCCCCcccccccchHHHHHH---hCCCcEEEeccHhhhhHHHHHHHHHHHh
Confidence             11112222111  0011112222222   1234699999998887777777766553

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.71  E-value=0.054  Score=57.79  Aligned_cols=92  Identities=16%  Similarity=0.132  Sum_probs=54.4

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccc--cCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCC---------CCCCcH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWVCVSDDFDVLSISKALLESITSAT---------CDLKTV  236 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~--~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~---------~~~~~~  236 (1277)
                      .-.++.|+|.+|+|||+||.+++.......  .+.=..++|++....++...+. ++.+......         ....+.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~~   96 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARPYNG   96 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeCCCH
Confidence            347999999999999999999875432110  0011467899987777665443 3333322110         012344


Q ss_pred             HHHHHHHHHhhc----CceEEEEecCcc
Q 000803          237 DEVQVQLKKAVD----GKRFLLVLDDVW  260 (1277)
Q Consensus       237 ~~~~~~l~~~l~----~kr~LlVlDdv~  260 (1277)
                      +++...+++..+    .+.-++|+|.+.
T Consensus        97 ~~~~~~l~~~~~~~~~~~~~lvVIDsis  124 (226)
T cd01393          97 EQQLEIVEELERIMSSGRVDLVVVDSVA  124 (226)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEcCcc
Confidence            555555554432    345589999984

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.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=95.69  E-value=0.091  Score=58.63  Aligned_cols=71  Identities=8%  Similarity=0.136  Sum_probs=44.7

Q ss_pred             CceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccccc-ccccc-CCCceeecCCCCHHHHHHHHHHh
Q 000803          249 GKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSH-VASTM-GPIDHYNLEHLLDDDCWSIFKTH  319 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~  319 (1277)
                      +++=++|+|++...+...-..+...+.....+..+|++|.+.+ +...+ .....+.+.+++.+++.+.+...
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~  184 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRER  184 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhc
Confidence            3444556688877666655666655544445566777777643 33222 22356889999999998877653

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

Probab=95.68  E-value=0.011  Score=57.21  Aligned_cols=109  Identities=18%  Similarity=0.152  Sum_probs=61.3

Q ss_pred             ccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHH
Q 000803          145 FGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLE  224 (1277)
Q Consensus       145 vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~  224 (1277)
                      ||+-..++++.+.+..-..    ...-|.|+|..|+||+++|+.++...... ...|..+   ..... .          
T Consensus         1 vG~S~~~~~l~~~l~~~a~----~~~pvli~GE~GtGK~~~A~~lh~~~~~~-~~~~~~~---~~~~~-~----------   61 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAK----SSSPVLITGEPGTGKSLLARALHRYSGRA-NGPFIVI---DCASL-P----------   61 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHC----SSS-EEEECCTTSSHHHHHHCCHHTTTTC-CS-CCCC---CHHCT-C----------
T ss_pred             CCCCHHHHHHHHHHHHHhC----CCCcEEEEcCCCCCHHHHHHHHHhhcCcc-CCCeEEe---chhhC-c----------
Confidence            5677777777777655432    22457899999999999999888753321 1122211   00010 0          


Q ss_pred             HhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccC-CCCcEEEEEcccc
Q 000803          225 SITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAA-APNSKMIITTRNS  290 (1277)
Q Consensus       225 ~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~~~s~iivTtr~~  290 (1277)
                                     .+.+.+.   +.--++++|+..-.......+...+... ..+.|+|.||+..
T Consensus        62 ---------------~~~l~~a---~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   62 ---------------AELLEQA---KGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             ---------------HHHHHHC---TTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             ---------------HHHHHHc---CCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence                           1111111   3345778998776555555665555432 5678999998753

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.66  E-value=0.031  Score=58.91  Aligned_cols=82  Identities=17%  Similarity=0.306  Sum_probs=53.0

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVD  248 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  248 (1277)
                      -|+|-++|++|.|||+|.++++++..++-.+.|....-+.++..        .+.......  ....+..+.+.|++.++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinsh--------sLFSKWFsE--SgKlV~kmF~kI~ELv~  246 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSH--------SLFSKWFSE--SGKLVAKMFQKIQELVE  246 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehh--------HHHHHHHhh--hhhHHHHHHHHHHHHHh
Confidence            48999999999999999999999988876556665555554432        122222211  12234455566666666


Q ss_pred             Cce--EEEEecCcc
Q 000803          249 GKR--FLLVLDDVW  260 (1277)
Q Consensus       249 ~kr--~LlVlDdv~  260 (1277)
                      ++.  +.+.+|.|.
T Consensus       247 d~~~lVfvLIDEVE  260 (423)
T KOG0744|consen  247 DRGNLVFVLIDEVE  260 (423)
T ss_pred             CCCcEEEEEeHHHH
Confidence            654  455678883

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.66  E-value=0.091  Score=61.53  Aligned_cols=154  Identities=18%  Similarity=0.045  Sum_probs=80.9

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc--CHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF--DVLSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~--~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      ..-|-|.|..|+|||+||+++++... +.  ..-.+.+|+++.-.  ..+.+++.+                 ...+.+.
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~-k~--~~~hv~~v~Cs~l~~~~~e~iQk~l-----------------~~vfse~  490 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYS-KD--LIAHVEIVSCSTLDGSSLEKIQKFL-----------------NNVFSEA  490 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhc-cc--cceEEEEEechhccchhHHHHHHHH-----------------HHHHHHH
Confidence            45789999999999999999998654 33  33445666655421  222222221                 1233455


Q ss_pred             hcCceEEEEecCcccc------cHHhHH-----------hhhcccccCCCCcEEEEEcccccccc-ccC----CCceeec
Q 000803          247 VDGKRFLLVLDDVWNE------DYSLWV-----------DLKAPFLAAAPNSKMIITTRNSHVAS-TMG----PIDHYNL  304 (1277)
Q Consensus       247 l~~kr~LlVlDdv~~~------~~~~~~-----------~l~~~l~~~~~~s~iivTtr~~~v~~-~~~----~~~~~~l  304 (1277)
                      +...+-+|||||++--      +..+|.           ++...+...+..-++|.|.....-.. ...    -.....+
T Consensus       491 ~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L  570 (952)
T KOG0735|consen  491 LWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIAL  570 (952)
T ss_pred             HhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEec
Confidence            6678999999999421      111221           11112222222224455544432111 111    1134678


Q ss_pred             CCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCc
Q 000803          305 EHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGL  346 (1277)
Q Consensus       305 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  346 (1277)
                      ..+...+-.++++...- ...   .....+...-+..+|+|.
T Consensus       571 ~ap~~~~R~~IL~~~~s-~~~---~~~~~~dLd~ls~~TEGy  608 (952)
T KOG0735|consen  571 PAPAVTRRKEILTTIFS-KNL---SDITMDDLDFLSVKTEGY  608 (952)
T ss_pred             CCcchhHHHHHHHHHHH-hhh---hhhhhHHHHHHHHhcCCc
Confidence            88888777777655432 111   111222333378888885

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.63  E-value=0.051  Score=61.44  Aligned_cols=24  Identities=33%  Similarity=0.331  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhcc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..++.++|++|+||||+|..++..
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~  246 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAK  246 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999999764

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=95.62  E-value=0.049  Score=58.49  Aligned_cols=52  Identities=17%  Similarity=0.168  Sum_probs=36.7

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccc--cCCcceEEEEEeCCCcCHHHHH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~--~~~f~~~~wv~~s~~~~~~~~~  219 (1277)
                      .-.++.|+|.+|+|||+||.+++.......  .+.-..++|++....++..++.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~   71 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV   71 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH
Confidence            447999999999999999999874322211  1123578999988877655443

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 .

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.61  E-value=0.017  Score=57.58  Aligned_cols=152  Identities=14%  Similarity=0.145  Sum_probs=73.0

Q ss_pred             EEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCC---CCcHHHHHHHHHHhh
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCD---LKTVDEVQVQLKKAV  247 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~---~~~~~~~~~~l~~~l  247 (1277)
                      ++.|.|.+|.||||+|..+......       ..+++.-...++. +..+.+..........   .....++...+....
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~-------~~~~iat~~~~~~-e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~   74 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGL-------QVLYIATAQPFDD-EMAARIAHHRQRRPAHWQTVEEPLDLAELLRADA   74 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCC-------CcEeCcCCCCChH-HHHHHHHHHHhcCCCCCeEecccccHHHHHHhhc
Confidence            6899999999999999999763211       1234443333332 3334443322211111   111223444554433


Q ss_pred             cCceEEEEecCcccc-------cH-HhHHh----hhcccccCCCCcEEEEEccccccccccCCCceeecCCCCHHHHHHH
Q 000803          248 DGKRFLLVLDDVWNE-------DY-SLWVD----LKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSI  315 (1277)
Q Consensus       248 ~~kr~LlVlDdv~~~-------~~-~~~~~----l~~~l~~~~~~s~iivTtr~~~v~~~~~~~~~~~l~~L~~~~~~~L  315 (1277)
                      .+ .-++++|.+-.-       +. ..|..    +...+.  ..+..+|+|+..  +          -.+..+.+..-..
T Consensus        75 ~~-~~~VlID~Lt~~~~n~l~~~~~~~~~~~l~~li~~L~--~~~~tvVlVs~E--v----------g~g~vp~~~~~r~  139 (170)
T PRK05800         75 AP-GRCVLVDCLTTWVTNLLFEEGEEAIAAEIDALLAALQ--QLPAKIILVTNE--V----------GMGIVPEYRLGRH  139 (170)
T ss_pred             CC-CCEEEehhHHHHHHHHhcccchHHHHHHHHHHHHHHH--cCCCCEEEEEcC--C----------cccccCCCHHHHH
Confidence            32 236889987210       10 11222    222222  245566666643  1          1222233444455


Q ss_pred             HHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          316 FKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       316 f~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      |...+.     .....+...+.++.....|+|+-+
T Consensus       140 ~~d~lG-----~lnq~la~~ad~V~~v~~Gi~~~l  169 (170)
T PRK05800        140 FRDIAG-----RLNQQLAAAADEVYLVVAGLPLKL  169 (170)
T ss_pred             HHHHHH-----HHHHHHHHHCCEEEEEeCCCcEec
Confidence            655553     122344555555666667777644

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

Probab=95.60  E-value=0.033  Score=59.80  Aligned_cols=80  Identities=23%  Similarity=0.277  Sum_probs=48.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      .-+.++|.+|+|||.||.++.++.. +.  .+ .+.++++      .++.+++......    ......+.+.+.     
T Consensus       106 ~nl~l~G~~G~GKThLa~Ai~~~l~-~~--g~-sv~f~~~------~el~~~Lk~~~~~----~~~~~~l~~~l~-----  166 (254)
T COG1484         106 ENLVLLGPPGVGKTHLAIAIGNELL-KA--GI-SVLFITA------PDLLSKLKAAFDE----GRLEEKLLRELK-----  166 (254)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHH-Hc--CC-eEEEEEH------HHHHHHHHHHHhc----CchHHHHHHHhh-----
Confidence            4589999999999999999998765 32  22 4556653      3445555444432    111222222222     


Q ss_pred             ceEEEEecCcccccHHhHH
Q 000803          250 KRFLLVLDDVWNEDYSLWV  268 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~~  268 (1277)
                      +-=||||||+.......|.
T Consensus       167 ~~dlLIiDDlG~~~~~~~~  185 (254)
T COG1484         167 KVDLLIIDDIGYEPFSQEE  185 (254)
T ss_pred             cCCEEEEecccCccCCHHH
Confidence            2348999999765444443

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.60  E-value=0.047  Score=54.79  Aligned_cols=40  Identities=30%  Similarity=0.384  Sum_probs=29.1

Q ss_pred             EEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~  214 (1277)
                      ++.|+|.+|+||||+|..+......    .-..++|+.......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~----~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIAT----KGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHh----cCCEEEEEECCcchH
Confidence            3689999999999999999775432    224577877665543

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.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=95.60  E-value=0.09  Score=55.12  Aligned_cols=122  Identities=19%  Similarity=0.205  Sum_probs=68.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcccccccc-----C----Cc---ceEEEEEeCCCc------CH----------------
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDS-----G----KF---DVKAWVCVSDDF------DV----------------  215 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~-----~----~f---~~~~wv~~s~~~------~~----------------  215 (1277)
                      .+++|+|+.|.|||||.+.+..-.....+     +    .+   ..+.||.-...+      ++                
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~~  110 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWFR  110 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCcccccccc
Confidence            68999999999999999999862221100     0    01   235555421111      11                


Q ss_pred             ------HHHHHHHHHHhcCCCC------CCCcHHHHHHHHHHhhcCceEEEEecCc----ccccHHhHHhhhcccccCCC
Q 000803          216 ------LSISKALLESITSATC------DLKTVDEVQVQLKKAVDGKRFLLVLDDV----WNEDYSLWVDLKAPFLAAAP  279 (1277)
Q Consensus       216 ------~~~~~~il~~l~~~~~------~~~~~~~~~~~l~~~l~~kr~LlVlDdv----~~~~~~~~~~l~~~l~~~~~  279 (1277)
                            .+...+.++.++....      ..+.-+...-.+.+.|..+.=|+|||.=    +.......-.+...+...  
T Consensus       111 ~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~e--  188 (254)
T COG1121         111 RLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQE--  188 (254)
T ss_pred             cccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHC--
Confidence                  1333344444442211      1122223334567788889999999973    333333344444445443  


Q ss_pred             CcEEEEEccccccc
Q 000803          280 NSKMIITTRNSHVA  293 (1277)
Q Consensus       280 ~s~iivTtr~~~v~  293 (1277)
                      |..|+++|.+-+..
T Consensus       189 g~tIl~vtHDL~~v  202 (254)
T COG1121         189 GKTVLMVTHDLGLV  202 (254)
T ss_pred             CCEEEEEeCCcHHh
Confidence            89999999986543

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

Probab=95.56  E-value=0.0017  Score=78.92  Aligned_cols=113  Identities=23%  Similarity=0.273  Sum_probs=53.9

Q ss_pred             CcceEEEEccCCCcCCCh-hhhhccccccceeEeecc-CCcccccCCCCCCcccceeeccccccceeccCCCCCcccc--
Q 000803          954 RNLRYLIISEISTLRSLP-EEIMDNNSRLESLYIGYC-GSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLS-- 1029 (1277)
Q Consensus       954 ~~L~~L~l~~~~~l~~l~-~~~~~~l~~L~~L~l~~c-~~l~~~~~~~~~~sL~~L~l~~~~L~~L~l~~~~~l~~l~-- 1029 (1277)
                      ++|+.+.+.+|..+.... ......++.|+.|++++| ......+... .......    -+++.|+++.|..+++..  
T Consensus       188 ~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~-~~~~~~~----~~L~~l~l~~~~~isd~~l~  262 (482)
T KOG1947|consen  188 PLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLL-LLLLSIC----RKLKSLDLSGCGLVTDIGLS  262 (482)
T ss_pred             chhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHh-hhhhhhc----CCcCccchhhhhccCchhHH
Confidence            456666666666555422 123445667777777663 2211111000 0000000    134455555555433221  


Q ss_pred             CcCccccccCceeeecCCCcc-----ccccccccccEEEecccCCcc
Q 000803         1030 SGIHLLEALEDLHIRNCPKLE-----SIPKGLHKLRSIYIKKCPSLV 1071 (1277)
Q Consensus      1030 ~~~~~l~~L~~L~l~~c~~l~-----~~p~~l~~L~~L~l~~c~~l~ 1071 (1277)
                      .....+++|+.|.+.+|..+.     .+....++|++|+++.|..+.
T Consensus       263 ~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~  309 (482)
T KOG1947|consen  263 ALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLT  309 (482)
T ss_pred             HHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccch
Confidence            111125677777777776432     223345667777777777663

>cd01394 radB RadB

Probab=95.54  E-value=0.046  Score=57.84  Aligned_cols=43  Identities=21%  Similarity=0.152  Sum_probs=31.6

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~  214 (1277)
                      .-.++.|.|.+|+||||+|.+++.....    .-..++|++....+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~~----~g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVETAG----QGKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh----cCCeEEEEECCCCCH
Confidence            4579999999999999999998764322    223577887655543

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>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=95.45  E-value=0.045  Score=56.13  Aligned_cols=88  Identities=19%  Similarity=0.164  Sum_probs=48.1

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC-CcCHHHHHHHHHHHhcCCCC---CCCcHHHH-HHHH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-DFDVLSISKALLESITSATC---DLKTVDEV-QVQL  243 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~il~~l~~~~~---~~~~~~~~-~~~l  243 (1277)
                      ++|+.++|+.|+||||.+..++.....+    -..+..++... .....+-++...+.++.+..   ...+..++ .+.+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~----~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l   76 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK----GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREAL   76 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT----T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc----cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHH
Confidence            3799999999999999998877644332    22456666432 23345556666676664321   12223332 2333


Q ss_pred             HHhhcCceEEEEecCcc
Q 000803          244 KKAVDGKRFLLVLDDVW  260 (1277)
Q Consensus       244 ~~~l~~kr~LlVlDdv~  260 (1277)
                      ++.-.++.=+|++|-..
T Consensus        77 ~~~~~~~~D~vlIDT~G   93 (196)
T PF00448_consen   77 EKFRKKGYDLVLIDTAG   93 (196)
T ss_dssp             HHHHHTTSSEEEEEE-S
T ss_pred             HHHhhcCCCEEEEecCC
Confidence            33322233466667663

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 ....

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

Probab=95.44  E-value=0.057  Score=57.63  Aligned_cols=87  Identities=20%  Similarity=0.239  Sum_probs=51.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC-HHHHHHHHHHHhcC-------CCCCCCcHH----
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD-VLSISKALLESITS-------ATCDLKTVD----  237 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~il~~l~~-------~~~~~~~~~----  237 (1277)
                      .-++|+|..|+||||||+++++..+..   +-+.++++-+.+... +.++.+++.+.=..       ...+.....    
T Consensus        70 Qr~~If~~~G~GKTtLa~~i~~~i~~~---~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~  146 (274)
T cd01133          70 GKIGLFGGAGVGKTVLIMELINNIAKA---HGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARV  146 (274)
T ss_pred             CEEEEecCCCCChhHHHHHHHHHHHhc---CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            568999999999999999999865432   224466677766543 44444444432100       011111111    


Q ss_pred             -HHHHHHHHhh---cCceEEEEecCc
Q 000803          238 -EVQVQLKKAV---DGKRFLLVLDDV  259 (1277)
Q Consensus       238 -~~~~~l~~~l---~~kr~LlVlDdv  259 (1277)
                       ...-.+.+++   +++.+|+|+||+
T Consensus       147 ~~~a~~~AEyfr~~~g~~Vl~~~Dsl  172 (274)
T cd01133         147 ALTGLTMAEYFRDEEGQDVLLFIDNI  172 (274)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeCh
Confidence             1122344444   389999999998

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.41  E-value=0.019  Score=59.14  Aligned_cols=104  Identities=17%  Similarity=0.148  Sum_probs=52.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh-h-
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA-V-  247 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l-  247 (1277)
                      ++..|.|.+|.||||+++.+.......   .  ..+.+......-...    +.+..+.   +..++.......... . 
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~---g--~~v~~~apT~~Aa~~----L~~~~~~---~a~Ti~~~l~~~~~~~~~   86 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAA---G--KRVIGLAPTNKAAKE----LREKTGI---EAQTIHSFLYRIPNGDDE   86 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHT---T----EEEEESSHHHHHH----HHHHHTS----EEEHHHHTTEECCEECC
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhC---C--CeEEEECCcHHHHHH----HHHhhCc---chhhHHHHHhcCCccccc
Confidence            588899999999999999887643322   1  233333333222222    2222221   111111110000000 0 


Q ss_pred             ----cCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEc
Q 000803          248 ----DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITT  287 (1277)
Q Consensus       248 ----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt  287 (1277)
                          ..++-+||+|+++..+...+..+......  .|+|+|+.=
T Consensus        87 ~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvG  128 (196)
T PF13604_consen   87 GRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVG  128 (196)
T ss_dssp             SSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE
T ss_pred             ccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEEC
Confidence                12345999999988777777776665544  477887764

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.39  E-value=0.021  Score=58.11  Aligned_cols=26  Identities=46%  Similarity=0.620  Sum_probs=22.8

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ...+|.++|+.|+||||+|+.+++..
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l   31 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERL   31 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34699999999999999999998754

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=95.38  E-value=0.089  Score=51.44  Aligned_cols=120  Identities=18%  Similarity=0.275  Sum_probs=69.1

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEe---------------------CCCc--------------
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCV---------------------SDDF--------------  213 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~---------------------s~~~--------------  213 (1277)
                      -.++.++|++|.|||||.+.+|...+...     ..+|+.-                     -+++              
T Consensus        28 Gef~fl~GpSGAGKSTllkLi~~~e~pt~-----G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~rLL~~~tvyeNVA~  102 (223)
T COG2884          28 GEFVFLTGPSGAGKSTLLKLIYGEERPTR-----GKILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVAL  102 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhhcCCC-----ceEEECCeecccccccccchhhheeeeEeeeccccccchHhhhhhh
Confidence            36899999999999999999998654322     3344421                     1111              


Q ss_pred             -------CHHHHHHH---HHHHhcCCC------CCCCcHHHHHHHHHHhhcCceEEEEecCc----ccccHHhHHhhhcc
Q 000803          214 -------DVLSISKA---LLESITSAT------CDLKTVDEVQVQLKKAVDGKRFLLVLDDV----WNEDYSLWVDLKAP  273 (1277)
Q Consensus       214 -------~~~~~~~~---il~~l~~~~------~~~~~~~~~~~~l~~~l~~kr~LlVlDdv----~~~~~~~~~~l~~~  273 (1277)
                             ...++.+.   .++..+...      ...+.-++..-.|.+.+-+++-+++-|.=    +.+  ..|+-+ ..
T Consensus       103 pL~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIARAiV~~P~vLlADEPTGNLDp~--~s~~im-~l  179 (223)
T COG2884         103 PLRVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIARAIVNQPAVLLADEPTGNLDPD--LSWEIM-RL  179 (223)
T ss_pred             hhhccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHHHHccCCCeEeecCCCCCCChH--HHHHHH-HH
Confidence                   11122222   222222111      11223344455677777888888988853    222  344433 23


Q ss_pred             ccc-CCCCcEEEEEcccccccccc
Q 000803          274 FLA-AAPNSKMIITTRNSHVASTM  296 (1277)
Q Consensus       274 l~~-~~~~s~iivTtr~~~v~~~~  296 (1277)
                      |.. +..|..|+++|.+.++...+
T Consensus       180 feeinr~GtTVl~ATHd~~lv~~~  203 (223)
T COG2884         180 FEEINRLGTTVLMATHDLELVNRM  203 (223)
T ss_pred             HHHHhhcCcEEEEEeccHHHHHhc
Confidence            332 34699999999998876655

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

Probab=95.34  E-value=0.039  Score=66.98  Aligned_cols=159  Identities=18%  Similarity=0.197  Sum_probs=83.6

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccccc--CCcceEEEEEeCCCcCHHHHHH
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS--GKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~--~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      .++||++|++++++.|.......      -.++|.+|||||++|.-++.......-  .-=+..++.-            
T Consensus       171 PvIGRd~EI~r~iqIL~RR~KNN------PvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sL------------  232 (786)
T COG0542         171 PVIGRDEEIRRTIQILSRRTKNN------PVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSL------------  232 (786)
T ss_pred             CCcChHHHHHHHHHHHhccCCCC------CeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEe------------
Confidence            48899999999999998754321      247899999999988766653211110  0001111110            


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCcccc--------cHHhHHhhhcccccCCCCcEEEEEcccccc
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNE--------DYSLWVDLKAPFLAAAPNSKMIITTRNSHV  292 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~~s~iivTtr~~~v  292 (1277)
                      ++..-+.+......=.+.+...+.+.-+.++..+++|.+...        ..-+-..+..|-...+.--.|=.||-++ -
T Consensus       233 D~g~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~IGATT~~E-Y  311 (786)
T COG0542         233 DLGSLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDE-Y  311 (786)
T ss_pred             cHHHHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeEEEEeccHHH-H
Confidence            111112222222222333344444444456899999998431        0011122333333333333455555432 1


Q ss_pred             cc-------ccCCCceeecCCCCHHHHHHHHHHhh
Q 000803          293 AS-------TMGPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       293 ~~-------~~~~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      ..       ......++.+..-+.+++..++....
T Consensus       312 Rk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         312 RKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             HHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence            11       11334678888899999988876543

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.31  E-value=0.043  Score=54.62  Aligned_cols=148  Identities=14%  Similarity=0.163  Sum_probs=73.6

Q ss_pred             EEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCC---CCcHHHHHHHHHHhhc
Q 000803          172 IPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCD---LKTVDEVQVQLKKAVD  248 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~---~~~~~~~~~~l~~~l~  248 (1277)
                      +.|.|..|.|||++|.++...       ....++++.-.+.++.+ ..+.|..-.......   .....++.+.+.+. .
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~-------~~~~~~y~at~~~~d~e-m~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~-~   72 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE-------LGGPVTYIATAEAFDDE-MAERIARHRKRRPAHWRTIETPRDLVSALKEL-D   72 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh-------cCCCeEEEEccCcCCHH-HHHHHHHHHHhCCCCceEeecHHHHHHHHHhc-C
Confidence            679999999999999998753       11345666666666543 333333211111111   11223334444322 2


Q ss_pred             CceEEEEecCccc--cc-------------HHhHHhhhcccccCCCCcEEEEEccccccccccCCCceeecCCCCHHHHH
Q 000803          249 GKRFLLVLDDVWN--ED-------------YSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCW  313 (1277)
Q Consensus       249 ~kr~LlVlDdv~~--~~-------------~~~~~~l~~~l~~~~~~s~iivTtr~~~v~~~~~~~~~~~l~~L~~~~~~  313 (1277)
                       +.-.+++|.+-.  .+             ...+..+...+.  ..+..+|+||.  +|..          +....+..-
T Consensus        73 -~~~~VLIDclt~~~~n~l~~~~~~~~~~~~~~i~~l~~~l~--~~~~~~viVsn--EvG~----------g~vp~~~~~  137 (169)
T cd00544          73 -PGDVVLIDCLTLWVTNLLFADLEEWEAAIADEIDALLAAVR--NKPGTLILVSN--EVGL----------GVVPENALG  137 (169)
T ss_pred             -CCCEEEEEcHhHHHHHhCCCccccchhHHHHHHHHHHHHHH--cCCCcEEEEEC--CcCC----------CCCCCCHHH
Confidence             233799999711  10             011111222222  24556666664  3322          233344555


Q ss_pred             HHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchH
Q 000803          314 SIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL  348 (1277)
Q Consensus       314 ~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  348 (1277)
                      ..|...+.     .....+...|.+++....|+|+
T Consensus       138 r~f~d~lG-----~lnq~la~~ad~v~~vv~Gip~  167 (169)
T cd00544         138 RRFRDELG-----RLNQRLAALADEVYLVVSGIPL  167 (169)
T ss_pred             HHHHHHHH-----HHHHHHHHHCCEEEEEECCcce
Confidence            66666553     1223445555556666677775

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.

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.30  E-value=0.0091  Score=61.43  Aligned_cols=60  Identities=27%  Similarity=0.304  Sum_probs=26.4

Q ss_pred             CCCCccceeeccCC--ccc-cccccccccccCcEEEecCCcCccccchh---hccccCcCeeeecCcc
Q 000803          573 EDLRLLRYLNLADT--DIR-SLPESSCSLLNLEILILRNCSSLIKLPSK---IRRLINLCHLDIRGAI  634 (1277)
Q Consensus       573 ~~l~~Lr~L~L~~~--~i~-~lp~~i~~L~~L~~L~L~~~~~l~~lp~~---i~~L~~L~~L~l~~~~  634 (1277)
                      ..|.+|++|.++.|  .+. .++-...++++|++|++++| .+.. +++   +.++.+|..|++..|.
T Consensus        62 P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~N-ki~~-lstl~pl~~l~nL~~Ldl~n~~  127 (260)
T KOG2739|consen   62 PKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGN-KIKD-LSTLRPLKELENLKSLDLFNCS  127 (260)
T ss_pred             CCcchhhhhcccCCcccccccceehhhhCCceeEEeecCC-cccc-ccccchhhhhcchhhhhcccCC
Confidence            34455555555555  332 33333334455555555553 2222 111   2344445555555443

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.29  E-value=0.047  Score=61.34  Aligned_cols=89  Identities=15%  Similarity=0.169  Sum_probs=50.1

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC-CcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-DFDVLSISKALLESITSATCDLKTVDEVQVQLKKAV  247 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  247 (1277)
                      -.++.++|+.|+||||++..+......+.  ....+..++... .....+-++...+.++.......+..++...+.+ +
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~--G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~-l  213 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRF--GASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAE-L  213 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhc--CCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHH-h
Confidence            46899999999999999999987532221  123455555322 2233444445555555433323333334444433 3


Q ss_pred             cCceEEEEecCccc
Q 000803          248 DGKRFLLVLDDVWN  261 (1277)
Q Consensus       248 ~~kr~LlVlDdv~~  261 (1277)
                      .++ =+|++|....
T Consensus       214 ~~~-DlVLIDTaG~  226 (374)
T PRK14722        214 RNK-HMVLIDTIGM  226 (374)
T ss_pred             cCC-CEEEEcCCCC
Confidence            444 4566999854

>PTZ00494 tuzin-like protein; Provisional

Probab=95.29  E-value=0.23  Score=55.31  Aligned_cols=170  Identities=9%  Similarity=0.168  Sum_probs=101.9

Q ss_pred             CCCCCCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH
Q 000803          136 SSVPTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV  215 (1277)
Q Consensus       136 ~~~~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~  215 (1277)
                      ..+.....+|.|+.|-..+.+.|.+-+.   ..++++++.|.-|.||++|.+........       ..++|++....  
T Consensus       365 ~a~a~~~~~V~R~~eE~~vRqvL~qld~---aHPRIvV~TG~~GcGKSslcRsAvrkE~~-------paV~VDVRg~E--  432 (664)
T PTZ00494        365 LAAAAEAFEVRREDEEALVRSVLTQMAP---SHPRIVALAGGSGGGRCVPCRRAVRVEGV-------ALVHVDVGGTE--  432 (664)
T ss_pred             ccccccccccchhhHHHHHHHHHhhccC---CCCcEEEEecCCCCCchHHHHHHHHHcCC-------CeEEEEecCCc--
Confidence            3445567889999998888888866543   45799999999999999999998764322       45788877654  


Q ss_pred             HHHHHHHHHHhcCCCCCC--CcHHHHHHHHHH---hhcCceEEEEec--CcccccHHhHHhhhcccccCCCCcEEEEEcc
Q 000803          216 LSISKALLESITSATCDL--KTVDEVQVQLKK---AVDGKRFLLVLD--DVWNEDYSLWVDLKAPFLAAAPNSKMIITTR  288 (1277)
Q Consensus       216 ~~~~~~il~~l~~~~~~~--~~~~~~~~~l~~---~l~~kr~LlVlD--dv~~~~~~~~~~l~~~l~~~~~~s~iivTtr  288 (1277)
                       +.++.+.+.++.+..+.  +-++-+.+..+.   ...++.=+||+-  +-.+- .-.+.+.. .+...-.-|.|++---
T Consensus       433 -DtLrsVVKALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL-~RVYnE~v-aLacDrRlCHvv~EVp  509 (664)
T PTZ00494        433 -DTLRSVVRALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDL-GRVYGEVV-SLVSDCQACHIVLAVP  509 (664)
T ss_pred             -chHHHHHHHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcH-HHHHHHHH-HHHccchhheeeeech
Confidence             44677888888665432  223434443333   234554455542  22111 01122211 2233334567776543


Q ss_pred             cccccccc---CCCceeecCCCCHHHHHHHHHHhh
Q 000803          289 NSHVASTM---GPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       289 ~~~v~~~~---~~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      .+.+....   .....|.+.+++.++|.++..+..
T Consensus       510 lESLT~~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        510 MKALTPLNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             HhhhchhhccCccceeEecCCcCHHHHHHHHhccc
Confidence            33221111   122468899999999988776543

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.28  E-value=0.24  Score=62.81  Aligned_cols=179  Identities=16%  Similarity=0.096  Sum_probs=91.6

Q ss_pred             CccccchhhHHHHHHHHhcccc-------cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC
Q 000803          142 PVVFGREEDKTKILEMVLTDTA-------ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~  214 (1277)
                      ..+.|.+..++++.+.+.-.-.       ......+-+.++|++|+|||++|+++++....    .|   +.+..+    
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~----~f---i~v~~~----  521 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGA----NF---IAVRGP----  521 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC----CE---EEEehH----
Confidence            3467877777777665532100       00022345789999999999999999885321    23   222211    


Q ss_pred             HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc--------H----HhHHhhhccccc--CCCC
Q 000803          215 VLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED--------Y----SLWVDLKAPFLA--AAPN  280 (1277)
Q Consensus       215 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--------~----~~~~~l~~~l~~--~~~~  280 (1277)
                        +    ++....     ......+...+...-+..+.+|+||+++.-.        .    ....++...+..  ...+
T Consensus       522 --~----l~~~~v-----Gese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~  590 (733)
T TIGR01243       522 --E----ILSKWV-----GESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSN  590 (733)
T ss_pred             --H----Hhhccc-----CcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCC
Confidence              1    111111     0111222233333334567999999985310        0    011222222222  1234


Q ss_pred             cEEEEEccccccccc-c----CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCch
Q 000803          281 SKMIITTRNSHVAST-M----GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP  347 (1277)
Q Consensus       281 s~iivTtr~~~v~~~-~----~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  347 (1277)
                      --||.||...+.... +    .-...+.++..+.++-.++|..+.-.. .......    ...+++.+.|.-
T Consensus       591 v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~-~~~~~~~----l~~la~~t~g~s  657 (733)
T TIGR01243       591 VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSM-PLAEDVD----LEELAEMTEGYT  657 (733)
T ss_pred             EEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCC-CCCccCC----HHHHHHHcCCCC
Confidence            456667755443321 1    223568888889999999987665321 1111112    245667777653

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PRK13695 putative NTPase; Provisional

Probab=95.25  E-value=0.019  Score=58.16  Aligned_cols=23  Identities=39%  Similarity=0.444  Sum_probs=20.1

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      -++|+|.+|+|||||++.+++..
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l   24 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL   24 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999988754

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.24  E-value=0.081  Score=60.11  Aligned_cols=92  Identities=12%  Similarity=0.172  Sum_probs=53.2

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHH--HHHHHHHHHhcCCCCCCCcHHHHHHHHHH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVL--SISKALLESITSATCDLKTVDEVQVQLKK  245 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~--~~~~~il~~l~~~~~~~~~~~~~~~~l~~  245 (1277)
                      ..+++.++|+.|+||||.+..++.........+-..+..+++. .+...  ..++...+.++.+.......+++...+.+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~D-t~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~  251 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITID-NYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQ  251 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEecc-CccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHH
Confidence            3579999999999999999888764432210011234445543 33332  22444444454433333445566555555


Q ss_pred             hhcCceEEEEecCcccc
Q 000803          246 AVDGKRFLLVLDDVWNE  262 (1277)
Q Consensus       246 ~l~~kr~LlVlDdv~~~  262 (1277)
                      .  .+.-+|++|.....
T Consensus       252 ~--~~~DlVLIDTaGr~  266 (388)
T PRK12723        252 S--KDFDLVLVDTIGKS  266 (388)
T ss_pred             h--CCCCEEEEcCCCCC
Confidence            3  34568889998553

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=95.24  E-value=0.06  Score=57.98  Aligned_cols=56  Identities=20%  Similarity=0.264  Sum_probs=39.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcccccc--ccCCcceEEEEEeCCCcCHHHHHHHHHHHh
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVE--DSGKFDVKAWVCVSDDFDVLSISKALLESI  226 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~--~~~~f~~~~wv~~s~~~~~~~~~~~il~~l  226 (1277)
                      .+.=|+|.+|+|||.||.+++-.....  .++.=..++|++-...|...++. +|++..
T Consensus        39 ~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~   96 (256)
T PF08423_consen   39 SITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERF   96 (256)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHT
T ss_pred             cEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhcc
Confidence            689999999999999998876433221  11223468999988889887765 456554

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 ....

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=95.23  E-value=0.027  Score=57.23  Aligned_cols=78  Identities=26%  Similarity=0.287  Sum_probs=44.4

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHH--hcCCCCCCCcHHHHHHHHH
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLES--ITSATCDLKTVDEVQVQLK  244 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~--l~~~~~~~~~~~~~~~~l~  244 (1277)
                      ..+.+|+|.|.+|.||||+|+.++.....    .  .+.-++- +++-...-.....+.  .........+.+-+.+.|.
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~~----~--~~~~I~~-D~YYk~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~   78 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQLGV----E--KVVVISL-DDYYKDQSHLPFEERNKINYDHPEAFDLDLLIEHLK   78 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHhCc----C--cceEeec-cccccchhhcCHhhcCCcCccChhhhcHHHHHHHHH
Confidence            35689999999999999999999874321    1  1122221 111111111111111  1122334566777888888


Q ss_pred             HhhcCce
Q 000803          245 KAVDGKR  251 (1277)
Q Consensus       245 ~~l~~kr  251 (1277)
                      ..+++++
T Consensus        79 ~L~~g~~   85 (218)
T COG0572          79 DLKQGKP   85 (218)
T ss_pred             HHHcCCc
Confidence            8888877

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=95.23  E-value=0.017  Score=67.10  Aligned_cols=49  Identities=20%  Similarity=0.295  Sum_probs=39.8

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhc
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      .++|.++.++++++.|......-...-+++.++|++|+||||||+.+.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~  125 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKS  125 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHH
Confidence            5889999999999999543222124457999999999999999999987

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.23  E-value=0.36  Score=55.85  Aligned_cols=98  Identities=14%  Similarity=0.257  Sum_probs=62.0

Q ss_pred             CccccchhhHHHHHHHHhccccc------CCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAA------DHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV  215 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~  215 (1277)
                      ..+=|.++.+.++.+++..-...      +-...+=|-++|++|+|||.||++++++..+    .|     +.++..   
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~v----Pf-----~~isAp---  257 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGV----PF-----LSISAP---  257 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCC----ce-----Eeecch---
Confidence            45668888888887776542110      1123467889999999999999999986544    33     222222   


Q ss_pred             HHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccc
Q 000803          216 LSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWN  261 (1277)
Q Consensus       216 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~  261 (1277)
                           +|...+.     ....+.+.+...+....-++++++|+++-
T Consensus       258 -----eivSGvS-----GESEkkiRelF~~A~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  258 -----EIVSGVS-----GESEKKIRELFDQAKSNAPCIVFIDEIDA  293 (802)
T ss_pred             -----hhhcccC-----cccHHHHHHHHHHHhccCCeEEEeecccc
Confidence                 2222222     22334455555566667899999999954

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.21  E-value=0.063  Score=55.46  Aligned_cols=83  Identities=22%  Similarity=0.178  Sum_probs=43.7

Q ss_pred             EEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHh----cCCCCCCCcHHHHHHHHHHh
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESI----TSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l----~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      ||+|.|.+|+||||+|+.+.................... +.+.........-...    ........+.+.+.+.++..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~~~~~~~~~~~~~~-d~~~~~~~~~~~~~~~~~~~~~~~p~a~d~~~l~~~l~~L   79 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKRGIPAMEMDIILSL-DDFYDDYHLRDRKGRGENRYNFDHPDAFDFDLLKEDLKAL   79 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTCTTTCCCSEEEEEG-GGGBHHHHHHHHHHHCTTTSSTTSGGGBSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCccCcCccceeEEEee-cccccccchhhHhhccccccCCCCccccCHHHHHHHHHHH
Confidence            799999999999999999987543221000011233332 2222222211211111    11122345677777777776


Q ss_pred             hcCceEEE
Q 000803          247 VDGKRFLL  254 (1277)
Q Consensus       247 l~~kr~Ll  254 (1277)
                      .+++..-+
T Consensus        80 ~~g~~i~~   87 (194)
T PF00485_consen   80 KNGGSIEI   87 (194)
T ss_dssp             HTTSCEEE
T ss_pred             hCCCcccc
Confidence            66665433

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 ....

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.19  E-value=0.076  Score=58.83  Aligned_cols=59  Identities=17%  Similarity=0.205  Sum_probs=41.2

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhcccccc--ccCCcceEEEEEeCCCcCHHHHHHHHHHHhc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVE--DSGKFDVKAWVCVSDDFDVLSISKALLESIT  227 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~--~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~  227 (1277)
                      .-.++-|+|.+|+|||+|+.+++-.....  .++.=..++|++....|+..++.+ +++.++
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g  155 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFG  155 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcC
Confidence            34799999999999999998876322211  111224689999988888887754 555554

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.

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

Probab=95.17  E-value=0.028  Score=55.37  Aligned_cols=103  Identities=22%  Similarity=0.260  Sum_probs=71.5

Q ss_pred             eeEEecCCCCCCCCCcCCC-CCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhc-cccCcCeeeecC
Q 000803          555 LRLLSLQGYYIGELPIPFE-DLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIR-RLINLCHLDIRG  632 (1277)
Q Consensus       555 Lr~L~L~~~~i~~lp~~~~-~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~-~L~~L~~L~l~~  632 (1277)
                      =+.++|.+..+..+-. ++ -+.+.-.+||++|.+..++ .+..+..|.+|.+++ +.+..+-..+. .+++|..|.+.+
T Consensus        21 e~e~~LR~lkip~ien-lg~~~d~~d~iDLtdNdl~~l~-~lp~l~rL~tLll~n-NrIt~I~p~L~~~~p~l~~L~Ltn   97 (233)
T KOG1644|consen   21 ERELDLRGLKIPVIEN-LGATLDQFDAIDLTDNDLRKLD-NLPHLPRLHTLLLNN-NRITRIDPDLDTFLPNLKTLILTN   97 (233)
T ss_pred             ccccccccccccchhh-ccccccccceecccccchhhcc-cCCCccccceEEecC-CcceeeccchhhhccccceEEecC
Confidence            4556666665533321 11 1346778999999988875 477899999999998 57888777675 457899999999


Q ss_pred             ccccccCCC--CCCCCCCCcccCceeeCCCC
Q 000803          633 AILLKEMPF--GMKELKNLQTLSNFVVGKGG  661 (1277)
Q Consensus       633 ~~~l~~~p~--~i~~L~~L~~L~~~~~~~~~  661 (1277)
                      |+ +..+..  .+..+++|++|.+.++....
T Consensus        98 Ns-i~~l~dl~pLa~~p~L~~Ltll~Npv~~  127 (233)
T KOG1644|consen   98 NS-IQELGDLDPLASCPKLEYLTLLGNPVEH  127 (233)
T ss_pred             cc-hhhhhhcchhccCCccceeeecCCchhc
Confidence            87 555432  25566777777776665443

>PRK08233 hypothetical protein; Provisional

Probab=95.15  E-value=0.062  Score=55.05  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ..+|+|.|.+|+||||||+.+....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            3799999999999999999998743

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.12  E-value=0.48  Score=57.45  Aligned_cols=182  Identities=15%  Similarity=0.136  Sum_probs=100.2

Q ss_pred             ccccchh---hHHHHHHHHhccccc---CCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHH
Q 000803          143 VVFGREE---DKTKILEMVLTDTAA---DHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVL  216 (1277)
Q Consensus       143 ~~vGr~~---~~~~l~~~L~~~~~~---~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~  216 (1277)
                      ++.|-++   |++++++.|.++..-   +..-++=+-++|++|.|||-||++++-...+    .     |++++..    
T Consensus       312 DVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgV----P-----F~svSGS----  378 (774)
T KOG0731|consen  312 DVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGV----P-----FFSVSGS----  378 (774)
T ss_pred             cccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCC----c-----eeeechH----
Confidence            5667765   455556666554311   1133567889999999999999999875433    2     3344332    


Q ss_pred             HHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc---------------HHhHHhhhcccccCCCCc
Q 000803          217 SISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED---------------YSLWVDLKAPFLAAAPNS  281 (1277)
Q Consensus       217 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~---------------~~~~~~l~~~l~~~~~~s  281 (1277)
                          +..+.+.+..     ...+.+.....=...++.|.+|+++...               ....+++.........+.
T Consensus       379 ----EFvE~~~g~~-----asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~  449 (774)
T KOG0731|consen  379 ----EFVEMFVGVG-----ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSK  449 (774)
T ss_pred             ----HHHHHhcccc-----hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCC
Confidence                2222222211     1111122222223457888888873311               122344443333333333


Q ss_pred             --EEEEEcccccccccc-----CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          282 --KMIITTRNSHVASTM-----GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       282 --~iivTtr~~~v~~~~-----~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                        -++-+|...++....     .-++.+.++.-+.....++|..++-.-...   .+..++++ |+...-|.+=|.
T Consensus       450 ~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~---~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  450 GVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD---DEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             cEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC---cchhhHHH-HHhcCCCCcHHH
Confidence              334456655554321     224568888888899999999888432221   33445556 888888887543

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.08  E-value=0.14  Score=64.85  Aligned_cols=181  Identities=18%  Similarity=0.125  Sum_probs=91.5

Q ss_pred             CccccchhhHHHHHHHHhcccc-------cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC
Q 000803          142 PVVFGREEDKTKILEMVLTDTA-------ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~  214 (1277)
                      ..+.|.++.++++.+.+...-.       ..-...+-+.++|++|+|||+||+.+++...  .  .|   +.++.+.   
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~--~--~~---i~i~~~~---  247 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAG--A--YF---ISINGPE---  247 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhC--C--eE---EEEecHH---
Confidence            3578999999888777642100       0002235688999999999999999987431  1  22   2222111   


Q ss_pred             HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcCceEEEEecCccccc-----------HHhHHhhhcccccC-CCCcE
Q 000803          215 VLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED-----------YSLWVDLKAPFLAA-APNSK  282 (1277)
Q Consensus       215 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-----------~~~~~~l~~~l~~~-~~~s~  282 (1277)
                         +.    ...     .......+...++........+|++|+++...           ......+...+... ..+..
T Consensus       248 ---i~----~~~-----~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~v  315 (733)
T TIGR01243       248 ---IM----SKY-----YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRV  315 (733)
T ss_pred             ---Hh----ccc-----ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCE
Confidence               10    000     00112223333334445567899999984321           00112222222211 22333


Q ss_pred             EEE-Eccccc-ccccc---C-CCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHH
Q 000803          283 MII-TTRNSH-VASTM---G-PIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLA  349 (1277)
Q Consensus       283 iiv-Ttr~~~-v~~~~---~-~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLa  349 (1277)
                      ++| ||...+ +...+   + -...+.+...+.++-.+++..+.-.. ....    ......+++.+.|.--|
T Consensus       316 ivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~-~l~~----d~~l~~la~~t~G~~ga  383 (733)
T TIGR01243       316 IVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNM-PLAE----DVDLDKLAEVTHGFVGA  383 (733)
T ss_pred             EEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCC-CCcc----ccCHHHHHHhCCCCCHH
Confidence            444 444322 21111   1 12457788888888888887554211 1111    11235677888886533

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.07  E-value=0.046  Score=60.13  Aligned_cols=85  Identities=21%  Similarity=0.176  Sum_probs=53.9

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCC-----CCCCcHHHHHH
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSAT-----CDLKTVDEVQV  241 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~~~  241 (1277)
                      +.-+++-|+|++|+||||||.+++.....    .-..++|++..+.++..     .++.++.+.     ....+.++...
T Consensus        53 p~G~iteI~Gp~GsGKTtLal~~~~~~~~----~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~  123 (325)
T cd00983          53 PKGRIIEIYGPESSGKTTLALHAIAEAQK----LGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALE  123 (325)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHH----cCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHH
Confidence            34579999999999999999998754322    22457899887776653     233333211     12234455555


Q ss_pred             HHHHhhc-CceEEEEecCcc
Q 000803          242 QLKKAVD-GKRFLLVLDDVW  260 (1277)
Q Consensus       242 ~l~~~l~-~kr~LlVlDdv~  260 (1277)
                      .+....+ +.--+||+|-|-
T Consensus       124 i~~~li~s~~~~lIVIDSva  143 (325)
T cd00983         124 IADSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHHHHHhccCCCEEEEcchH
Confidence            5555443 356689999973

RecA couples ATP hydrolysis to DNA strand exchange.

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=95.06  E-value=0.082  Score=57.09  Aligned_cols=134  Identities=21%  Similarity=0.282  Sum_probs=71.5

Q ss_pred             cccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEE----EEeCCCcC-----
Q 000803          144 VFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAW----VCVSDDFD-----  214 (1277)
Q Consensus       144 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~w----v~~s~~~~-----  214 (1277)
                      +-+|..+-.-.+++|++      +.+..|.+.|.+|.|||.||-++.-..... ...|..++-    +.+.++..     
T Consensus       226 i~prn~eQ~~ALdlLld------~dI~lV~L~G~AGtGKTlLALaAgleqv~e-~~~y~KiiVtRp~vpvG~dIGfLPG~  298 (436)
T COG1875         226 IRPRNAEQRVALDLLLD------DDIDLVSLGGKAGTGKTLLALAAGLEQVLE-RKRYRKIIVTRPTVPVGEDIGFLPGT  298 (436)
T ss_pred             cCcccHHHHHHHHHhcC------CCCCeEEeeccCCccHhHHHHHHHHHHHHH-HhhhceEEEecCCcCcccccCcCCCc
Confidence            34566666677778876      457899999999999999986553221111 114443322    22333211     


Q ss_pred             ----HHHHHHHH---HHHhcCCCCCCCcHHHHHHHHH---------HhhcCc---eEEEEecCcccccHHhHHhhhcccc
Q 000803          215 ----VLSISKAL---LESITSATCDLKTVDEVQVQLK---------KAVDGK---RFLLVLDDVWNEDYSLWVDLKAPFL  275 (1277)
Q Consensus       215 ----~~~~~~~i---l~~l~~~~~~~~~~~~~~~~l~---------~~l~~k---r~LlVlDdv~~~~~~~~~~l~~~l~  275 (1277)
                          +.-..+.|   ++.+.......  ...+...+.         .+.+++   .-+||+|...+-...+   ++..+.
T Consensus       299 eEeKm~PWmq~i~DnLE~L~~~~~~~--~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTphe---ikTilt  373 (436)
T COG1875         299 EEEKMGPWMQAIFDNLEVLFSPNEPG--DRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTPHE---LKTILT  373 (436)
T ss_pred             hhhhccchHHHHHhHHHHHhcccccc--hHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCHHH---HHHHHH
Confidence                11122222   22222222111  222222211         233554   4689999998755533   344444


Q ss_pred             cCCCCcEEEEEccc
Q 000803          276 AAAPNSKMIITTRN  289 (1277)
Q Consensus       276 ~~~~~s~iivTtr~  289 (1277)
                      ..+.||||+.|--.
T Consensus       374 R~G~GsKIVl~gd~  387 (436)
T COG1875         374 RAGEGSKIVLTGDP  387 (436)
T ss_pred             hccCCCEEEEcCCH
Confidence            56789999998643

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=95.03  E-value=0.12  Score=55.44  Aligned_cols=87  Identities=14%  Similarity=0.161  Sum_probs=52.7

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCC----------------
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSAT----------------  230 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~----------------  230 (1277)
                      +.-.++.|+|.+|+|||+||.++..... +   .=..++|++..+.  ..++.+.+ .+++-..                
T Consensus        23 ~~g~~~~i~G~~GsGKt~l~~~~~~~~~-~---~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~   95 (234)
T PRK06067         23 PFPSLILIEGDHGTGKSVLSQQFVYGAL-K---QGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNT   95 (234)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHHHH-h---CCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccc
Confidence            3457999999999999999999865321 1   1246788888654  34444432 2222110                


Q ss_pred             ----CCCCcHHHHHHHHHHhhcC-ceEEEEecCcc
Q 000803          231 ----CDLKTVDEVQVQLKKAVDG-KRFLLVLDDVW  260 (1277)
Q Consensus       231 ----~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~  260 (1277)
                          ......+.+...+.+.+.. +.-++|+|.+-
T Consensus        96 ~~~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         96 EGFEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence                0112234555666666643 55589999974

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=94.98  E-value=0.09  Score=54.46  Aligned_cols=82  Identities=27%  Similarity=0.405  Sum_probs=50.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc-CHHHHHHHHHHHhc-------CCCCCCCcHH----
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF-DVLSISKALLESIT-------SATCDLKTVD----  237 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~il~~l~-------~~~~~~~~~~----  237 (1277)
                      .-++|+|.+|+|||+|+.++.+...      -+.++++-+.+.. .+.++.+++...-.       ....+.....    
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~~------~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~   89 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQD------ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRA   89 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHCT------TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhccc------ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhh
Confidence            4689999999999999999988642      2445788887654 34455555433200       0111111111    


Q ss_pred             -----HHHHHHHHhhcCceEEEEecCc
Q 000803          238 -----EVQVQLKKAVDGKRFLLVLDDV  259 (1277)
Q Consensus       238 -----~~~~~l~~~l~~kr~LlVlDdv  259 (1277)
                           ...+.+++  +++.+|+++||+
T Consensus        90 ~~~a~t~AEyfrd--~G~dVlli~Dsl  114 (215)
T PF00006_consen   90 PYTALTIAEYFRD--QGKDVLLIIDSL  114 (215)
T ss_dssp             HHHHHHHHHHHHH--TTSEEEEEEETH
T ss_pred             hccchhhhHHHhh--cCCceeehhhhh
Confidence                 12233444  689999999999

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 ....

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.96  E-value=0.023  Score=53.72  Aligned_cols=27  Identities=33%  Similarity=0.391  Sum_probs=22.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcccccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~  196 (1277)
                      --|+|.|++|+||||+++.+.+..+.+
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~   32 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREK   32 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhc
Confidence            468999999999999999998755433

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.96  E-value=0.18  Score=58.67  Aligned_cols=88  Identities=16%  Similarity=0.160  Sum_probs=48.2

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH--HHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV--LSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~--~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      .+++.++|++|+||||++..++.......  .-..+..|+... +..  ...++...+.++.......+.+++...+++.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~--~g~~V~li~~D~-~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~  297 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLY--GKKKVALITLDT-YRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQL  297 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhc--CCCeEEEEECCc-cHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHh
Confidence            36999999999999999988765433111  123456666433 221  1222233333333322233445555555543


Q ss_pred             hcCceEEEEecCccc
Q 000803          247 VDGKRFLLVLDDVWN  261 (1277)
Q Consensus       247 l~~kr~LlVlDdv~~  261 (1277)
                       . ..=+||+|....
T Consensus       298 -~-~~DlVlIDt~G~  310 (424)
T PRK05703        298 -R-DCDVILIDTAGR  310 (424)
T ss_pred             -C-CCCEEEEeCCCC
Confidence             2 346788897643

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=94.92  E-value=0.11  Score=55.16  Aligned_cols=28  Identities=29%  Similarity=0.285  Sum_probs=24.2

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhcccc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~  194 (1277)
                      +...+++|.|+.|+|||||++.+.....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~   58 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQ   58 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            5578999999999999999999987443

>PRK14974 cell division protein FtsY; Provisional

Probab=94.92  E-value=0.12  Score=57.56  Aligned_cols=90  Identities=18%  Similarity=0.124  Sum_probs=48.1

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH--HHHHHHHHHHhcCCCC---CCCcHHHH-HH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV--LSISKALLESITSATC---DLKTVDEV-QV  241 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~--~~~~~~il~~l~~~~~---~~~~~~~~-~~  241 (1277)
                      +..++.++|+.|+||||++..++......   .+ .++.+. .+.+..  ...++.....++....   ...+...+ .+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~---g~-~V~li~-~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~  213 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN---GF-SVVIAA-GDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYD  213 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc---CC-eEEEec-CCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHH
Confidence            46899999999999999888877643221   23 233443 333332  2334445555553321   12233222 23


Q ss_pred             HHHHhhcCceEEEEecCcccc
Q 000803          242 QLKKAVDGKRFLLVLDDVWNE  262 (1277)
Q Consensus       242 ~l~~~l~~kr~LlVlDdv~~~  262 (1277)
                      .++.......=+|++|-....
T Consensus       214 ai~~~~~~~~DvVLIDTaGr~  234 (336)
T PRK14974        214 AIEHAKARGIDVVLIDTAGRM  234 (336)
T ss_pred             HHHHHHhCCCCEEEEECCCcc
Confidence            333222222238999998654

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=94.86  E-value=0.064  Score=52.32  Aligned_cols=21  Identities=38%  Similarity=0.589  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000803          171 VIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      +|.++|++|+||||+|+.+..
T Consensus         1 lii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999999975

...

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.86  E-value=0.0016  Score=66.63  Aligned_cols=79  Identities=23%  Similarity=0.244  Sum_probs=41.4

Q ss_pred             CeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccch--hhccccCcCeeee
Q 000803          553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPS--KIRRLINLCHLDI  630 (1277)
Q Consensus       553 ~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~--~i~~L~~L~~L~l  630 (1277)
                      .+.+.|++.||.+..+ +.+.+++.|++|.||-|.|+.| ..+..+++|+.|.|+.| .|..+-+  -+.+|++|+.|.|
T Consensus        19 ~~vkKLNcwg~~L~DI-sic~kMp~lEVLsLSvNkIssL-~pl~rCtrLkElYLRkN-~I~sldEL~YLknlpsLr~LWL   95 (388)
T KOG2123|consen   19 ENVKKLNCWGCGLDDI-SICEKMPLLEVLSLSVNKISSL-APLQRCTRLKELYLRKN-CIESLDELEYLKNLPSLRTLWL   95 (388)
T ss_pred             HHhhhhcccCCCccHH-HHHHhcccceeEEeeccccccc-hhHHHHHHHHHHHHHhc-ccccHHHHHHHhcCchhhhHhh
Confidence            3445555666655554 2234556666666666666655 23555555555555552 3333332  1345566666666


Q ss_pred             cCcc
Q 000803          631 RGAI  634 (1277)
Q Consensus       631 ~~~~  634 (1277)
                      ..|.
T Consensus        96 ~ENP   99 (388)
T KOG2123|consen   96 DENP   99 (388)
T ss_pred             ccCC
Confidence            5554

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=94.85  E-value=0.18  Score=59.80  Aligned_cols=60  Identities=15%  Similarity=0.271  Sum_probs=43.1

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEe
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCV  209 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~  209 (1277)
                      .++.-.+-++++..||....... ...+++.+.|++|+||||.++.+++..      .|+.+-|.+-
T Consensus        20 eLavhkkKv~eV~~wl~~~~~~~-~~~~iLlLtGP~G~GKtttv~~La~el------g~~v~Ew~np   79 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFSGS-SPKRILLLTGPSGCGKTTTVKVLAKEL------GFEVQEWINP   79 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhccC-CCcceEEEECCCCCCHHHHHHHHHHHh------CCeeEEecCC
Confidence            44445566788888886532211 345799999999999999999998753      5677778653

>PRK09354 recA recombinase A; Provisional

Probab=94.82  E-value=0.064  Score=59.50  Aligned_cols=85  Identities=20%  Similarity=0.185  Sum_probs=55.1

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCC-----CCCCcHHHHHH
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSAT-----CDLKTVDEVQV  241 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~~~  241 (1277)
                      +.-+++-|+|++|+||||||.+++.....    .-..++||+..+.++..     .++.++.+.     ......++...
T Consensus        58 p~G~IteI~G~~GsGKTtLal~~~~~~~~----~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~  128 (349)
T PRK09354         58 PRGRIVEIYGPESSGKTTLALHAIAEAQK----AGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALE  128 (349)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHH----cCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHH
Confidence            34589999999999999999988764322    22467899988877753     334443221     12233555555


Q ss_pred             HHHHhhc-CceEEEEecCcc
Q 000803          242 QLKKAVD-GKRFLLVLDDVW  260 (1277)
Q Consensus       242 ~l~~~l~-~kr~LlVlDdv~  260 (1277)
                      .+...++ +..-+||+|-|-
T Consensus       129 i~~~li~s~~~~lIVIDSva  148 (349)
T PRK09354        129 IADTLVRSGAVDLIVVDSVA  148 (349)
T ss_pred             HHHHHhhcCCCCEEEEeChh
Confidence            5555543 356689999984

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=94.82  E-value=0.18  Score=51.43  Aligned_cols=118  Identities=17%  Similarity=0.226  Sum_probs=61.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEE---eCCCcCHHHHHH------HHHHHhcCCC-----C-CCC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVC---VSDDFDVLSISK------ALLESITSAT-----C-DLK  234 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~---~s~~~~~~~~~~------~il~~l~~~~-----~-~~~  234 (1277)
                      .+++|+|..|.|||||++.++.....     ....+++.   +.. .+......      ++++.++...     . ...
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~~~~-----~~G~v~~~g~~~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS   99 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGLLKP-----SSGEILLDGKDLAS-LSPKELARKIAYVPQALELLGLAHLADRPFNELS   99 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC-----CCcEEEECCEECCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCC
Confidence            58999999999999999999875332     22333332   211 12211111      1344443221     1 111


Q ss_pred             cHHHHHHHHHHhhcCceEEEEecCccc-ccHHhHHhhhcccccC-CC-CcEEEEEccccccc
Q 000803          235 TVDEVQVQLKKAVDGKRFLLVLDDVWN-EDYSLWVDLKAPFLAA-AP-NSKMIITTRNSHVA  293 (1277)
Q Consensus       235 ~~~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~-~s~iivTtr~~~v~  293 (1277)
                      .-+...-.+-+.+...+-++++|+--. -+......+...+... .. +..||++|.+.+..
T Consensus       100 ~G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         100 GGERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            222233345566667788899998732 1122223333333322 12 67888888876543

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PRK05439 pantothenate kinase; Provisional

Probab=94.76  E-value=0.13  Score=56.25  Aligned_cols=82  Identities=15%  Similarity=0.021  Sum_probs=43.3

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhc-CCCCCCCcHHHHHHHHHH
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESIT-SATCDLKTVDEVQVQLKK  245 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~-~~~~~~~~~~~~~~~l~~  245 (1277)
                      +...+|+|.|.+|+||||+|+.+..-.....  .-..+.-++...-+...+.+.+- ..+. ....+.-+.+.+.+.+..
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~--~~~~v~vi~~DdFy~~~~~l~~~-~l~~~kg~Pes~D~~~l~~~L~~  160 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLSRWP--EHPKVELVTTDGFLYPNAVLEER-GLMKRKGFPESYDMRALLRFLSD  160 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhhC--CCCceEEEeccccccCHHHHhhh-hccccCCCcccccHHHHHHHHHH
Confidence            5578999999999999999998866321110  11123344433322222222110 0111 112334566666666666


Q ss_pred             hhcCce
Q 000803          246 AVDGKR  251 (1277)
Q Consensus       246 ~l~~kr  251 (1277)
                      ...++.
T Consensus       161 Lk~G~~  166 (311)
T PRK05439        161 VKSGKP  166 (311)
T ss_pred             HHcCCC
Confidence            655554

>TIGR02012 tigrfam_recA protein RecA

Probab=94.76  E-value=0.072  Score=58.63  Aligned_cols=85  Identities=20%  Similarity=0.184  Sum_probs=53.9

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCC-----CCCCcHHHHHH
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSAT-----CDLKTVDEVQV  241 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~~~  241 (1277)
                      +.-+++-|+|++|+||||||.++......    .-..++|++..+.++..     .+++++.+.     ......++...
T Consensus        53 p~G~iteI~G~~GsGKTtLaL~~~~~~~~----~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~  123 (321)
T TIGR02012        53 PRGRIIEIYGPESSGKTTLALHAIAEAQK----AGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALE  123 (321)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHH----cCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHH
Confidence            34589999999999999999987764322    22457899877766553     234443221     12234455555


Q ss_pred             HHHHhhc-CceEEEEecCcc
Q 000803          242 QLKKAVD-GKRFLLVLDDVW  260 (1277)
Q Consensus       242 ~l~~~l~-~kr~LlVlDdv~  260 (1277)
                      .+....+ +..-+||+|.|-
T Consensus       124 ~~~~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       124 IAETLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             HHHHHhhccCCcEEEEcchh
Confidence            5555443 456689999984

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=94.75  E-value=0.15  Score=51.83  Aligned_cols=24  Identities=33%  Similarity=0.494  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+++|+|..|.|||||++.+..-.
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccC
Confidence            589999999999999999998753

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=94.74  E-value=0.18  Score=57.00  Aligned_cols=53  Identities=30%  Similarity=0.329  Sum_probs=37.6

Q ss_pred             ccccch---hhHHHHHHHHhcccc---cCCCCeEEEEEEccCCCcHHHHHHHHhccccc
Q 000803          143 VVFGRE---EDKTKILEMVLTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAV  195 (1277)
Q Consensus       143 ~~vGr~---~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~  195 (1277)
                      ++-|-|   .|+++|++.|.+...   -++.-++=|-++|++|.|||-||++++-...+
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~V  363 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGV  363 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCC
Confidence            345665   467788888876531   11133567889999999999999999875544

>PRK07667 uridine kinase; Provisional

Probab=94.68  E-value=0.04  Score=56.78  Aligned_cols=39  Identities=18%  Similarity=0.345  Sum_probs=29.5

Q ss_pred             HHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          151 KTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       151 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+.+.+.+....    ++..+|+|.|.+|+||||+|+.+....
T Consensus         3 ~~~~~~~~~~~~----~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHK----ENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcC----CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            455666664433    345899999999999999999998743

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=94.67  E-value=0.15  Score=49.54  Aligned_cols=103  Identities=19%  Similarity=0.192  Sum_probs=53.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      .+++|+|..|.|||||++.+.......     ...+|+.-..             .+..-. ....-+...-.+.+.+..
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~~~-----~G~i~~~~~~-------------~i~~~~-~lS~G~~~rv~laral~~   87 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGELEPD-----EGIVTWGSTV-------------KIGYFE-QLSGGEKMRLALAKLLLE   87 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCCCCC-----ceEEEECCeE-------------EEEEEc-cCCHHHHHHHHHHHHHhc
Confidence            689999999999999999998754322     2333332100             000000 011112222334555566


Q ss_pred             ceEEEEecCccc-ccHHhHHhhhcccccCCCCcEEEEEccccccc
Q 000803          250 KRFLLVLDDVWN-EDYSLWVDLKAPFLAAAPNSKMIITTRNSHVA  293 (1277)
Q Consensus       250 kr~LlVlDdv~~-~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~  293 (1277)
                      ++-++++|+--. -+......+...+...  +..||++|.+.+.+
T Consensus        88 ~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~  130 (144)
T cd03221          88 NPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFL  130 (144)
T ss_pred             CCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHH
Confidence            677888888632 1122223333333222  34688888775544

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>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=94.65  E-value=0.11  Score=54.72  Aligned_cols=23  Identities=35%  Similarity=0.385  Sum_probs=20.4

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      +|+|.|..|+||||+|+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998743

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.61  E-value=0.021  Score=59.31  Aligned_cols=92  Identities=17%  Similarity=0.180  Sum_probs=52.8

Q ss_pred             CcccceeeecccccccccCccCCCCCCCCCceeccCCCCCCCCC---CCCCCCccceeeccCChhhHHHhccCCCCCccc
Q 000803         1181 PASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFP---EVGLPSSLLSLEIKNCPKLRKQCKRDRGKEWSK 1257 (1277)
Q Consensus      1181 ~~~L~~L~l~~~~~l~~l~~~~~~~l~~L~~L~l~~c~~l~~lp---~~~~~~~L~~L~i~~c~~L~~~~~~~~~~~w~~ 1257 (1277)
                      ++++..+-+..||--..-...+...++++-.|+++.+ ++.+..   ...-.++|..|.+.++|.... .+. +-.-...
T Consensus       198 Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~~-~idswasvD~Ln~f~~l~dlRv~~~Pl~d~-l~~-~err~ll  274 (418)
T KOG2982|consen  198 FPNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGAN-NIDSWASVDALNGFPQLVDLRVSENPLSDP-LRG-GERRFLL  274 (418)
T ss_pred             cccchheeeecCcccchhhcccCCCCCcchhhhhccc-ccccHHHHHHHcCCchhheeeccCCccccc-ccC-CcceEEE
Confidence            3446666666665322222345666777778888766 444432   222246788888888876543 111 2234567


Q ss_pred             eeccceeEE-CCccccCCC
Q 000803         1258 IARIPCVKI-DDKFIYDPE 1275 (1277)
Q Consensus      1258 ~~~i~~~~i-~~~~~~~~~ 1275 (1277)
                      |++++.|.+ ++..|...|
T Consensus       275 IaRL~~v~vLNGskIss~e  293 (418)
T KOG2982|consen  275 IARLTKVQVLNGSKISSRE  293 (418)
T ss_pred             EeeccceEEecCcccchhh
Confidence            888888865 555665544

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=94.61  E-value=0.91  Score=46.16  Aligned_cols=203  Identities=16%  Similarity=0.165  Sum_probs=99.4

Q ss_pred             ccccc-hhhHHHHHHHHhcccc-------cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC
Q 000803          143 VVFGR-EEDKTKILEMVLTDTA-------ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       143 ~~vGr-~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~  214 (1277)
                      .+||+ ++.+++|.+.+.-...       -+-.+++-+.++|++|.|||-||++|+++.         ...|+.||..  
T Consensus       147 eMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht---------~c~firvsgs--  215 (404)
T KOG0728|consen  147 EMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT---------DCTFIRVSGS--  215 (404)
T ss_pred             HHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc---------ceEEEEechH--
Confidence            45554 6666666555422110       011345678899999999999999998743         2345556553  


Q ss_pred             HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhh-cCceEEEEecCcccccH--------------HhHHhhhccccc--C
Q 000803          215 VLSISKALLESITSATCDLKTVDEVQVQLKKAV-DGKRFLLVLDDVWNEDY--------------SLWVDLKAPFLA--A  277 (1277)
Q Consensus       215 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~--------------~~~~~l~~~l~~--~  277 (1277)
                        ++.++.+.    ..      ....+.+.-.. ..-+..|+.|.+++...              ...-.+...+..  .
T Consensus       216 --elvqk~ig----eg------srmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfea  283 (404)
T KOG0728|consen  216 --ELVQKYIG----EG------SRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEA  283 (404)
T ss_pred             --HHHHHHhh----hh------HHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccccc
Confidence              22222111    00      11111111111 24567888888754211              112223333322  2


Q ss_pred             CCCcEEEEEcccccccccc-----CCCceeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHH
Q 000803          278 APNSKMIITTRNSHVASTM-----GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKT  352 (1277)
Q Consensus       278 ~~~s~iivTtr~~~v~~~~-----~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  352 (1277)
                      .++-+||+.|..-++....     ...+.++..+-+++.-.++++-+.-.- +-...-.+..+|+++....|.--.+.-+
T Consensus       284 tknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkm-nl~rgi~l~kiaekm~gasgaevk~vct  362 (404)
T KOG0728|consen  284 TKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKM-NLTRGINLRKIAEKMPGASGAEVKGVCT  362 (404)
T ss_pred             ccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhh-chhcccCHHHHHHhCCCCccchhhhhhh
Confidence            4567888877654444321     233557777877777777776554211 1111123455555544333333333434


Q ss_pred             HHhhh--cCC----ChhhHHHHH
Q 000803          353 LGGLL--RTT----TYDMWDDIL  369 (1277)
Q Consensus       353 ~~~~L--~~~----~~~~w~~~l  369 (1277)
                      =|++.  +.+    +.++++-+.
T Consensus       363 eagm~alrerrvhvtqedfemav  385 (404)
T KOG0728|consen  363 EAGMYALRERRVHVTQEDFEMAV  385 (404)
T ss_pred             hhhHHHHHHhhccccHHHHHHHH
Confidence            44432  322    455555443

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=94.59  E-value=0.17  Score=51.24  Aligned_cols=23  Identities=43%  Similarity=0.546  Sum_probs=20.2

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ++.++|++|+||||++..++...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999987643

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.

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.57  E-value=0.15  Score=53.60  Aligned_cols=125  Identities=15%  Similarity=0.097  Sum_probs=71.8

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC-----CcCHHHHHHHHHHHhcCCCC------CCCcHH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-----DFDVLSISKALLESITSATC------DLKTVD  237 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~-----~~~~~~~~~~il~~l~~~~~------~~~~~~  237 (1277)
                      -.+++|||..|+||||+|+.+..=...     -...+++.-.+     .....+-..++++.++....      ..-+-.
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~L~~p-----t~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGG  113 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILGLEEP-----TSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGG  113 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHcCcCC-----CCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCch
Confidence            368999999999999999999864332     22344443221     12233445566666653321      111222


Q ss_pred             HHH-HHHHHhhcCceEEEEecCccccc-HHhHHhhhccccc--CCCCcEEEEEccccccccccCC
Q 000803          238 EVQ-VQLKKAVDGKRFLLVLDDVWNED-YSLWVDLKAPFLA--AAPNSKMIITTRNSHVASTMGP  298 (1277)
Q Consensus       238 ~~~-~~l~~~l~~kr~LlVlDdv~~~~-~~~~~~l~~~l~~--~~~~s~iivTtr~~~v~~~~~~  298 (1277)
                      +.+ -.+.+.+.-++-++|.|.--+.- ...-.++...+.+  ...|-..+..|.+-.++..+..
T Consensus       114 QrQRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~isd  178 (268)
T COG4608         114 QRQRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYISD  178 (268)
T ss_pred             hhhhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhhhcc
Confidence            332 34667788899999999874321 1111222222222  2346778888888777776543

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=94.55  E-value=0.048  Score=54.76  Aligned_cols=23  Identities=39%  Similarity=0.534  Sum_probs=20.4

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .|.|.|.+|+||||+|+.+.+..
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998863

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=94.54  E-value=0.27  Score=54.07  Aligned_cols=53  Identities=23%  Similarity=0.221  Sum_probs=36.4

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESI  226 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l  226 (1277)
                      -.++.|.|.+|+||||+|.+++......   +=..++|++....  ..++.+.+...+
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~---~g~~vl~iS~E~~--~~~~~~r~~~~~   82 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLITQ---HGVRVGTISLEEP--VVRTARRLLGQY   82 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHHh---cCceEEEEEcccC--HHHHHHHHHHHH
Confidence            3588899999999999999987654322   1235788886653  455555555543

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=94.48  E-value=0.25  Score=49.44  Aligned_cols=116  Identities=14%  Similarity=0.083  Sum_probs=57.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCc--c---eEEEEEeCCCcCH--HHHHHHHHHHhcCCCCCCCcHHHHHHH
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKF--D---VKAWVCVSDDFDV--LSISKALLESITSATCDLKTVDEVQVQ  242 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f--~---~~~wv~~s~~~~~--~~~~~~il~~l~~~~~~~~~~~~~~~~  242 (1277)
                      .+++|+|..|.|||||++.+..-..... +..  +   .+.++  .+....  ..+...+...   .......-+...-.
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~~~~~~-G~i~~~~~~~i~~~--~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~rv~  101 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAGLWPWGS-GRIGMPEGEDLLFL--PQRPYLPLGTLREQLIYP---WDDVLSGGEQQRLA  101 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCC-ceEEECCCceEEEE--CCCCccccccHHHHhhcc---CCCCCCHHHHHHHH
Confidence            5899999999999999999987543221 111  1   12222  222211  1222222110   11122222333344


Q ss_pred             HHHhhcCceEEEEecCccc-ccHHhHHhhhcccccCCCCcEEEEEccccccc
Q 000803          243 LKKAVDGKRFLLVLDDVWN-EDYSLWVDLKAPFLAAAPNSKMIITTRNSHVA  293 (1277)
Q Consensus       243 l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v~  293 (1277)
                      +.+.+..++=++++|.--. -+......+...+...  +..||++|.+.+..
T Consensus       102 laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~  151 (166)
T cd03223         102 FARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLW  151 (166)
T ss_pred             HHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHH
Confidence            5566666777788887532 1111222222222222  46788888876654

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK10867 signal recognition particle protein; Provisional

Probab=94.46  E-value=0.1  Score=60.19  Aligned_cols=25  Identities=40%  Similarity=0.464  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      .+.+|.++|.+|+||||.|..++..
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~  123 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKY  123 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHH
Confidence            3689999999999999988777653

>PHA02244 ATPase-like protein

Probab=94.45  E-value=0.22  Score=55.31  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHhcc
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      -|.|+|++|+|||+||++++..
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~  142 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEA  142 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            3678999999999999999874

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=94.45  E-value=0.059  Score=63.12  Aligned_cols=53  Identities=25%  Similarity=0.412  Sum_probs=43.0

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      +..-+|.++-+++|++.+....-.+.-+-+++..+|++|||||.+|+.++...
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL  462 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL  462 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh
Confidence            45678999999999999876533333456899999999999999999998744

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=94.45  E-value=0.072  Score=54.80  Aligned_cols=31  Identities=29%  Similarity=0.458  Sum_probs=25.6

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVED  197 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~  197 (1277)
                      .+..+|.++||+|.||||+.+.++.+...+.
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~   47 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHLHAKK   47 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHHhhcc
Confidence            4467889999999999999999988765443

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.43  E-value=0.25  Score=55.04  Aligned_cols=90  Identities=12%  Similarity=0.122  Sum_probs=54.4

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC-cCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD-FDVLSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      ..++++++|+.|+||||++..++.....+   . ..+.+++.... .....-++...+.++.......+.+++...+...
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~---g-~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l  280 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQ---N-RTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYM  280 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc---C-CeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHH
Confidence            45899999999999999999887643222   1 24556665332 1224445555555544333344566666656544


Q ss_pred             hc-CceEEEEecCccc
Q 000803          247 VD-GKRFLLVLDDVWN  261 (1277)
Q Consensus       247 l~-~kr~LlVlDdv~~  261 (1277)
                      -. +..=+|++|-...
T Consensus       281 ~~~~~~D~VLIDTAGr  296 (407)
T PRK12726        281 TYVNCVDHILIDTVGR  296 (407)
T ss_pred             HhcCCCCEEEEECCCC
Confidence            21 3456788898855

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=94.42  E-value=0.15  Score=55.45  Aligned_cols=25  Identities=32%  Similarity=0.329  Sum_probs=21.5

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      ....+|+|.|..|+||||+|+.+..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~   84 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQA   84 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999987643

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.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=94.41  E-value=0.099  Score=50.93  Aligned_cols=116  Identities=18%  Similarity=0.151  Sum_probs=59.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC---CcCHHHHHHHHHHHhc-----CCC-CCCCcHH---
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD---DFDVLSISKALLESIT-----SAT-CDLKTVD---  237 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~---~~~~~~~~~~il~~l~-----~~~-~~~~~~~---  237 (1277)
                      ..|-|++..|.||||+|....-...-.   .+ .+.++..-.   .......++.+ ..+.     ... ....+.+   
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~---g~-~v~~vQFlKg~~~~gE~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~   77 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGH---GY-RVGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDI   77 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHC---CC-eEEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHH
Confidence            468888889999999997665422111   22 334433222   23344433333 1110     000 0001111   


Q ss_pred             ----HHHHHHHHhhcC-ceEEEEecCcccc---cHHhHHhhhcccccCCCCcEEEEEcccc
Q 000803          238 ----EVQVQLKKAVDG-KRFLLVLDDVWNE---DYSLWVDLKAPFLAAAPNSKMIITTRNS  290 (1277)
Q Consensus       238 ----~~~~~l~~~l~~-kr~LlVlDdv~~~---~~~~~~~l~~~l~~~~~~s~iivTtr~~  290 (1277)
                          +..+..++.+.. +-=|+|||.+-..   .....+.+...+.....+.-||+|.|+.
T Consensus        78 ~~a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~  138 (159)
T cd00561          78 AAAAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA  138 (159)
T ss_pred             HHHHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence                122333444444 4459999998432   1122345555555566688999999985

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=94.40  E-value=0.19  Score=58.24  Aligned_cols=88  Identities=19%  Similarity=0.157  Sum_probs=46.6

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH--HHHHHHHHHHhcCCCCC---CCcHHHHHHH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV--LSISKALLESITSATCD---LKTVDEVQVQ  242 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~--~~~~~~il~~l~~~~~~---~~~~~~~~~~  242 (1277)
                      .+.+|.++|.+|+||||+|..++.....+   .+ .+..|+.. .+..  .+.++.+..+++.+...   ..+...+...
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~---g~-kV~lV~~D-~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~  168 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKK---GL-KVGLVAAD-TYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKE  168 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHc---CC-eEEEecCC-CCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHH
Confidence            35799999999999999999988754322   22 33444432 2222  33444555555432211   1222232222


Q ss_pred             HHHhhcCceEEEEecCccc
Q 000803          243 LKKAVDGKRFLLVLDDVWN  261 (1277)
Q Consensus       243 l~~~l~~kr~LlVlDdv~~  261 (1277)
                      ..+.+.+. =+||+|....
T Consensus       169 al~~~~~~-DvVIIDTAGr  186 (437)
T PRK00771        169 GLEKFKKA-DVIIVDTAGR  186 (437)
T ss_pred             HHHHhhcC-CEEEEECCCc
Confidence            22222333 4677777743

>TIGR00959 ffh signal recognition particle protein

Probab=94.38  E-value=0.11  Score=59.92  Aligned_cols=90  Identities=18%  Similarity=0.158  Sum_probs=47.2

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH--HHHHHHHHHHhcCCCC---CCCcHHHHHHH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV--LSISKALLESITSATC---DLKTVDEVQVQ  242 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~--~~~~~~il~~l~~~~~---~~~~~~~~~~~  242 (1277)
                      .+.++.++|.+|+||||.|..++.....+.  .+ .++.|+. +.+..  .+.++......+.+..   ...++.++...
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~~~~--g~-kV~lV~~-D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~  173 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLKKKQ--GK-KVLLVAC-DLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARR  173 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhC--CC-eEEEEec-cccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHH
Confidence            357999999999999999988876432111  12 2333433 22332  2233334444432211   12334444433


Q ss_pred             HHHhhcCceE-EEEecCccc
Q 000803          243 LKKAVDGKRF-LLVLDDVWN  261 (1277)
Q Consensus       243 l~~~l~~kr~-LlVlDdv~~  261 (1277)
                      ..+....+.+ +||+|-...
T Consensus       174 al~~~~~~~~DvVIIDTaGr  193 (428)
T TIGR00959       174 ALEYAKENGFDVVIVDTAGR  193 (428)
T ss_pred             HHHHHHhcCCCEEEEeCCCc
Confidence            3333333444 788888753

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=94.30  E-value=0.25  Score=53.10  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=19.3

Q ss_pred             EEEEEccCCCcHHHHHHHHhcc
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      +..|+|++|+|||+||.+++-.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~   24 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALA   24 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHH
Confidence            6789999999999999988753

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=94.29  E-value=0.16  Score=57.07  Aligned_cols=58  Identities=16%  Similarity=0.259  Sum_probs=40.4

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccc--cCCcceEEEEEeCCCcCHHHHHHHHHHHh
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWVCVSDDFDVLSISKALLESI  226 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~--~~~f~~~~wv~~s~~~~~~~~~~~il~~l  226 (1277)
                      .-.++-|+|.+|+|||++|.+++.......  ++.=..++||+....++..++.+ +++.+
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~  160 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEAL  160 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHc
Confidence            357899999999999999999875432211  01114789999988888776654 34444

>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=94.29  E-value=0.17  Score=50.91  Aligned_cols=115  Identities=17%  Similarity=0.157  Sum_probs=58.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc-cccccCC---cc--eEEEEEeCCCcCHHHHHHHHHHHhcCCCC--C----CCc-H
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK-AVEDSGK---FD--VKAWVCVSDDFDVLSISKALLESITSATC--D----LKT-V  236 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~-~~~~~~~---f~--~~~wv~~s~~~~~~~~~~~il~~l~~~~~--~----~~~-~  236 (1277)
                      .+++|+|+.|+|||||.+.+..+. .+...+.   |.  .+.|+  .+        .+.++.++....  +    .-+ -
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LSgG   91 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLSGG   91 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCCHH
Confidence            689999999999999999886321 1110001   10  12232  11        345555553211  1    111 1


Q ss_pred             HHHHHHHHHhhcCc--eEEEEecCccc-ccHHhHHhhhcccccC-CCCcEEEEEcccccccc
Q 000803          237 DEVQVQLKKAVDGK--RFLLVLDDVWN-EDYSLWVDLKAPFLAA-APNSKMIITTRNSHVAS  294 (1277)
Q Consensus       237 ~~~~~~l~~~l~~k--r~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~~s~iivTtr~~~v~~  294 (1277)
                      +...-.+.+.+..+  .=++++|.--. -+......+...+... ..|..||++|.+.+...
T Consensus        92 q~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~  153 (176)
T cd03238          92 ELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLS  153 (176)
T ss_pred             HHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            22223344555555  66788888632 1112222333333221 24778888888876543

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.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=94.28  E-value=0.26  Score=50.94  Aligned_cols=62  Identities=13%  Similarity=0.139  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHhhcCceEEEEecCc-ccccHHhHHhhhcccccC--CCCcEEEEEccccccccccC
Q 000803          236 VDEVQVQLKKAVDGKRFLLVLDDV-WNEDYSLWVDLKAPFLAA--APNSKMIITTRNSHVASTMG  297 (1277)
Q Consensus       236 ~~~~~~~l~~~l~~kr~LlVlDdv-~~~~~~~~~~l~~~l~~~--~~~s~iivTtr~~~v~~~~~  297 (1277)
                      -++..-.+.+.+-..+-+|+-|.= .+-+...-..+...+...  ..|..||+.|.+..+|..+.
T Consensus       146 GqqQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~d  210 (226)
T COG1136         146 GQQQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYAD  210 (226)
T ss_pred             HHHHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhCC
Confidence            344445677788888888998873 111112223333333332  34889999999999998643

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=94.25  E-value=1.8  Score=47.63  Aligned_cols=155  Identities=10%  Similarity=0.054  Sum_probs=89.4

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccc------cccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAV------EDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQ  242 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~------~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~  242 (1277)
                      ..+.-++|..|.||+++|..+.+..-.      ..+.|-+...++....                    .....+++.+.
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g--------------------~~i~vd~Ir~l   77 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFD--------------------KDLSKSEFLSA   77 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCC--------------------CcCCHHHHHHH
Confidence            357779999999999999888764311      1111111222222111                    11122333322


Q ss_pred             HHHh----h-cCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc-cccccc-cCCCceeecCCCCHHHHHHH
Q 000803          243 LKKA----V-DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-SHVAST-MGPIDHYNLEHLLDDDCWSI  315 (1277)
Q Consensus       243 l~~~----l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~-~~v~~~-~~~~~~~~l~~L~~~~~~~L  315 (1277)
                      +...    . .+++=++|+||+..........+...+-....++.+|++|.+ ..+... ......+++.++++++..+.
T Consensus        78 ~~~~~~~~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~  157 (299)
T PRK07132         78 INKLYFSSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAK  157 (299)
T ss_pred             HHHhccCCcccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHH
Confidence            2221    1 246778889999777766777777777666667777765543 333332 23346799999999998877


Q ss_pred             HHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHHHHH
Q 000803          316 FKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       316 f~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  353 (1277)
                      +....   .       .++.++.++...+|.=-|+..+
T Consensus       158 l~~~~---~-------~~~~a~~~a~~~~~~~~a~~~~  185 (299)
T PRK07132        158 LLSKN---K-------EKEYNWFYAYIFSNFEQAEKYI  185 (299)
T ss_pred             HHHcC---C-------ChhHHHHHHHHcCCHHHHHHHH
Confidence            66431   1       1234555666677633555543

>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=94.22  E-value=0.18  Score=50.74  Aligned_cols=24  Identities=42%  Similarity=0.505  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+++|+|..|+|||||++.+..-.
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC
Confidence            589999999999999999998643

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.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=94.21  E-value=0.19  Score=50.67  Aligned_cols=24  Identities=33%  Similarity=0.432  Sum_probs=21.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+++|+|..|.|||||.+.++.-.
T Consensus        29 ~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          29 EKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            589999999999999999998753

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=94.19  E-value=2  Score=47.84  Aligned_cols=49  Identities=16%  Similarity=0.100  Sum_probs=33.9

Q ss_pred             eeecCCCCHHHHHHHHHHhhcCCCCCCchhhHHHHHHHHHhhcCCchHHH
Q 000803          301 HYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       301 ~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  350 (1277)
                      ++++++++.+|+..++....-.+--.. ....+...+++.-..+|+|--+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~-~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRS-RVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCcccc-CCCCHHHHHHHHHhcCCCHHHh
Confidence            789999999999999988774332211 1223455667777779998644

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=94.19  E-value=0.23  Score=55.32  Aligned_cols=59  Identities=17%  Similarity=0.146  Sum_probs=39.4

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhcccccc--ccCCcceEEEEEeCCCcCHHHHHHHHHHHhc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVE--DSGKFDVKAWVCVSDDFDVLSISKALLESIT  227 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~--~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~  227 (1277)
                      .-.++.|+|.+|+|||+||.+++......  .++.-..++|++....+...++ .++++.++
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~  155 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYG  155 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcC
Confidence            45799999999999999999886532211  1112235799998887777654 33444443

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).

>PTZ00301 uridine kinase; Provisional

Probab=94.19  E-value=0.07  Score=55.29  Aligned_cols=24  Identities=33%  Similarity=0.610  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhcc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..+|+|.|.+|.||||||+.+...
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~   26 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSE   26 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHH
Confidence            479999999999999999988754

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

Probab=94.19  E-value=0.54  Score=48.30  Aligned_cols=156  Identities=16%  Similarity=0.139  Sum_probs=82.9

Q ss_pred             CccccchhhHH---HHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          142 PVVFGREEDKT---KILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~---~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      ..+||.++.+.   -|++.|.+.+.=+.-.++-|..+|++|.|||.+|+++++...+    .|   +-|..      .++
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kv----p~---l~vka------t~l  187 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKV----PL---LLVKA------TEL  187 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCC----ce---EEech------HHH
Confidence            46889887654   3556665543222245688999999999999999999986543    22   11211      111


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHh-hcCceEEEEecCcccccH------------HhHHhhhccccc--CCCCcEE
Q 000803          219 SKALLESITSATCDLKTVDEVQVQLKKA-VDGKRFLLVLDDVWNEDY------------SLWVDLKAPFLA--AAPNSKM  283 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~------------~~~~~l~~~l~~--~~~~s~i  283 (1277)
                         |-+.++       +....++++.+. -+.-++.+.+|.++-...            +.-+.++..+..  .+.|-..
T Consensus       188 ---iGehVG-------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvt  257 (368)
T COG1223         188 ---IGEHVG-------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVT  257 (368)
T ss_pred             ---HHHHhh-------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEE
Confidence               111111       111122222222 234689999998743211            011112222211  2345555


Q ss_pred             EEEcccccccccc-C--CCceeecCCCCHHHHHHHHHHhh
Q 000803          284 IITTRNSHVASTM-G--PIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       284 ivTtr~~~v~~~~-~--~~~~~~l~~L~~~~~~~Lf~~~~  320 (1277)
                      |..|-..+..... .  -...++..--+++|-.+++...+
T Consensus       258 IaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~  297 (368)
T COG1223         258 IAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYA  297 (368)
T ss_pred             EeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHH
Confidence            6666655544321 1  11346666667888888887776

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=94.17  E-value=0.034  Score=55.61  Aligned_cols=26  Identities=42%  Similarity=0.487  Sum_probs=23.1

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhcccc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~  194 (1277)
                      ..+|+|-||-|+||||||+.+.++..
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            36899999999999999999988653

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=94.15  E-value=0.019  Score=34.78  Aligned_cols=22  Identities=32%  Similarity=0.637  Sum_probs=18.7

Q ss_pred             eeeEEecCCCCCCCCCcCCCCC
Q 000803          554 KLRLLSLQGYYIGELPIPFEDL  575 (1277)
Q Consensus       554 ~Lr~L~L~~~~i~~lp~~~~~l  575 (1277)
                      +|++|||++|.++.+|+.|++|
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT-
T ss_pred             CccEEECCCCcCEeCChhhcCC
Confidence            4899999999999999888764

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 ....

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=94.14  E-value=0.13  Score=57.93  Aligned_cols=46  Identities=22%  Similarity=0.233  Sum_probs=36.1

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      .++|+...+.++.+.+......    -.-|.|+|..|+||+++|+.++..
T Consensus         7 ~liG~S~~~~~~~~~i~~~a~~----~~pVlI~GE~GtGK~~lA~~iH~~   52 (326)
T PRK11608          7 NLLGEANSFLEVLEQVSRLAPL----DKPVLIIGERGTGKELIASRLHYL   52 (326)
T ss_pred             ccEECCHHHHHHHHHHHHHhCC----CCCEEEECCCCCcHHHHHHHHHHh
Confidence            5889999998888887654321    235789999999999999999753

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=94.14  E-value=0.19  Score=54.07  Aligned_cols=88  Identities=22%  Similarity=0.190  Sum_probs=54.9

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHH-hcCCC-CCCCcHHH---HHH
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLES-ITSAT-CDLKTVDE---VQV  241 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~-l~~~~-~~~~~~~~---~~~  241 (1277)
                      +.-+++=|+|+.|.||||+|.+++-....    .-..++|++.-+.+++..+.. +... +..-. ....+.++   +++
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~aq~----~g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v~~~~~~e~q~~i~~  132 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVANAQK----PGGKAAFIDTEHALDPERAKQ-LGVDLLDNLLVSQPDTGEQQLEIAE  132 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHHhhc----CCCeEEEEeCCCCCCHHHHHH-HHHhhhcceeEecCCCHHHHHHHHH
Confidence            45689999999999999999998764332    233789999999998876643 3333 21110 11222222   333


Q ss_pred             HHHHhhcCceEEEEecCc
Q 000803          242 QLKKAVDGKRFLLVLDDV  259 (1277)
Q Consensus       242 ~l~~~l~~kr~LlVlDdv  259 (1277)
                      .+.+....+--|+|+|.+
T Consensus       133 ~~~~~~~~~i~LvVVDSv  150 (279)
T COG0468         133 KLARSGAEKIDLLVVDSV  150 (279)
T ss_pred             HHHHhccCCCCEEEEecC
Confidence            333333334568888887

>cd01131 PilT Pilus retraction ATPase PilT

Probab=94.13  E-value=0.064  Score=55.50  Aligned_cols=110  Identities=10%  Similarity=0.075  Sum_probs=56.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      .++.|+|+.|.||||++..+......    .....+++ +.++...  ........+..... ..+.....+.++..+..
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~----~~~~~i~t-~e~~~E~--~~~~~~~~i~q~~v-g~~~~~~~~~i~~aLr~   73 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINK----NKTHHILT-IEDPIEF--VHESKRSLINQREV-GLDTLSFENALKAALRQ   73 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhh----cCCcEEEE-EcCCccc--cccCccceeeeccc-CCCccCHHHHHHHHhcC
Confidence            47899999999999999987764321    22233332 2222110  00000000000000 11123345567777776


Q ss_pred             ceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccccc
Q 000803          250 KRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHV  292 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v  292 (1277)
                      ..=.|++|.+.+.  +.+.......   ..|..++.|+....+
T Consensus        74 ~pd~ii~gEird~--e~~~~~l~~a---~~G~~v~~t~Ha~~~  111 (198)
T cd01131          74 DPDVILVGEMRDL--ETIRLALTAA---ETGHLVMSTLHTNSA  111 (198)
T ss_pred             CcCEEEEcCCCCH--HHHHHHHHHH---HcCCEEEEEecCCcH
Confidence            7779999999764  3333322222   245667777765444

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.

>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=94.12  E-value=0.037  Score=45.69  Aligned_cols=22  Identities=36%  Similarity=0.652  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHhcc
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      +++|.|..|+||||+|+.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999774

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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=94.09  E-value=0.056  Score=56.47  Aligned_cols=23  Identities=22%  Similarity=0.306  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      .+++.|+|+.|.|||||.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            37899999999999999998863

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=94.07  E-value=0.14  Score=51.16  Aligned_cols=114  Identities=17%  Similarity=0.094  Sum_probs=59.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC--CcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhh
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD--DFDVLSISKALLESITSATCDLKTVDEVQVQLKKAV  247 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~--~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  247 (1277)
                      .+++|+|..|.|||||.+.++.-..     .....+++.-..  ..+..+..+   ..++... ....-+...-.+.+.+
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~~-----~~~G~v~~~g~~~~~~~~~~~~~---~~i~~~~-qLS~G~~qrl~laral   97 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLYK-----PDSGEILVDGKEVSFASPRDARR---AGIAMVY-QLSVGERQMVEIARAL   97 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC-----CCCeEEEECCEECCcCCHHHHHh---cCeEEEE-ecCHHHHHHHHHHHHH
Confidence            5899999999999999999986432     223444443211  111111111   1111100 1222223333455666


Q ss_pred             cCceEEEEecCccc-ccHHhHHhhhcccccC-CCCcEEEEEcccccc
Q 000803          248 DGKRFLLVLDDVWN-EDYSLWVDLKAPFLAA-APNSKMIITTRNSHV  292 (1277)
Q Consensus       248 ~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~~s~iivTtr~~~v  292 (1277)
                      -.++-++++|+--. -+......+...+... ..|..||++|.+.+.
T Consensus        98 ~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~  144 (163)
T cd03216          98 ARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDE  144 (163)
T ss_pred             hcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHH
Confidence            66778888898632 1122223333333221 236778888887653

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=94.02  E-value=0.087  Score=57.88  Aligned_cols=27  Identities=22%  Similarity=0.234  Sum_probs=24.1

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ..++.++|+|++|.|||.+|+.+++..
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            456899999999999999999999854

>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=94.02  E-value=0.09  Score=54.79  Aligned_cols=63  Identities=24%  Similarity=0.220  Sum_probs=37.2

Q ss_pred             hHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHH
Q 000803          150 DKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       150 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~  218 (1277)
                      +..++++.+....    ++..+|+|.|++|+|||||..++....+.+.  +=-.++=|+-|.+++--.+
T Consensus        14 ~~~~ll~~l~~~~----g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g--~~VaVlAVDPSSp~tGGAl   76 (266)
T PF03308_consen   14 EARELLKRLYPHT----GRAHVIGITGPPGAGKSTLIDALIRELRERG--KRVAVLAVDPSSPFTGGAL   76 (266)
T ss_dssp             HHHHHHHHHGGGT----T-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT----EEEEEE-GGGGCC---S
T ss_pred             HHHHHHHHHHhhc----CCceEEEeeCCCCCcHHHHHHHHHHHHhhcC--CceEEEEECCCCCCCCCcc
Confidence            4556666665432    4568999999999999999988877554332  3233444555555554333

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.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.01  E-value=0.47  Score=48.24  Aligned_cols=61  Identities=13%  Similarity=0.056  Sum_probs=36.8

Q ss_pred             HHHHHhhcCceEEEEecCcccc-cHHhHHhhhccccc-CCCCcEEEEEccccccccccCCCce
Q 000803          241 VQLKKAVDGKRFLLVLDDVWNE-DYSLWVDLKAPFLA-AAPNSKMIITTRNSHVASTMGPIDH  301 (1277)
Q Consensus       241 ~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~~s~iivTtr~~~v~~~~~~~~~  301 (1277)
                      .++-+.+-=++-+.|||..++- +.+....+...+.. ...|+.+++.|..+.++....+...
T Consensus       153 ~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~v  215 (251)
T COG0396         153 NEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKV  215 (251)
T ss_pred             HHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCEE
Confidence            3444555556779999998662 22223322222221 2357888888888888887765544

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=93.98  E-value=0.27  Score=60.87  Aligned_cols=119  Identities=19%  Similarity=0.182  Sum_probs=68.8

Q ss_pred             ccccchhhHHHHHHHHhcccccCC--CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHH
Q 000803          143 VVFGREEDKTKILEMVLTDTAADH--ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~--~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      .++|.++.+..|.+.+......-.  .....+.+.|+.|+|||.||++++.-.  -  +..+..+-++.+.-      ..
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~--F--gse~~~IriDmse~------~e  632 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYV--F--GSEENFIRLDMSEF------QE  632 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHH--c--CCccceEEechhhh------hh
Confidence            467777778888777765432111  246788899999999999999886522  1  12334444544432      11


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHhhcCceE-EEEecCcccccHHhHHhhhccc
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAVDGKRF-LLVLDDVWNEDYSLWVDLKAPF  274 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~-LlVlDdv~~~~~~~~~~l~~~l  274 (1277)
                       +.+.++.+. .-. -.+....+.+.++.++| +|+||||...+......+...+
T Consensus       633 -vskligsp~-gyv-G~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~l  684 (898)
T KOG1051|consen  633 -VSKLIGSPP-GYV-GKEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLL  684 (898)
T ss_pred             -hhhccCCCc-ccc-cchhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHH
Confidence             222223221 111 11222355566666665 7779999888776666544444

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=93.98  E-value=0.16  Score=52.20  Aligned_cols=37  Identities=22%  Similarity=0.240  Sum_probs=26.9

Q ss_pred             EEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC
Q 000803          172 IPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD  212 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~  212 (1277)
                      +.|.|.+|+|||+||.++..... +.   =..++|++....
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~-~~---g~~v~~~s~e~~   38 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL-AR---GEPGLYVTLEES   38 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH-HC---CCcEEEEECCCC
Confidence            67999999999999998866433 21   135778876543

A related protein is found in archaea.

>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=93.97  E-value=0.039  Score=52.70  Aligned_cols=21  Identities=48%  Similarity=0.702  Sum_probs=19.1

Q ss_pred             EEEEccCCCcHHHHHHHHhcc
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      |+|.|..|+||||+|+.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999999764

...

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=93.97  E-value=0.8  Score=53.15  Aligned_cols=131  Identities=15%  Similarity=0.141  Sum_probs=74.4

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVD  248 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  248 (1277)
                      ..=|-++|++|+|||-||++|+|....    .|     +.|..+    +++....    +     .....+....++.=.
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~----NF-----isVKGP----ELlNkYV----G-----ESErAVR~vFqRAR~  602 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGA----NF-----ISVKGP----ELLNKYV----G-----ESERAVRQVFQRARA  602 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccC----ce-----EeecCH----HHHHHHh----h-----hHHHHHHHHHHHhhc
Confidence            345789999999999999999995422    33     444332    1221111    1     111222223333334


Q ss_pred             CceEEEEecCccccc-----HHh------HHhhhcccccC--CCCcEEEEEcccccccccc--C---CCceeecCCCCHH
Q 000803          249 GKRFLLVLDDVWNED-----YSL------WVDLKAPFLAA--APNSKMIITTRNSHVASTM--G---PIDHYNLEHLLDD  310 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~-----~~~------~~~l~~~l~~~--~~~s~iivTtr~~~v~~~~--~---~~~~~~l~~L~~~  310 (1277)
                      .-+++|+||.++.--     ...      ..+++.-+...  -.|--||-.|-.+++....  .   -....-++.-+.+
T Consensus       603 saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~  682 (802)
T KOG0733|consen  603 SAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAE  682 (802)
T ss_pred             CCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHH
Confidence            579999999994310     011      22333333222  2466677777666554321  1   2345777888888


Q ss_pred             HHHHHHHHhhc
Q 000803          311 DCWSIFKTHAF  321 (1277)
Q Consensus       311 ~~~~Lf~~~~~  321 (1277)
                      |-.++++..+-
T Consensus       683 eR~~ILK~~tk  693 (802)
T KOG0733|consen  683 ERVAILKTITK  693 (802)
T ss_pred             HHHHHHHHHhc
Confidence            88899888774

>TIGR01817 nifA Nif-specific regulatory protein

Probab=93.97  E-value=0.49  Score=57.64  Aligned_cols=50  Identities=14%  Similarity=0.251  Sum_probs=38.7

Q ss_pred             CCCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          140 TEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       140 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ....++|....+.++.+.+.....    ...-|.|+|..|+|||++|+.+++..
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a~----~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVAR----SNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHhC----cCCCEEEECCCCccHHHHHHHHHHhC
Confidence            345789999999998887765432    12346799999999999999998753

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=93.97  E-value=0.0025  Score=63.42  Aligned_cols=85  Identities=16%  Similarity=0.181  Sum_probs=71.5

Q ss_pred             cCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCee
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHL  628 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L  628 (1277)
                      +..++..++||++.|.+..+-..|+.+..|..|+++.|.|..+|++++.+..+..+++.+ +..+..|.+++++++++++
T Consensus        38 i~~~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~-n~~~~~p~s~~k~~~~k~~  116 (326)
T KOG0473|consen   38 IASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHK-NNHSQQPKSQKKEPHPKKN  116 (326)
T ss_pred             hhccceeeeehhhhhHHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhc-cchhhCCccccccCCcchh
Confidence            345678889999988887777778888888889999999999999999888888888877 4778889888889999888


Q ss_pred             eecCcc
Q 000803          629 DIRGAI  634 (1277)
Q Consensus       629 ~l~~~~  634 (1277)
                      ++.++.
T Consensus       117 e~k~~~  122 (326)
T KOG0473|consen  117 EQKKTE  122 (326)
T ss_pred             hhccCc
Confidence            887775

>TIGR00235 udk uridine kinase

Probab=93.95  E-value=0.047  Score=57.15  Aligned_cols=26  Identities=42%  Similarity=0.606  Sum_probs=23.0

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      +...+|+|+|++|+||||||+.+...
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            45589999999999999999999864

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=93.92  E-value=0.35  Score=54.10  Aligned_cols=59  Identities=20%  Similarity=0.174  Sum_probs=41.8

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccc--cccCCcceEEEEEeCCCcCHHHHHHHHHHHhc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAV--EDSGKFDVKAWVCVSDDFDVLSISKALLESIT  227 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~--~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~  227 (1277)
                      .-.++-|+|.+|+|||+|+.+++-....  ..++.-..++|++....|+..++.+ +++.++
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g  185 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFG  185 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcC
Confidence            3478999999999999999888632221  1112234689999999898887654 455554

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=93.91  E-value=0.29  Score=54.99  Aligned_cols=58  Identities=17%  Similarity=0.241  Sum_probs=40.2

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccc--cCCcceEEEEEeCCCcCHHHHHHHHHHHh
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWVCVSDDFDVLSISKALLESI  226 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~--~~~f~~~~wv~~s~~~~~~~~~~~il~~l  226 (1277)
                      .-.++-|+|.+|+|||++|.+++.......  ++.=..++||+....++..++. ++++.+
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~  153 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEAR  153 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHc
Confidence            357999999999999999999876433210  0011278999998888877654 344444

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=93.91  E-value=0.16  Score=57.15  Aligned_cols=45  Identities=22%  Similarity=0.225  Sum_probs=33.5

Q ss_pred             cccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          144 VFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       144 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ++|+...+.++.+.+.....    .-.-|.|+|..|+||+++|+.+++.
T Consensus         1 liG~S~~m~~~~~~~~~~a~----~~~pVLI~GE~GtGK~~lAr~iH~~   45 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAP----LDRPVLIIGERGTGKELIAARLHYL   45 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhC----CCCCEEEECCCCChHHHHHHHHHHh
Confidence            46777777777777655432    1234789999999999999999764

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=93.91  E-value=0.22  Score=56.85  Aligned_cols=86  Identities=19%  Similarity=0.189  Sum_probs=50.6

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC-HHHHHHHHHHHhcCC-------CCCCCcHH---
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD-VLSISKALLESITSA-------TCDLKTVD---  237 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~il~~l~~~-------~~~~~~~~---  237 (1277)
                      -..++|+|..|+|||||++.+.+..      ..+.++.+-+.+... +.++..+++..-...       ..+.....   
T Consensus       162 GqrigI~G~sG~GKSTLL~~I~~~~------~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (444)
T PRK08972        162 GQRMGLFAGSGVGKSVLLGMMTRGT------TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLK  235 (444)
T ss_pred             CCEEEEECCCCCChhHHHHHhccCC------CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHH
Confidence            3579999999999999999998632      235566666766543 344444443321100       11111111   


Q ss_pred             --HHHHHHHHhh--cCceEEEEecCcc
Q 000803          238 --EVQVQLKKAV--DGKRFLLVLDDVW  260 (1277)
Q Consensus       238 --~~~~~l~~~l--~~kr~LlVlDdv~  260 (1277)
                        ...-.+.+++  +++.+|+++||+-
T Consensus       236 a~~~A~tiAEyfrd~G~~VLl~~DslT  262 (444)
T PRK08972        236 GCETATTIAEYFRDQGLNVLLLMDSLT  262 (444)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEEcChH
Confidence              1112233444  5899999999993

>PRK05480 uridine/cytidine kinase; Provisional

Probab=93.90  E-value=0.049  Score=57.17  Aligned_cols=27  Identities=37%  Similarity=0.554  Sum_probs=23.5

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+..+|+|+|.+|+||||||+.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            346899999999999999999998743

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.82  E-value=0.49  Score=55.57  Aligned_cols=26  Identities=31%  Similarity=0.360  Sum_probs=22.7

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ..+-|-.+|++|+|||++|+++++..
T Consensus       467 ppkGVLlyGPPGC~KT~lAkalAne~  492 (693)
T KOG0730|consen  467 PPKGVLLYGPPGCGKTLLAKALANEA  492 (693)
T ss_pred             CCceEEEECCCCcchHHHHHHHhhhh
Confidence            45778899999999999999998843

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=93.82  E-value=0.25  Score=52.69  Aligned_cols=92  Identities=16%  Similarity=0.228  Sum_probs=54.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC-HHHHHHHHHHHhcCC-------CCCCCcHH----
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD-VLSISKALLESITSA-------TCDLKTVD----  237 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~il~~l~~~-------~~~~~~~~----  237 (1277)
                      .-++|.|..|+|||+|+..+.++......++-+.++++-+.+... ..++..++.+.=...       ..+.....    
T Consensus        70 QR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a  149 (276)
T cd01135          70 QKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIIT  149 (276)
T ss_pred             CEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHH
Confidence            467999999999999999988764321112356788888887653 445555544321100       11111111    


Q ss_pred             -HHHHHHHHhh---cCceEEEEecCccc
Q 000803          238 -EVQVQLKKAV---DGKRFLLVLDDVWN  261 (1277)
Q Consensus       238 -~~~~~l~~~l---~~kr~LlVlDdv~~  261 (1277)
                       ...-.+.+++   +++++|+++||+-.
T Consensus       150 ~~~a~aiAEyfrd~~g~~VLl~~D~ltr  177 (276)
T cd01135         150 PRMALTTAEYLAYEKGKHVLVILTDMTN  177 (276)
T ss_pred             HHHHHHHHHHHHhccCCeEEEEEcChhH
Confidence             1122344444   37899999999943

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.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=93.74  E-value=0.42  Score=59.18  Aligned_cols=130  Identities=17%  Similarity=0.111  Sum_probs=69.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      +-+.++|++|.|||++|+.+......    .|   +.++.++      +.    ....     ......+...+...-..
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~----~f---~~is~~~------~~----~~~~-----g~~~~~~~~~f~~a~~~  243 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKV----PF---FTISGSD------FV----EMFV-----GVGASRVRDMFEQAKKA  243 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCC----CE---EEEehHH------hH----Hhhh-----cccHHHHHHHHHHHHhc
Confidence            34889999999999999999874322    23   2222221      10    0010     01122333334444445


Q ss_pred             ceEEEEecCccccc----------HHhHHh----hhccccc--CCCCcEEEEEcccccccccc-----CCCceeecCCCC
Q 000803          250 KRFLLVLDDVWNED----------YSLWVD----LKAPFLA--AAPNSKMIITTRNSHVASTM-----GPIDHYNLEHLL  308 (1277)
Q Consensus       250 kr~LlVlDdv~~~~----------~~~~~~----l~~~l~~--~~~~s~iivTtr~~~v~~~~-----~~~~~~~l~~L~  308 (1277)
                      .+.+|++|+++...          ...+..    +...+..  ...+.-||.||...+.....     .-.+.+.++..+
T Consensus       244 ~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd  323 (644)
T PRK10733        244 APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPD  323 (644)
T ss_pred             CCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCC
Confidence            68899999985421          011222    2111211  12344555577665433211     123567888888


Q ss_pred             HHHHHHHHHHhhc
Q 000803          309 DDDCWSIFKTHAF  321 (1277)
Q Consensus       309 ~~~~~~Lf~~~~~  321 (1277)
                      .++-.+++..+..
T Consensus       324 ~~~R~~Il~~~~~  336 (644)
T PRK10733        324 VRGREQILKVHMR  336 (644)
T ss_pred             HHHHHHHHHHHhh
Confidence            8888888877663

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=93.71  E-value=1.4  Score=46.97  Aligned_cols=95  Identities=16%  Similarity=0.239  Sum_probs=65.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhcC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      +.+.|+|+.|+|||+-++++++..        ...+.+..++.+....+...+.........  ....+....+...+++
T Consensus        95 ~l~~vyg~~g~gKt~a~~~y~~s~--------p~~~l~~~~p~~~a~~~i~~i~~~~~~~~~--~~~~d~~~~~~~~l~~  164 (297)
T COG2842          95 SLVVVYGYAGLGKTQAAKNYAPSN--------PNALLIEADPSYTALVLILIICAAAFGATD--GTINDLTERLMIRLRD  164 (297)
T ss_pred             ceEEEeccccchhHHHHHhhcccC--------ccceeecCChhhHHHHHHHHHHHHHhcccc--hhHHHHHHHHHHHHcc
Confidence            488999999999999999998732        233445566777777777666665554332  2344555566666788


Q ss_pred             ceEEEEecCcccccHHhHHhhhccc
Q 000803          250 KRFLLVLDDVWNEDYSLWVDLKAPF  274 (1277)
Q Consensus       250 kr~LlVlDdv~~~~~~~~~~l~~~l  274 (1277)
                      ..-+|+.|....-....++.+....
T Consensus       165 ~~~~iivDEA~~L~~~ale~lr~i~  189 (297)
T COG2842         165 TVRLIIVDEADRLPYRALEELRRIH  189 (297)
T ss_pred             CcceeeeehhhccChHHHHHHHHHH
Confidence            8889999998776556666665443

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=93.70  E-value=0.23  Score=62.52  Aligned_cols=133  Identities=16%  Similarity=0.148  Sum_probs=71.8

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|+...+..+.+.+..-..    .-.-|.|+|..|+|||++|+.+++.... ..+   ..+.+++..-. . ..+..
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~----~~~pVLI~GE~GTGK~~lA~~ih~~s~r-~~~---~~v~i~c~~~~-~-~~~~~  445 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQ----SDSTVLILGETGTGKELIARAIHNLSGR-NNR---RMVKMNCAAMP-A-GLLES  445 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhC----CCCCEEEECCCCcCHHHHHHHHHHhcCC-CCC---CeEEEecccCC-h-hHhhh
Confidence            3689999888888776654321    1245789999999999999999875322 111   23444444321 1 11111


Q ss_pred             HHHHhcCCCCCC-Cc-HHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccC-----------CCCcEEEEEcc
Q 000803          222 LLESITSATCDL-KT-VDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAA-----------APNSKMIITTR  288 (1277)
Q Consensus       222 il~~l~~~~~~~-~~-~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~~s~iivTtr  288 (1277)
                         .+.+..... .. .......+.   ....=.|+||+|..-.......+...+..+           ..+.|||.||.
T Consensus       446 ---~lfg~~~~~~~g~~~~~~g~le---~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~  519 (686)
T PRK15429        446 ---DLFGHERGAFTGASAQRIGRFE---LADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATN  519 (686)
T ss_pred             ---hhcCcccccccccccchhhHHH---hcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCC
Confidence               111111100 00 001111121   123346899999876666566665544321           13458888886


Q ss_pred             cc
Q 000803          289 NS  290 (1277)
Q Consensus       289 ~~  290 (1277)
                      ..
T Consensus       520 ~~  521 (686)
T PRK15429        520 RD  521 (686)
T ss_pred             CC
Confidence            53

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=93.62  E-value=0.38  Score=53.89  Aligned_cols=59  Identities=15%  Similarity=0.155  Sum_probs=41.1

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhcccccc--ccCCcceEEEEEeCCCcCHHHHHHHHHHHhc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVE--DSGKFDVKAWVCVSDDFDVLSISKALLESIT  227 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~--~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~  227 (1277)
                      .-.++-|+|.+|+|||+||..++-.....  .++.-..++|++....|...++. ++++.++
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~  182 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFG  182 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcC
Confidence            35789999999999999998876432211  11122368999999988887764 4555554

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=93.62  E-value=0.061  Score=53.80  Aligned_cols=91  Identities=15%  Similarity=0.106  Sum_probs=50.1

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVD  248 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  248 (1277)
                      ..++.++|+.|+|||.+|+.+...... .  .....+-++.+.-......-..+-..++...   .....     .    
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~-~--~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~---~~v~~-----~----   67 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFV-G--SERPLIRIDMSEYSEGDDVESSVSKLLGSPP---GYVGA-----E----   67 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT--S--SCCEEEEEEGGGHCSHHHCSCHCHHHHHHTT---CHHHH-----H----
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhcc-C--CccchHHHhhhcccccchHHhhhhhhhhccc---ceeec-----c----
Confidence            467889999999999999999774322 1  2334555665543331111111111111100   00000     0    


Q ss_pred             CceEEEEecCcccccH-----------HhHHhhhcccc
Q 000803          249 GKRFLLVLDDVWNEDY-----------SLWVDLKAPFL  275 (1277)
Q Consensus       249 ~kr~LlVlDdv~~~~~-----------~~~~~l~~~l~  275 (1277)
                       ..-+|+||+++..+.           ..|..+...+-
T Consensus        68 -~~gVVllDEidKa~~~~~~~~~v~~~~V~~~LL~~le  104 (171)
T PF07724_consen   68 -EGGVVLLDEIDKAHPSNSGGADVSGEGVQNSLLQLLE  104 (171)
T ss_dssp             -HHTEEEEETGGGCSHTTTTCSHHHHHHHHHHHHHHHH
T ss_pred             -chhhhhhHHHhhccccccccchhhHHHHHHHHHHHhc
Confidence             111999999998887           77777776653

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=93.60  E-value=0.23  Score=53.59  Aligned_cols=126  Identities=13%  Similarity=0.109  Sum_probs=65.1

Q ss_pred             hHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCC
Q 000803          150 DKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSA  229 (1277)
Q Consensus       150 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~  229 (1277)
                      ..+.++..+...     +...-++|+|..|.|||||.+.+......     ....+++.-.+- ...+...++......-
T Consensus        97 ~~~~~l~~l~~~-----~~~~~~~i~g~~g~GKttl~~~l~~~~~~-----~~G~i~~~g~~v-~~~d~~~ei~~~~~~~  165 (270)
T TIGR02858        97 AADKLLPYLVRN-----NRVLNTLIISPPQCGKTTLLRDLARILST-----GISQLGLRGKKV-GIVDERSEIAGCVNGV  165 (270)
T ss_pred             cHHHHHHHHHhC-----CCeeEEEEEcCCCCCHHHHHHHHhCccCC-----CCceEEECCEEe-ecchhHHHHHHHhccc
Confidence            344555555532     33567999999999999999999875432     222333321110 0000112222222110


Q ss_pred             -CC------CC-CcHHHHHHHHHHhhc-CceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccccc
Q 000803          230 -TC------DL-KTVDEVQVQLKKAVD-GKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHV  292 (1277)
Q Consensus       230 -~~------~~-~~~~~~~~~l~~~l~-~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~~v  292 (1277)
                       ..      +. .+... ..-+...+. ..+=++|+|.+...  +.+..+...+   ..|..||+||.+..+
T Consensus       166 ~q~~~~~r~~v~~~~~k-~~~~~~~i~~~~P~villDE~~~~--e~~~~l~~~~---~~G~~vI~ttH~~~~  231 (270)
T TIGR02858       166 PQHDVGIRTDVLDGCPK-AEGMMMLIRSMSPDVIVVDEIGRE--EDVEALLEAL---HAGVSIIATAHGRDV  231 (270)
T ss_pred             ccccccccccccccchH-HHHHHHHHHhCCCCEEEEeCCCcH--HHHHHHHHHH---hCCCEEEEEechhHH
Confidence             00      00 01111 112222222 47789999998653  4455554444   247889999987554

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=93.59  E-value=0.1  Score=49.13  Aligned_cols=42  Identities=21%  Similarity=0.158  Sum_probs=29.6

Q ss_pred             hhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccc
Q 000803          149 EDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       149 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~  194 (1277)
                      ++.+++.+.+...-    ..-.++.+.|.-|+||||+++.++....
T Consensus         6 ~~t~~l~~~l~~~l----~~~~~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150         6 KAMDKFGKAFAKPL----DFGTVVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             HHHHHHHHHHHHhC----CCCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            44555555554322    1235899999999999999999987543

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.54  E-value=0.38  Score=59.04  Aligned_cols=87  Identities=22%  Similarity=0.296  Sum_probs=51.2

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC--HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD--VLSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~--~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      .+|++++|+.|+||||.+..++.......  ....+..++. +.+.  ..+.++...+.++.+.....+.+++.+.+++ 
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~--G~kkV~lit~-Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~-  260 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVARE--GADQLALLTT-DSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAA-  260 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHc--CCCeEEEecC-cccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHH-
Confidence            47999999999999999988876442221  1123445443 2333  3444555555555444333455666555554 


Q ss_pred             hcCceEEEEecCcc
Q 000803          247 VDGKRFLLVLDDVW  260 (1277)
Q Consensus       247 l~~kr~LlVlDdv~  260 (1277)
                      ++++ =+|++|-..
T Consensus       261 ~~~~-D~VLIDTAG  273 (767)
T PRK14723        261 LGDK-HLVLIDTVG  273 (767)
T ss_pred             hcCC-CEEEEeCCC
Confidence            3333 377777775

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=93.54  E-value=0.3  Score=49.31  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+++|+|..|.|||||++.++...
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          27 EIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            589999999999999999998743

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK06547 hypothetical protein; Provisional

Probab=93.51  E-value=0.066  Score=53.58  Aligned_cols=26  Identities=35%  Similarity=0.423  Sum_probs=23.1

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ....+|+|.|.+|+||||+|+.+...
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999764

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=93.51  E-value=0.08  Score=54.76  Aligned_cols=120  Identities=15%  Similarity=0.147  Sum_probs=58.5

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCc---HHHHHHHHHH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKT---VDEVQVQLKK  245 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~---~~~~~~~l~~  245 (1277)
                      .+++.|.|+.|.||||+.+.+..-.-...-+.|     |.+.. .. ..+...+...+.........   ...-..++..
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~~~la~~G~~-----vpa~~-~~-l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~  101 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLAIMAQIGCF-----VPAEY-AT-LPIFNRLLSRLSNDDSMERNLSTFASEMSETAY  101 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHHHcCCC-----cchhh-cC-ccChhheeEecCCccccchhhhHHHHHHHHHHH
Confidence            378999999999999999887542211111111     11111 00 12222233222222111111   1111111222


Q ss_pred             hh--cCceEEEEecCcccc-cHHh----HHhhhcccccCCCCcEEEEEccccccccccC
Q 000803          246 AV--DGKRFLLVLDDVWNE-DYSL----WVDLKAPFLAAAPNSKMIITTRNSHVASTMG  297 (1277)
Q Consensus       246 ~l--~~kr~LlVlDdv~~~-~~~~----~~~l~~~l~~~~~~s~iivTtr~~~v~~~~~  297 (1277)
                      .+  ..++-|+++|..... +..+    ...+...+..  .|+.+|+||.+.+++..+.
T Consensus       102 il~~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~~~  158 (204)
T cd03282         102 ILDYADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAILG  158 (204)
T ss_pred             HHHhcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHHhh
Confidence            22  356789999997331 1111    1122333332  3889999999988776543

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=93.48  E-value=0.15  Score=48.58  Aligned_cols=43  Identities=33%  Similarity=0.397  Sum_probs=31.8

Q ss_pred             EEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcC
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITS  228 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~  228 (1277)
                      +|.|-|.+|.||||+|+.+.++...+.         |      +.-.++++|++..+-
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~~---------v------saG~iFR~~A~e~gm   44 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLKL---------V------SAGTIFREMARERGM   44 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCce---------e------eccHHHHHHHHHcCC
Confidence            689999999999999999988654321         1      233567788777653

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=93.43  E-value=0.39  Score=51.38  Aligned_cols=49  Identities=12%  Similarity=0.255  Sum_probs=33.7

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      +.-.++.|.|.+|+|||++|.++..... +   .-..++||+....  ..++.+.
T Consensus        19 ~~gs~~lI~G~pGsGKT~la~~~l~~~~-~---~ge~~lyvs~ee~--~~~i~~~   67 (237)
T TIGR03877        19 PERNVVLLSGGPGTGKSIFSQQFLWNGL-Q---MGEPGIYVALEEH--PVQVRRN   67 (237)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHHH-H---cCCcEEEEEeeCC--HHHHHHH
Confidence            3457999999999999999998755322 2   2346788887653  4444443

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.

>PRK06762 hypothetical protein; Provisional

Probab=93.40  E-value=0.065  Score=53.87  Aligned_cols=24  Identities=38%  Similarity=0.533  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhcc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..+|.|+|++|+||||+|+.+.+.
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999999764

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=93.39  E-value=0.25  Score=53.74  Aligned_cols=90  Identities=16%  Similarity=0.119  Sum_probs=48.3

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHH--HHHHHHHHHhcCCC---CCCCcHHH-HH
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVL--SISKALLESITSAT---CDLKTVDE-VQ  240 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~--~~~~~il~~l~~~~---~~~~~~~~-~~  240 (1277)
                      ...+++.++|++|+||||++..++.....+   . ..+.+++.. .+...  +-++...+..+...   ....+... ..
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~~~---g-~~V~li~~D-~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~  144 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLKKQ---G-KSVLLAAGD-TFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAF  144 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhc---C-CEEEEEeCC-CCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHH
Confidence            345899999999999999998887644321   1 245555533 33332  22233334333211   11122222 23


Q ss_pred             HHHHHhhcCceEEEEecCccc
Q 000803          241 VQLKKAVDGKRFLLVLDDVWN  261 (1277)
Q Consensus       241 ~~l~~~l~~kr~LlVlDdv~~  261 (1277)
                      +.++....+..=++|+|-...
T Consensus       145 ~~l~~~~~~~~D~ViIDT~G~  165 (272)
T TIGR00064       145 DAIQKAKARNIDVVLIDTAGR  165 (272)
T ss_pred             HHHHHHHHCCCCEEEEeCCCC
Confidence            444444444455788888744

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.

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=93.39  E-value=0.066  Score=55.34  Aligned_cols=84  Identities=24%  Similarity=0.273  Sum_probs=55.5

Q ss_pred             CCCCccceeeccCCccccccccccccccCcEEEecCC--cCccccchhhccccCcCeeeecCccccccCCCC---CCCCC
Q 000803          573 EDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNC--SSLIKLPSKIRRLINLCHLDIRGAILLKEMPFG---MKELK  647 (1277)
Q Consensus       573 ~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~--~~l~~lp~~i~~L~~L~~L~l~~~~~l~~~p~~---i~~L~  647 (1277)
                      -.+..|++|++.+..++.+ ..+-.|++|++|+++.|  .....++--..++++|++|++++|. ++. +..   +.++.
T Consensus        40 d~~~~le~ls~~n~gltt~-~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nk-i~~-lstl~pl~~l~  116 (260)
T KOG2739|consen   40 DEFVELELLSVINVGLTTL-TNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNK-IKD-LSTLRPLKELE  116 (260)
T ss_pred             ccccchhhhhhhccceeec-ccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCc-ccc-ccccchhhhhc
Confidence            3345566666666555444 23346889999999987  3444555556777999999999997 443 333   45566


Q ss_pred             CCcccCceeeCC
Q 000803          648 NLQTLSNFVVGK  659 (1277)
Q Consensus       648 ~L~~L~~~~~~~  659 (1277)
                      +|..|+++.+..
T Consensus       117 nL~~Ldl~n~~~  128 (260)
T KOG2739|consen  117 NLKSLDLFNCSV  128 (260)
T ss_pred             chhhhhcccCCc
Confidence            677777776654

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=93.39  E-value=0.37  Score=51.07  Aligned_cols=48  Identities=17%  Similarity=0.153  Sum_probs=30.7

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKAL  222 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  222 (1277)
                      -.++.|.|..|+||||+|.++..... +.  . ..+++++...  +..++.+.+
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~-~~--g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFL-QN--G-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH-hC--C-CcEEEEeCCC--CHHHHHHHH
Confidence            45999999999999999876655332 21  1 3456666333  344555544

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=93.38  E-value=0.11  Score=54.84  Aligned_cols=62  Identities=27%  Similarity=0.222  Sum_probs=42.0

Q ss_pred             HHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHH
Q 000803          152 TKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       152 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~  219 (1277)
                      .+++..+....    ++..+|+|.|.+|+|||||.-.+......+.  +=-.++=|+-|.+++--.++
T Consensus        38 ~~ll~~l~p~t----G~a~viGITG~PGaGKSTli~~L~~~l~~~G--~rVaVlAVDPSSp~TGGsiL   99 (323)
T COG1703          38 RELLRALYPRT----GNAHVIGITGVPGAGKSTLIEALGRELRERG--HRVAVLAVDPSSPFTGGSIL   99 (323)
T ss_pred             HHHHHHHhhcC----CCCcEEEecCCCCCchHHHHHHHHHHHHHCC--cEEEEEEECCCCCCCCcccc
Confidence            44555554332    5678999999999999999988877654433  44455666667777654444

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=93.38  E-value=0.63  Score=47.70  Aligned_cols=50  Identities=30%  Similarity=0.193  Sum_probs=34.6

Q ss_pred             ccccchhhHHHHHHHHhcccc-------cCCCCeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          143 VVFGREEDKTKILEMVLTDTA-------ADHANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      .+-|-.++++++.+...-.--       -.-+.++-|..+|++|.|||-+|++|+|.
T Consensus       178 dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanr  234 (435)
T KOG0729|consen  178 DVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANR  234 (435)
T ss_pred             cccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcc
Confidence            455777888887776532210       00133466889999999999999999984

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=93.36  E-value=0.21  Score=51.83  Aligned_cols=23  Identities=35%  Similarity=0.606  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      .+++|+|..|.|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          27 EVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999998875

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=93.35  E-value=0.36  Score=55.51  Aligned_cols=86  Identities=21%  Similarity=0.162  Sum_probs=47.5

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCC------CCCCCcHH-----
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSA------TCDLKTVD-----  237 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~------~~~~~~~~-----  237 (1277)
                      -..++|+|..|+|||||++.+.....     ....+++..-.+..++.+.....+......      ..+.....     
T Consensus       165 Gqri~I~G~SGsGKTTLL~~Ia~l~~-----pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~  239 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAMLARADA-----FDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAP  239 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC-----CCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHH
Confidence            35799999999999999998876432     222344443323344444444333332111      11111111     


Q ss_pred             HHHHHHHHhh--cCceEEEEecCc
Q 000803          238 EVQVQLKKAV--DGKRFLLVLDDV  259 (1277)
Q Consensus       238 ~~~~~l~~~l--~~kr~LlVlDdv  259 (1277)
                      ...-.+.+++  +++.+|+++||+
T Consensus       240 ~~a~~iAEyfrd~G~~Vll~~Dsl  263 (450)
T PRK06002        240 LTATAIAEYFRDRGENVLLIVDSV  263 (450)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccch
Confidence            1112233333  588999999998

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.34  E-value=0.35  Score=55.52  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhcc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..+++++|..|+||||++..+...
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~  214 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAAR  214 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            479999999999999999887653

>PTZ00035 Rad51 protein; Provisional

Probab=93.33  E-value=0.56  Score=52.74  Aligned_cols=59  Identities=15%  Similarity=0.146  Sum_probs=39.0

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhcccccc--ccCCcceEEEEEeCCCcCHHHHHHHHHHHhc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVE--DSGKFDVKAWVCVSDDFDVLSISKALLESIT  227 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~--~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~  227 (1277)
                      .-.++.|+|.+|+|||||+.+++-.....  .++.-..++|++....++..++ .++++.++
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g  177 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFG  177 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhC
Confidence            45799999999999999999886433211  1112235679998777777664 34444443

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=93.28  E-value=0.005  Score=61.36  Aligned_cols=92  Identities=14%  Similarity=0.148  Sum_probs=80.1

Q ss_pred             CCCCC-cCCCCCCccceeeccCCccccccccccccccCcEEEecCCcCccccchhhccccCcCeeeecCccccccCCCCC
Q 000803          565 IGELP-IPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGM  643 (1277)
Q Consensus       565 i~~lp-~~~~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~l~~~p~~i  643 (1277)
                      +..+| ..|.....-..||++.|++..+-..++.++.|..||++. +.+..+|..++.+..++++++..|. ....|.+.
T Consensus        30 ~s~~~v~ei~~~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sk-nq~~~~~~d~~q~~e~~~~~~~~n~-~~~~p~s~  107 (326)
T KOG0473|consen   30 LSEIPVREIASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSK-NQIKFLPKDAKQQRETVNAASHKNN-HSQQPKSQ  107 (326)
T ss_pred             hcccchhhhhccceeeeehhhhhHHHhhccchHHHHHHHHHhccH-hhHhhChhhHHHHHHHHHHHhhccc-hhhCCccc
Confidence            44555 456677889999999999999999999999999999998 5899999999999999999998887 88999999


Q ss_pred             CCCCCCcccCceeeC
Q 000803          644 KELKNLQTLSNFVVG  658 (1277)
Q Consensus       644 ~~L~~L~~L~~~~~~  658 (1277)
                      +++++++.++.-.+.
T Consensus       108 ~k~~~~k~~e~k~~~  122 (326)
T KOG0473|consen  108 KKEPHPKKNEQKKTE  122 (326)
T ss_pred             cccCCcchhhhccCc
Confidence            999999988765443

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=93.26  E-value=0.065  Score=58.18  Aligned_cols=95  Identities=19%  Similarity=0.332  Sum_probs=47.2

Q ss_pred             HHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCC
Q 000803          152 TKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATC  231 (1277)
Q Consensus       152 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~  231 (1277)
                      ..+++.+....       +-+.++|+.|+|||++++.........   .| ...-++.+..-+...+ +++++.-.....
T Consensus        23 ~~ll~~l~~~~-------~pvLl~G~~GtGKT~li~~~l~~l~~~---~~-~~~~~~~s~~Tts~~~-q~~ie~~l~k~~   90 (272)
T PF12775_consen   23 SYLLDLLLSNG-------RPVLLVGPSGTGKTSLIQNFLSSLDSD---KY-LVITINFSAQTTSNQL-QKIIESKLEKRR   90 (272)
T ss_dssp             HHHHHHHHHCT-------EEEEEESSTTSSHHHHHHHHHHCSTTC---CE-EEEEEES-TTHHHHHH-HHCCCTTECECT
T ss_pred             HHHHHHHHHcC-------CcEEEECCCCCchhHHHHhhhccCCcc---cc-ceeEeeccCCCCHHHH-HHHHhhcEEcCC
Confidence            44555555432       456899999999999999987643211   22 2334455544333332 222211110000


Q ss_pred             CCCcHHHHHHHHHHhhcCceEEEEecCcccccHHhH
Q 000803          232 DLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLW  267 (1277)
Q Consensus       232 ~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~  267 (1277)
                      .         ....--.+|+.++++||+.-...+.|
T Consensus        91 ~---------~~~gP~~~k~lv~fiDDlN~p~~d~y  117 (272)
T PF12775_consen   91 G---------RVYGPPGGKKLVLFIDDLNMPQPDKY  117 (272)
T ss_dssp             T---------EEEEEESSSEEEEEEETTT-S---TT
T ss_pred             C---------CCCCCCCCcEEEEEecccCCCCCCCC
Confidence            0         00000146899999999965444433

>PHA00729 NTP-binding motif containing protein

Probab=93.25  E-value=0.11  Score=53.60  Aligned_cols=25  Identities=44%  Similarity=0.526  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      +...|.|+|.+|+||||||..+.+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            3457899999999999999999774

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=93.25  E-value=0.065  Score=55.31  Aligned_cols=22  Identities=32%  Similarity=0.282  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHhc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      ++++|+|+.|.|||||.+.+..
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~   47 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGV   47 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHH
Confidence            7999999999999999988864

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=93.25  E-value=0.86  Score=55.07  Aligned_cols=133  Identities=17%  Similarity=0.087  Sum_probs=73.8

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      ...+.+-++|++|.|||.||+++++....    +|-.+.     ..    .    ++....     ......+.+.....
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~~~~----~fi~v~-----~~----~----l~sk~v-----Gesek~ir~~F~~A  331 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALESRS----RFISVK-----GS----E----LLSKWV-----GESEKNIRELFEKA  331 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhhCCC----eEEEee-----CH----H----Hhcccc-----chHHHHHHHHHHHH
Confidence            34568999999999999999999984322    342221     11    1    111000     11122233334444


Q ss_pred             hcCceEEEEecCccccc-----------HHhHHhhhcccccC--CCCcEEEEEcccccccccc-----CCCceeecCCCC
Q 000803          247 VDGKRFLLVLDDVWNED-----------YSLWVDLKAPFLAA--APNSKMIITTRNSHVASTM-----GPIDHYNLEHLL  308 (1277)
Q Consensus       247 l~~kr~LlVlDdv~~~~-----------~~~~~~l~~~l~~~--~~~s~iivTtr~~~v~~~~-----~~~~~~~l~~L~  308 (1277)
                      .+..+..|++|.++.--           .....+++..+...  ..+..||-||-........     .-...+.+.+-+
T Consensus       332 ~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd  411 (494)
T COG0464         332 RKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPD  411 (494)
T ss_pred             HcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCC
Confidence            46788999999994310           01122233333222  2333445555444333211     223568889999


Q ss_pred             HHHHHHHHHHhhc
Q 000803          309 DDDCWSIFKTHAF  321 (1277)
Q Consensus       309 ~~~~~~Lf~~~~~  321 (1277)
                      .++..+.|..+.-
T Consensus       412 ~~~r~~i~~~~~~  424 (494)
T COG0464         412 LEERLEIFKIHLR  424 (494)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998884

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=93.15  E-value=1.1  Score=48.55  Aligned_cols=132  Identities=10%  Similarity=0.081  Sum_probs=72.1

Q ss_pred             HHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcccccc----------ccCCcceEEEEEeCCCcCHHHHHH
Q 000803          151 KTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVE----------DSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       151 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~----------~~~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      -+++...+..+     .-....-++|+.|+||+++|..+....-..          .+.|-|..........        
T Consensus         6 ~~~L~~~i~~~-----rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~--------   72 (290)
T PRK05917          6 WEALIQRVRDQ-----KVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKG--------   72 (290)
T ss_pred             HHHHHHHHHcC-----CcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCC--------
Confidence            34555555443     223567799999999999998776533211          1112222111111000        


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHhh-----cCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc-ccccc
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAV-----DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-SHVAS  294 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~-~~v~~  294 (1277)
                                 .....+++. .+.+.+     .+++=++|+|+++....+.+..++..+-.-..++.+|++|.+ ..+..
T Consensus        73 -----------~~I~idqiR-~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~  140 (290)
T PRK05917         73 -----------RLHSIETPR-AIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPP  140 (290)
T ss_pred             -----------CcCcHHHHH-HHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcH
Confidence                       011233332 222222     355668899999988888899988888766667776666655 34432


Q ss_pred             cc-CCCceeecCCC
Q 000803          295 TM-GPIDHYNLEHL  307 (1277)
Q Consensus       295 ~~-~~~~~~~l~~L  307 (1277)
                      .+ +....+.+.++
T Consensus       141 TI~SRcq~~~~~~~  154 (290)
T PRK05917        141 TIRSRSLSIHIPME  154 (290)
T ss_pred             HHHhcceEEEccch
Confidence            21 22244555544

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=93.10  E-value=0.33  Score=49.05  Aligned_cols=24  Identities=38%  Similarity=0.530  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+++|+|..|.|||||.+.+..-.
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          29 ESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcc
Confidence            589999999999999999998643

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.07  E-value=0.012  Score=60.40  Aligned_cols=81  Identities=31%  Similarity=0.288  Sum_probs=62.0

Q ss_pred             hcCCCCeeeEEecCCCCCCCCCcCCCCCCccceeeccCCccccccc--cccccccCcEEEecCCcCccccchh-----hc
Q 000803          548 LLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPE--SSCSLLNLEILILRNCSSLIKLPSK-----IR  620 (1277)
Q Consensus       548 ~~~~l~~Lr~L~L~~~~i~~lp~~~~~l~~Lr~L~L~~~~i~~lp~--~i~~L~~L~~L~L~~~~~l~~lp~~-----i~  620 (1277)
                      +..+++.|.||.|+-|.|+.+ ..+.++++|+.|.|+.|.|..+-+  -+.+|++|++|-|..|.-...-+..     +.
T Consensus        36 ic~kMp~lEVLsLSvNkIssL-~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~ENPCc~~ag~nYR~~VLR  114 (388)
T KOG2123|consen   36 ICEKMPLLEVLSLSVNKISSL-APLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLDENPCCGEAGQNYRRKVLR  114 (388)
T ss_pred             HHHhcccceeEEeeccccccc-hhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhccCCcccccchhHHHHHHH
Confidence            467899999999999999988 468899999999999999987743  4578889999999876433333321     34


Q ss_pred             cccCcCeee
Q 000803          621 RLINLCHLD  629 (1277)
Q Consensus       621 ~L~~L~~L~  629 (1277)
                      -|++|+.||
T Consensus       115 ~LPnLkKLD  123 (388)
T KOG2123|consen  115 VLPNLKKLD  123 (388)
T ss_pred             Hcccchhcc
Confidence            566666664

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=93.02  E-value=0.29  Score=53.03  Aligned_cols=40  Identities=23%  Similarity=0.346  Sum_probs=29.6

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD  211 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~  211 (1277)
                      .-.++.|.|.+|+|||++|.+++.....+    =..+++++...
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~----Ge~vlyis~Ee   74 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQASR----GNPVLFVTVES   74 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhC----CCcEEEEEecC
Confidence            34799999999999999999976543221    23577888764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=93.02  E-value=0.034  Score=54.74  Aligned_cols=24  Identities=38%  Similarity=0.589  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      +.|.+.|.+|+||||+|++++...
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHH
Confidence            467899999999999999998743

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=92.95  E-value=0.23  Score=55.18  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=19.7

Q ss_pred             EEEEccCCCcHHHHHHHHhcccc
Q 000803          172 IPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~~~  194 (1277)
                      +++.|++|+||||+++.+.+...
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~   24 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLR   24 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999986543

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=92.94  E-value=0.32  Score=54.32  Aligned_cols=89  Identities=16%  Similarity=0.136  Sum_probs=48.1

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC-CcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-DFDVLSISKALLESITSATCDLKTVDEVQVQLKKAV  247 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  247 (1277)
                      -+++++||+.||||||-...++.......  .=..+..++... .....+-++...+-++.+-.-..+..++...+... 
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~--~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l-  279 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLK--KKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEAL-  279 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhc--cCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHh-
Confidence            58999999999999864443333222111  223466666433 22344445555555555544445555555555432 


Q ss_pred             cCceEEEEecCccc
Q 000803          248 DGKRFLLVLDDVWN  261 (1277)
Q Consensus       248 ~~kr~LlVlDdv~~  261 (1277)
                      ++. =+|.+|-+..
T Consensus       280 ~~~-d~ILVDTaGr  292 (407)
T COG1419         280 RDC-DVILVDTAGR  292 (407)
T ss_pred             hcC-CEEEEeCCCC
Confidence            233 3555566644

>PRK03839 putative kinase; Provisional

Probab=92.92  E-value=0.074  Score=54.26  Aligned_cols=23  Identities=35%  Similarity=0.609  Sum_probs=20.6

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .|.|+|++|+||||+|+.+++..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998853

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=92.91  E-value=0.53  Score=55.00  Aligned_cols=87  Identities=14%  Similarity=0.212  Sum_probs=45.8

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC--HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD--VLSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~--~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      ..|++++|+.|+||||++..++.....+.  .-..+..++.. .+.  ..+-++...+.++.......+..+....+. .
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~--G~~kV~LI~~D-t~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL~-~  331 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRH--GASKVALLTTD-SYRIGGHEQLRIYGKILGVPVHAVKDAADLRLALS-E  331 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhc--CCCeEEEEeCC-ccchhHHHHHHHHHHHhCCCeeccCCchhHHHHHH-h
Confidence            47999999999999999999986443222  11234455432 332  223333334444332222222222222222 2


Q ss_pred             hcCceEEEEecCcc
Q 000803          247 VDGKRFLLVLDDVW  260 (1277)
Q Consensus       247 l~~kr~LlVlDdv~  260 (1277)
                      ++++ -.+++|-..
T Consensus       332 L~d~-d~VLIDTaG  344 (484)
T PRK06995        332 LRNK-HIVLIDTIG  344 (484)
T ss_pred             ccCC-CeEEeCCCC
Confidence            3444 477778875

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=92.90  E-value=0.064  Score=30.08  Aligned_cols=16  Identities=44%  Similarity=0.706  Sum_probs=5.6

Q ss_pred             ccceeeccCCcccccc
Q 000803          577 LLRYLNLADTDIRSLP  592 (1277)
Q Consensus       577 ~Lr~L~L~~~~i~~lp  592 (1277)
                      +|+.|+|++|.++++|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            3444444444444443

...

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=92.89  E-value=0.36  Score=49.87  Aligned_cols=41  Identities=29%  Similarity=0.370  Sum_probs=27.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCc--------ceEEEEEeCCC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKF--------DVKAWVCVSDD  212 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f--------~~~~wv~~s~~  212 (1277)
                      .++.|+|.+|+||||++.++..+.....  .|        ..++|++....
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~--~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGR--PFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT-----TT---------EEEEESSS-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCC--ccCCcccccCceEEEEeccCC
Confidence            4889999999999999988876554321  22        35778876665

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=92.86  E-value=0.14  Score=56.08  Aligned_cols=51  Identities=20%  Similarity=0.296  Sum_probs=43.1

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhc
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      ...|+|.++.++++++.+.......+..-+|+-++|+.|.||||||..+-+
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~  110 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKR  110 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999998776443335678999999999999999999866

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PTZ00088 adenylate kinase 1; Provisional

Probab=92.85  E-value=0.084  Score=55.53  Aligned_cols=21  Identities=33%  Similarity=0.534  Sum_probs=19.4

Q ss_pred             EEEEccCCCcHHHHHHHHhcc
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      |.|+|++|+||||+|+.+...
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            889999999999999999774

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=92.81  E-value=0.26  Score=55.58  Aligned_cols=52  Identities=21%  Similarity=0.333  Sum_probs=37.5

Q ss_pred             CccccchhhHHHHHHHHhcc--------cccCCCCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          142 PVVFGREEDKTKILEMVLTD--------TAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ..++|.++.++.+.-.+...        ........+-|.++|++|+|||++|+.+....
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            46889999888887666532        00001224678899999999999999998754

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.

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

Probab=92.76  E-value=0.24  Score=55.94  Aligned_cols=53  Identities=21%  Similarity=0.349  Sum_probs=38.4

Q ss_pred             CCccccchhhHHHHHHHHhcc--------cccCCCCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          141 EPVVFGREEDKTKILEMVLTD--------TAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      +..++|.++.++.+..++...        ..........+.++|++|+|||++|+.+....
T Consensus        14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            346899999999888777541        00000123678999999999999999997754

>PRK04040 adenylate kinase; Provisional

Probab=92.75  E-value=0.087  Score=53.72  Aligned_cols=24  Identities=29%  Similarity=0.556  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+|+|+|++|+||||+++.+....
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHh
Confidence            689999999999999999997743

>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=92.73  E-value=0.19  Score=55.16  Aligned_cols=84  Identities=20%  Similarity=0.149  Sum_probs=49.0

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCCcHHHHHHH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATC-----DLKTVDEVQVQ  242 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~  242 (1277)
                      .-+++-|+|..|+||||||.++......    .-..++|++..+.++...     ++.++.+..     .....++....
T Consensus        52 ~G~ivEi~G~~ssGKttLaL~~ia~~q~----~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~  122 (322)
T PF00154_consen   52 RGRIVEIYGPESSGKTTLALHAIAEAQK----QGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWI  122 (322)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH----TT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHH
T ss_pred             cCceEEEeCCCCCchhhhHHHHHHhhhc----ccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHH
Confidence            3479999999999999999988764322    234689999988776643     334443211     12234444444


Q ss_pred             HHHhhcC-ceEEEEecCcc
Q 000803          243 LKKAVDG-KRFLLVLDDVW  260 (1277)
Q Consensus       243 l~~~l~~-kr~LlVlDdv~  260 (1277)
                      +.+.++. ..-++|+|-|-
T Consensus       123 ~e~lirsg~~~lVVvDSv~  141 (322)
T PF00154_consen  123 AEQLIRSGAVDLVVVDSVA  141 (322)
T ss_dssp             HHHHHHTTSESEEEEE-CT
T ss_pred             HHHHhhcccccEEEEecCc
Confidence            4554543 34588888873

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 ....

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=92.70  E-value=0.47  Score=54.54  Aligned_cols=85  Identities=20%  Similarity=0.192  Sum_probs=49.7

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC-HHHHHHHHHHHhcCC-------CCCCCcHH---
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD-VLSISKALLESITSA-------TCDLKTVD---  237 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~il~~l~~~-------~~~~~~~~---  237 (1277)
                      -..++|+|..|+|||||++++++..      ..+.++++-+.+... +.+...+.+..-+..       ..+.....   
T Consensus       158 Gqri~I~G~sG~GKTtLL~~I~~~~------~~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~  231 (442)
T PRK08927        158 GQRMGIFAGSGVGKSVLLSMLARNA------DADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQ  231 (442)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc------CCCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHH
Confidence            3678999999999999999998743      224555666666543 334443343321110       11111111   


Q ss_pred             --HHHHHHHHhh--cCceEEEEecCc
Q 000803          238 --EVQVQLKKAV--DGKRFLLVLDDV  259 (1277)
Q Consensus       238 --~~~~~l~~~l--~~kr~LlVlDdv  259 (1277)
                        ...-.+.+++  +++.+|+++||+
T Consensus       232 a~~~a~tiAEyfrd~G~~Vll~~Dsl  257 (442)
T PRK08927        232 AAYLTLAIAEYFRDQGKDVLCLMDSV  257 (442)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCc
Confidence              1122233444  589999999999

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=92.68  E-value=0.22  Score=48.75  Aligned_cols=23  Identities=39%  Similarity=0.608  Sum_probs=20.1

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      |+.|+|.+|+||||+|+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999997643

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK08149 ATP synthase SpaL; Validated

Probab=92.68  E-value=0.38  Score=55.21  Aligned_cols=85  Identities=25%  Similarity=0.317  Sum_probs=49.4

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC-cCHHHHHHHHHHHhcCC-------CCCCCcHH---
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD-FDVLSISKALLESITSA-------TCDLKTVD---  237 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~il~~l~~~-------~~~~~~~~---  237 (1277)
                      -..++|+|..|+|||||++.++...      .-+.++...+... .++.++..+.+......       ..+.....   
T Consensus       151 Gq~i~I~G~sG~GKTTLl~~i~~~~------~~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~  224 (428)
T PRK08149        151 GQRMGIFASAGCGKTSLMNMLIEHS------EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCN  224 (428)
T ss_pred             CCEEEEECCCCCChhHHHHHHhcCC------CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHh
Confidence            3578999999999999999998743      2233344444433 34555555555432211       11111111   


Q ss_pred             --HHHHHHHHhh--cCceEEEEecCc
Q 000803          238 --EVQVQLKKAV--DGKRFLLVLDDV  259 (1277)
Q Consensus       238 --~~~~~l~~~l--~~kr~LlVlDdv  259 (1277)
                        .....+.+++  ++|.+|+++||+
T Consensus       225 a~~~a~tiAE~fr~~G~~Vll~~Dsl  250 (428)
T PRK08149        225 AALVATTVAEYFRDQGKRVVLFIDSM  250 (428)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEccch
Confidence              1222233333  589999999999

>PLN02348 phosphoribulokinase

Probab=92.67  E-value=0.38  Score=54.04  Aligned_cols=27  Identities=26%  Similarity=0.309  Sum_probs=23.7

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ++..+|+|.|.+|+||||+|+.+.+..
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~L   73 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVF   73 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456899999999999999999998743

>PRK00625 shikimate kinase; Provisional

Probab=92.64  E-value=0.08  Score=53.03  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=20.1

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .|.++||+|+||||+|+.+.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999997743

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=92.62  E-value=0.32  Score=58.64  Aligned_cols=134  Identities=13%  Similarity=0.144  Sum_probs=73.4

Q ss_pred             CCccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHH
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      ...++|+...++++.+.+.....    .-.-|.|+|..|+|||++|+.+++..... .+.   .+.|++..-.+  ..+.
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~----~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~-~~p---~v~v~c~~~~~--~~~e  255 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAA----SDLNVLILGETGVGKELVARAIHAASPRA-DKP---LVYLNCAALPE--SLAE  255 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhC----CCCcEEEECCCCccHHHHHHHHHHhCCcC-CCC---eEEEEcccCCh--HHHH
Confidence            45689999999988888766432    22457899999999999999998753221 112   24455444321  1111


Q ss_pred             HHHHHhcCCCCCC-Cc-HHHHHHHHHHhhcCceEEEEecCcccccHHhHHhhhcccccCC-----------CCcEEEEEc
Q 000803          221 ALLESITSATCDL-KT-VDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAA-----------PNSKMIITT  287 (1277)
Q Consensus       221 ~il~~l~~~~~~~-~~-~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~~s~iivTt  287 (1277)
                         ..+.+..... .. .......+.   ....=.|+||+|..-....+..+...+..+.           ...|||.||
T Consensus       256 ---~~lfG~~~g~~~ga~~~~~g~~~---~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t  329 (509)
T PRK05022        256 ---SELFGHVKGAFTGAISNRSGKFE---LADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAAT  329 (509)
T ss_pred             ---HHhcCccccccCCCcccCCcchh---hcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEec
Confidence               1222211100 00 000000111   1122246899998766666666665543221           245898888


Q ss_pred             ccc
Q 000803          288 RNS  290 (1277)
Q Consensus       288 r~~  290 (1277)
                      ...
T Consensus       330 ~~~  332 (509)
T PRK05022        330 NRD  332 (509)
T ss_pred             CCC
Confidence            653

>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=92.59  E-value=0.21  Score=53.91  Aligned_cols=24  Identities=33%  Similarity=0.379  Sum_probs=18.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      +.|.|+|.+|+||||+|+++....
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~   25 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYL   25 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHH
Confidence            468999999999999999997743

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=92.55  E-value=0.3  Score=48.41  Aligned_cols=115  Identities=21%  Similarity=0.171  Sum_probs=58.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc--CHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHhh
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF--DVLSISKALLESITSATCDLKTVDEVQVQLKKAV  247 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~--~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  247 (1277)
                      .+++|+|..|.|||||++.+......     ....+++......  ...+.    ...+.... ....-+...-.+...+
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~~-----~~G~i~~~~~~~~~~~~~~~----~~~i~~~~-qlS~G~~~r~~l~~~l   95 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLKP-----TSGEILIDGKDIAKLPLEEL----RRRIGYVP-QLSGGQRQRVALARAL   95 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC-----CccEEEECCEEcccCCHHHH----HhceEEEe-eCCHHHHHHHHHHHHH
Confidence            68999999999999999999875432     2334444321111  11111    11111100 0111222233345555


Q ss_pred             cCceEEEEecCccc-ccHHhHHhhhcccccC-CCCcEEEEEcccccccc
Q 000803          248 DGKRFLLVLDDVWN-EDYSLWVDLKAPFLAA-APNSKMIITTRNSHVAS  294 (1277)
Q Consensus       248 ~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~~s~iivTtr~~~v~~  294 (1277)
                      ..+.=++++|..-. -+......+...+... ..+..++++|.+.+...
T Consensus        96 ~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~  144 (157)
T cd00267          96 LLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAE  144 (157)
T ss_pred             hcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence            66678889998742 1112222333322221 12567888887765443

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.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=92.53  E-value=0.072  Score=48.65  Aligned_cols=22  Identities=55%  Similarity=0.676  Sum_probs=18.8

Q ss_pred             EEEEccCCCcHHHHHHHHhccc
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      |-|+|.+|+|||++|+.++.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999987643

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

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=92.53  E-value=0.16  Score=64.93  Aligned_cols=199  Identities=17%  Similarity=0.170  Sum_probs=96.8

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC----cCHH--HHHHHHHHHhcCCCCCCCcHHHHHHH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD----FDVL--SISKALLESITSATCDLKTVDEVQVQ  242 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~----~~~~--~~~~~il~~l~~~~~~~~~~~~~~~~  242 (1277)
                      ..-+.|+|.+|.||||+.+.++-....+....=+..+++.....    -...  .+..-+...+.....    ..+....
T Consensus       222 ~~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~l~~~~~~~~~~~q~~~~~~l~~~~~~~~~----~~~~~~~  297 (824)
T COG5635         222 YAKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEKQLSLIDYLAEELFSQGI----AKQLIEA  297 (824)
T ss_pred             hhheeeecCCCCCceehHHHHHHHhccCcCCcccCceeeechhHHHhhhhHhhccHHHHHHHHHhccCC----cchhhHH
Confidence            34789999999999999988764333221111223344433211    0111  122222222222211    1112222


Q ss_pred             HHHhhcCceEEEEecCcccccHHhHHhh---hcccccCCCCcEEEEEccccccccccCCCceeecCCCCHHHHHHHHHHh
Q 000803          243 LKKAVDGKRFLLVLDDVWNEDYSLWVDL---KAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTH  319 (1277)
Q Consensus       243 l~~~l~~kr~LlVlDdv~~~~~~~~~~l---~~~l~~~~~~s~iivTtr~~~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~  319 (1277)
                      ..+.++..++++++|.++......-...   ...+.+.-+.++||+|+|....-........+++..+.++.-.......
T Consensus       298 ~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~f~~~~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~~~~~~~  377 (824)
T COG5635         298 HQELLKTGKLLLLLDGLDELEPKNQRALIREINKFLQEYPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQINQFILYQ  377 (824)
T ss_pred             HHHHHhccchhhHhhccchhhhhhHHHHHHHHHHHhhhccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHHHHHHHH
Confidence            2567888999999999866432211111   2223344568999999987654443333444556655555444322211


Q ss_pred             --------hcCCCCCCchhhHHHH---HHHHHhhcCCchHHHHHHHhhhcCC------ChhhHHHHHhh
Q 000803          320 --------AFEGRDHNALEISESF---RKKVVGKCGGLPLAAKTLGGLLRTT------TYDMWDDILDS  371 (1277)
Q Consensus       320 --------~~~~~~~~~~~~~~~~---~~~i~~~c~glPLai~~~~~~L~~~------~~~~w~~~l~~  371 (1277)
                              .++............+   ...-.+.....|+++.+.+..-...      ..+-|+.+++.
T Consensus       378 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ik~l~~~p~~L~l~c~~~~~~~~lP~~~~~ly~~~~~~  446 (824)
T COG5635         378 WLDAFIEDWFGDSRLLAKKLLERLKLPENRRIKELALTPLLLALECLIWQAQGDLPESRAELYEQAVDA  446 (824)
T ss_pred             HHHHHHHhhhcccchhhHHHHHHhcchhhHHHHHhccCHHHHHHHHHhhhHHhhCCCCcHHHHHHHHHH
Confidence                    1211111100111111   1123344477899998887444311      34455555543

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=92.52  E-value=0.097  Score=53.94  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      .++|.|+|++|+||||+|+.+..
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999999975

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.

>PRK15453 phosphoribulokinase; Provisional

Probab=92.44  E-value=0.53  Score=50.27  Aligned_cols=24  Identities=29%  Similarity=0.541  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      +..+|+|.|.+|+||||+|+.+.+
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998875

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=92.43  E-value=0.14  Score=49.17  Aligned_cols=39  Identities=28%  Similarity=0.387  Sum_probs=27.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD  211 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~  211 (1277)
                      ++|.|+|..|+|||||++.+.+....+   .+...++.+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~---g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRR---GYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT---T--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHc---CCceEEEEEccC
Confidence            479999999999999999999865433   455555666555

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=92.39  E-value=0.31  Score=51.39  Aligned_cols=112  Identities=17%  Similarity=0.218  Sum_probs=61.7

Q ss_pred             CccccchhhHHHHHHHHhcccc-cCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTA-ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~-~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  220 (1277)
                      ..++|..-..+.++..+.+--. ....++-|++.+|..|+||.-.|+.++++..... -+=+++               +
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~G-l~S~~V---------------~  145 (344)
T KOG2170|consen   82 RALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGG-LRSPFV---------------H  145 (344)
T ss_pred             HHhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhcc-ccchhH---------------H
Confidence            3566766666666655543211 1125678999999999999999998887543221 000001               1


Q ss_pred             HHHHHhcCCCCCCCcH----HHHHHHHHHhhc-CceEEEEecCcccccHHhHHhhh
Q 000803          221 ALLESITSATCDLKTV----DEVQVQLKKAVD-GKRFLLVLDDVWNEDYSLWVDLK  271 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~----~~~~~~l~~~l~-~kr~LlVlDdv~~~~~~~~~~l~  271 (1277)
                      .......  -+....+    +++..+++...+ -+|-|+|||+++.......+.+.
T Consensus       146 ~fvat~h--FP~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lk  199 (344)
T KOG2170|consen  146 HFVATLH--FPHASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLK  199 (344)
T ss_pred             Hhhhhcc--CCChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcCHhHHHHHh
Confidence            1111111  1122222    334444444443 37999999999876655444444

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=92.37  E-value=0.99  Score=49.78  Aligned_cols=47  Identities=17%  Similarity=0.247  Sum_probs=35.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC-HHHHHHHH
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD-VLSISKAL  222 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~i  222 (1277)
                      ..++|.|..|+|||+|++++.+..      +-+.++++-+.+..+ +.+++.++
T Consensus       158 qr~~I~G~~G~GKT~L~~~Iak~~------~~dvvVyv~iGERg~Ev~e~l~ef  205 (369)
T cd01134         158 GTAAIPGPFGCGKTVIQQSLSKYS------NSDIVIYVGCGERGNEMTEVLEEF  205 (369)
T ss_pred             CEEEEECCCCCChHHHHHHHHhCC------CCCEEEEEEeCCChHHHHHHHHHH
Confidence            578999999999999999998843      345788888877543 44444443

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.

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=92.37  E-value=0.085  Score=53.34  Aligned_cols=22  Identities=36%  Similarity=0.471  Sum_probs=20.1

Q ss_pred             EEEEEccCCCcHHHHHHHHhcc
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      +|+|.|.+|+||||+|+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999874

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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=92.36  E-value=0.15  Score=50.16  Aligned_cols=24  Identities=33%  Similarity=0.659  Sum_probs=21.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .++.|.|++|+|||||+++++.+.
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            689999999999999999998753

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=92.34  E-value=0.56  Score=53.38  Aligned_cols=82  Identities=22%  Similarity=0.199  Sum_probs=48.3

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATC-----DLKTVDEVQVQL  243 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  243 (1277)
                      -.++.|.|.+|+|||||+.+++......    -..++|++..+.  ..++. .-+..++....     ...+.+++.+.+
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~~----g~~VlYvs~EEs--~~qi~-~Ra~rlg~~~~~l~l~~e~~le~I~~~i  154 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAKR----GGKVLYVSGEES--PEQIK-LRADRLGISTENLYLLAETNLEDILASI  154 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhc----CCeEEEEECCcC--HHHHH-HHHHHcCCCcccEEEEccCcHHHHHHHH
Confidence            4699999999999999999988654321    235778776543  33322 22334432211     123344444444


Q ss_pred             HHhhcCceEEEEecCcc
Q 000803          244 KKAVDGKRFLLVLDDVW  260 (1277)
Q Consensus       244 ~~~l~~kr~LlVlDdv~  260 (1277)
                      .+   .+.-+||+|.+.
T Consensus       155 ~~---~~~~lVVIDSIq  168 (372)
T cd01121         155 EE---LKPDLVIIDSIQ  168 (372)
T ss_pred             Hh---cCCcEEEEcchH
Confidence            32   355678888874

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.

>PTZ00185 ATPase alpha subunit; Provisional

Probab=92.27  E-value=0.67  Score=53.50  Aligned_cols=92  Identities=21%  Similarity=0.210  Sum_probs=52.0

Q ss_pred             EEEEEEccCCCcHHHHH-HHHhcccccc---ccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCC--------CCCCcHH
Q 000803          170 AVIPIVGMGGIGKTTLA-REVYNDKAVE---DSGKFDVKAWVCVSDDFDVLSISKALLESITSAT--------CDLKTVD  237 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa-~~~~~~~~~~---~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~--------~~~~~~~  237 (1277)
                      .-++|.|..|+|||+|| ..+.+.....   ....-+.++++-+.+..+...-+.+.+++-+.-.        .+.....
T Consensus       190 QR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~~  269 (574)
T PTZ00185        190 QRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGL  269 (574)
T ss_pred             CEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHHH
Confidence            56899999999999997 5566654221   0113356788888887654333444444433110        1111111


Q ss_pred             H-----HHHHHHHhh--cCceEEEEecCccc
Q 000803          238 E-----VQVQLKKAV--DGKRFLLVLDDVWN  261 (1277)
Q Consensus       238 ~-----~~~~l~~~l--~~kr~LlVlDdv~~  261 (1277)
                      +     ..-.+.+++  +++.+|+|+||+-.
T Consensus       270 r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        270 QYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence            1     112233333  57899999999943

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=92.24  E-value=0.51  Score=54.21  Aligned_cols=85  Identities=22%  Similarity=0.235  Sum_probs=46.3

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC-CcCHHHHHHHHHHHhcCC-------CCCCCcHHH--
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-DFDVLSISKALLESITSA-------TCDLKTVDE--  238 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~il~~l~~~-------~~~~~~~~~--  238 (1277)
                      -..++|+|..|+|||||++.+.....      .+..+.+.+.+ .-.+.++..+.+..-+..       ..+......  
T Consensus       140 Gq~i~I~G~sG~GKTtLl~~I~~~~~------~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~  213 (418)
T TIGR03498       140 GQRLGIFAGSGVGKSTLLSMLARNTD------ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQ  213 (418)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCC------CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHH
Confidence            35789999999999999999886432      12222233333 223444444433321110       111111111  


Q ss_pred             ---HHHHHHHhh--cCceEEEEecCc
Q 000803          239 ---VQVQLKKAV--DGKRFLLVLDDV  259 (1277)
Q Consensus       239 ---~~~~l~~~l--~~kr~LlVlDdv  259 (1277)
                         ..-.+.+++  +++.+|+++||+
T Consensus       214 a~~~a~~iAEyfrd~G~~Vll~~Dsl  239 (418)
T TIGR03498       214 AAYTATAIAEYFRDQGKDVLLLMDSV  239 (418)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccch
Confidence               122234444  578999999998

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=92.24  E-value=0.31  Score=53.91  Aligned_cols=81  Identities=26%  Similarity=0.301  Sum_probs=53.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHHH
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATC-----DLKTVDEVQVQLK  244 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  244 (1277)
                      .++.|-|-+|||||||.-++..+...+   .  .+.+|+-.+.  ..++ +--++.++....     ...+.+++...+.
T Consensus        94 s~iLIgGdPGIGKSTLLLQva~~lA~~---~--~vLYVsGEES--~~Qi-klRA~RL~~~~~~l~l~aEt~~e~I~~~l~  165 (456)
T COG1066          94 SVILIGGDPGIGKSTLLLQVAARLAKR---G--KVLYVSGEES--LQQI-KLRADRLGLPTNNLYLLAETNLEDIIAELE  165 (456)
T ss_pred             cEEEEccCCCCCHHHHHHHHHHHHHhc---C--cEEEEeCCcC--HHHH-HHHHHHhCCCccceEEehhcCHHHHHHHHH
Confidence            689999999999999999998865432   1  5777765443  3222 122344443222     2345666665555


Q ss_pred             HhhcCceEEEEecCccc
Q 000803          245 KAVDGKRFLLVLDDVWN  261 (1277)
Q Consensus       245 ~~l~~kr~LlVlDdv~~  261 (1277)
                      +   .+.-++|+|-+..
T Consensus       166 ~---~~p~lvVIDSIQT  179 (456)
T COG1066         166 Q---EKPDLVVIDSIQT  179 (456)
T ss_pred             h---cCCCEEEEeccce
Confidence            4   6888999999854

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=92.23  E-value=0.11  Score=50.24  Aligned_cols=20  Identities=40%  Similarity=0.687  Sum_probs=18.5

Q ss_pred             EEEEEccCCCcHHHHHHHHh
Q 000803          171 VIPIVGMGGIGKTTLAREVY  190 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~  190 (1277)
                      .|+|.|.+|+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999985

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=92.23  E-value=0.11  Score=54.09  Aligned_cols=22  Identities=27%  Similarity=0.243  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      .+++|+|..|.||||+.+.+..
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            6899999999999999999873

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=92.22  E-value=0.089  Score=54.68  Aligned_cols=22  Identities=45%  Similarity=0.684  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHhcc
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      +|+|.|..|+||||||+.+...
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999763

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=92.19  E-value=0.19  Score=51.04  Aligned_cols=43  Identities=28%  Similarity=0.342  Sum_probs=28.9

Q ss_pred             EEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHH
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVL  216 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~  216 (1277)
                      .|+|+|-||+||||+|..+......+.  .| .+.-|+...++++.
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~--~~-~VLvVDaDpd~nL~   44 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKG--GY-NVLVVDADPDSNLP   44 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcC--Cc-eEEEEeCCCCCChH
Confidence            589999999999999988554332222  23 35556666666543

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=92.19  E-value=0.11  Score=53.02  Aligned_cols=24  Identities=33%  Similarity=0.372  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+++|+|+.|+||||+|+.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999987643

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.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=92.19  E-value=0.81  Score=50.65  Aligned_cols=84  Identities=21%  Similarity=0.253  Sum_probs=47.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCC-CcCHHHHHHHHHHHhcC-------CCCCCCcHH----
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-DFDVLSISKALLESITS-------ATCDLKTVD----  237 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~il~~l~~-------~~~~~~~~~----  237 (1277)
                      ..++|+|..|+|||||.+.+.....      -+..+..-+.. .-++.+.....+..-..       ...+.....    
T Consensus        70 qri~I~G~sG~GKTtLl~~Ia~~~~------~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~  143 (326)
T cd01136          70 QRLGIFAGSGVGKSTLLGMIARGTT------ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKA  143 (326)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCCC------CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHH
Confidence            5789999999999999999987432      23334444443 23444444444433211       111111111    


Q ss_pred             -HHHHHHHHhh--cCceEEEEecCc
Q 000803          238 -EVQVQLKKAV--DGKRFLLVLDDV  259 (1277)
Q Consensus       238 -~~~~~l~~~l--~~kr~LlVlDdv  259 (1277)
                       ...-.+.+++  ++|.+|+++||+
T Consensus       144 ~~~a~~~AEyfr~~g~~Vll~~Dsl  168 (326)
T cd01136         144 AYTATAIAEYFRDQGKDVLLLMDSL  168 (326)
T ss_pred             HHHHHHHHHHHHHcCCCeEEEeccc
Confidence             1112233333  589999999998

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>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=92.18  E-value=0.13  Score=49.80  Aligned_cols=26  Identities=42%  Similarity=0.423  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhcccc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~  194 (1277)
                      ..||-|+|.+|.||||||+++.....
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~   27 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLF   27 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            36899999999999999999987543

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 ....

>TIGR01069 mutS2 MutS2 family protein

Probab=92.18  E-value=0.31  Score=61.18  Aligned_cols=23  Identities=26%  Similarity=0.187  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      .++++|+|+.|.||||+.+.+..
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~  344 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGL  344 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHH
Confidence            47899999999999999988864

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=92.17  E-value=1.6  Score=49.34  Aligned_cols=24  Identities=21%  Similarity=0.211  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      |=--++|++|.|||+++.++++..
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L  259 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYL  259 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhc
Confidence            446789999999999999999854

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=92.14  E-value=0.32  Score=55.02  Aligned_cols=80  Identities=16%  Similarity=0.178  Sum_probs=45.8

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccc--cCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKK  245 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~--~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~  245 (1277)
                      ..+=+-|+|..|.|||.|.-.+|+...++.  .-||.              ....++-+.+..-......+..++    +
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh--------------~Fm~~vh~~l~~~~~~~~~l~~va----~  122 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFH--------------EFMLDVHSRLHQLRGQDDPLPQVA----D  122 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCcccccccccc--------------HHHHHHHHHHHHHhCCCccHHHHH----H
Confidence            456789999999999999999998665422  11331              222222222221111222233333    3


Q ss_pred             hhcCceEEEEecCcccccHH
Q 000803          246 AVDGKRFLLVLDDVWNEDYS  265 (1277)
Q Consensus       246 ~l~~kr~LlVlDdv~~~~~~  265 (1277)
                      .+.++..||.||.+.-.+..
T Consensus       123 ~l~~~~~lLcfDEF~V~Dia  142 (362)
T PF03969_consen  123 ELAKESRLLCFDEFQVTDIA  142 (362)
T ss_pred             HHHhcCCEEEEeeeeccchh
Confidence            34556679999998655443

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=92.12  E-value=0.56  Score=48.34  Aligned_cols=23  Identities=30%  Similarity=0.471  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      .+++|+|..|.|||||++.++..
T Consensus        34 e~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          34 TLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999863

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=92.09  E-value=0.54  Score=46.46  Aligned_cols=116  Identities=16%  Similarity=0.099  Sum_probs=59.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceE--EEEEeCCCcCHHHHHHHHHHHhc-----CC-CCCCCc------
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVK--AWVCVSDDFDVLSISKALLESIT-----SA-TCDLKT------  235 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~--~wv~~s~~~~~~~~~~~il~~l~-----~~-~~~~~~------  235 (1277)
                      ..|-|++..|.||||.|..+.-...-.   .+...  =|+.-.........+...  .+.     .. .....+      
T Consensus         6 Gli~v~~g~GkGKtt~a~g~a~ra~~~---g~~v~ivQFlKg~~~~GE~~~l~~~--~~~~~~~g~g~~~~~~~~~~~~~   80 (173)
T TIGR00708         6 GIIIVHTGNGKGKTTAAFGMALRALGH---GKKVGVIQFIKGAWPNGERAAFEPH--GVEFQVMGTGFTWETQNREADTA   80 (173)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHHC---CCeEEEEEEecCCcccChHHHHHhc--CcEEEECCCCCeecCCCcHHHHH
Confidence            578888889999999997665432111   22221  133322223344444332  111     00 000011      


Q ss_pred             -HHHHHHHHHHhhcC-ceEEEEecCcccc---cHHhHHhhhcccccCCCCcEEEEEcccc
Q 000803          236 -VDEVQVQLKKAVDG-KRFLLVLDDVWNE---DYSLWVDLKAPFLAAAPNSKMIITTRNS  290 (1277)
Q Consensus       236 -~~~~~~~l~~~l~~-kr~LlVlDdv~~~---~~~~~~~l~~~l~~~~~~s~iivTtr~~  290 (1277)
                       ..+..+..++.+.. +-=++|||.+-..   .....+.+...+.....+.-||+|-|+.
T Consensus        81 ~~~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        81 IAKAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence             11222334455544 4459999998421   1122345555555566678999999985

Alternate name: corrinoid adenosyltransferase.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=92.08  E-value=0.66  Score=49.60  Aligned_cols=83  Identities=25%  Similarity=0.269  Sum_probs=47.1

Q ss_pred             EEEEEEccCCCcHHHHH-HHHhccccccccCCcceE-EEEEeCCCcC-HHHHHHHHHHHhcC-------CCCCCCcHH--
Q 000803          170 AVIPIVGMGGIGKTTLA-REVYNDKAVEDSGKFDVK-AWVCVSDDFD-VLSISKALLESITS-------ATCDLKTVD--  237 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa-~~~~~~~~~~~~~~f~~~-~wv~~s~~~~-~~~~~~~il~~l~~-------~~~~~~~~~--  237 (1277)
                      .-++|+|..|+|||+|| ..+.+..      .-+.+ +++-+.+... ..++.+++.+.-..       ...+.....  
T Consensus        70 Qr~~Ifg~~g~GKt~L~l~~i~~~~------~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  143 (274)
T cd01132          70 QRELIIGDRQTGKTAIAIDTIINQK------GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQY  143 (274)
T ss_pred             CEEEeeCCCCCCccHHHHHHHHHhc------CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHH
Confidence            56899999999999996 5565432      22344 6666666543 44555444432110       011111111  


Q ss_pred             -------HHHHHHHHhhcCceEEEEecCcc
Q 000803          238 -------EVQVQLKKAVDGKRFLLVLDDVW  260 (1277)
Q Consensus       238 -------~~~~~l~~~l~~kr~LlVlDdv~  260 (1277)
                             .+++.++.  +++.+|+|+||+-
T Consensus       144 ~a~~~a~aiAE~fr~--~G~~Vlvl~DslT  171 (274)
T cd01132         144 LAPYTGCAMGEYFMD--NGKHALIIYDDLS  171 (274)
T ss_pred             HHHHHHHHHHHHHHH--CCCCEEEEEcChH
Confidence                   22333333  5889999999993

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.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=92.07  E-value=0.21  Score=48.71  Aligned_cols=36  Identities=19%  Similarity=0.410  Sum_probs=28.7

Q ss_pred             hhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          149 EDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       149 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      +.++++.+++..         ++++++|..|+|||||+..+..+.
T Consensus        24 ~g~~~l~~~l~~---------k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG---------KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT---------SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC---------CEEEEECCCCCCHHHHHHHHHhhc
Confidence            456677776632         589999999999999999998753

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.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=91.96  E-value=0.27  Score=56.94  Aligned_cols=88  Identities=15%  Similarity=0.159  Sum_probs=53.5

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC-HHHHHHHHHHHhcC-------CCCCCCcHH---
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD-VLSISKALLESITS-------ATCDLKTVD---  237 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~il~~l~~-------~~~~~~~~~---  237 (1277)
                      -.-++|+|.+|+|||||+.++.+.... .  +-+.++++-+.+... +.++..++...-..       ...+.....   
T Consensus       143 GQR~gIfa~~G~GKt~Ll~~~~~~~~~-~--~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~  219 (461)
T PRK12597        143 GGKTGLFGGAGVGKTVLMMELIFNISK-Q--HSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMR  219 (461)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHh-h--CCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHH
Confidence            357899999999999999888775432 2  457778887776543 44444444432110       011111111   


Q ss_pred             --HHHHHHHHhh---cCceEEEEecCc
Q 000803          238 --EVQVQLKKAV---DGKRFLLVLDDV  259 (1277)
Q Consensus       238 --~~~~~l~~~l---~~kr~LlVlDdv  259 (1277)
                        ...-.+.+++   +++.+|+++||+
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLl~~Dsl  246 (461)
T PRK12597        220 VVLTGLTIAEYLRDEEKEDVLLFIDNI  246 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEeccc
Confidence              1223344555   378999999999

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=91.94  E-value=0.14  Score=50.71  Aligned_cols=27  Identities=26%  Similarity=0.418  Sum_probs=23.3

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhcccc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~  194 (1277)
                      ...+++|+|..|+|||||++.+.....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~   31 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALC   31 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHh
Confidence            457999999999999999999987543

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=91.94  E-value=0.6  Score=53.93  Aligned_cols=88  Identities=20%  Similarity=0.251  Sum_probs=52.4

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc-CHHHHHHHHHHHhcCC-------CCCCCcHH---
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF-DVLSISKALLESITSA-------TCDLKTVD---  237 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~il~~l~~~-------~~~~~~~~---  237 (1277)
                      -.-++|.|.+|+|||||+.++.......   +=+.++++-+.+.. .+.++..++...=...       ..+.....   
T Consensus       144 GQR~gIfa~~GvGKt~Ll~~i~~~~~~~---~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~  220 (463)
T PRK09280        144 GGKIGLFGGAGVGKTVLIQELINNIAKE---HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLR  220 (463)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHhc---CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            3568999999999999999887643321   11356777776654 3445555554321110       11111111   


Q ss_pred             --HHHHHHHHhh---cCceEEEEecCc
Q 000803          238 --EVQVQLKKAV---DGKRFLLVLDDV  259 (1277)
Q Consensus       238 --~~~~~l~~~l---~~kr~LlVlDdv  259 (1277)
                        ...-.+.+++   +++.+|+++||+
T Consensus       221 a~~~a~tiAEyfrd~~G~~VLll~Dsl  247 (463)
T PRK09280        221 VALTGLTMAEYFRDVEGQDVLLFIDNI  247 (463)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecch
Confidence              1223344555   679999999999

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=91.92  E-value=0.14  Score=48.96  Aligned_cols=23  Identities=35%  Similarity=0.547  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      .++++|+|.+|+||||+.+.+-.
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~   26 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALK   26 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHH
Confidence            57999999999999999988755

>PRK05973 replicative DNA helicase; Provisional

Probab=91.91  E-value=0.54  Score=49.45  Aligned_cols=47  Identities=13%  Similarity=0.084  Sum_probs=31.8

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      -.++.|.|.+|+|||++|.++..... +.   -..+++++....  ..++...
T Consensus        64 Gsl~LIaG~PG~GKT~lalqfa~~~a-~~---Ge~vlyfSlEes--~~~i~~R  110 (237)
T PRK05973         64 GDLVLLGARPGHGKTLLGLELAVEAM-KS---GRTGVFFTLEYT--EQDVRDR  110 (237)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHH-hc---CCeEEEEEEeCC--HHHHHHH
Confidence            36899999999999999998876432 21   234677766554  3444444

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=91.84  E-value=0.71  Score=53.13  Aligned_cols=86  Identities=24%  Similarity=0.299  Sum_probs=48.4

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCCcHHH--
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF-DVLSISKALLESITS-------ATCDLKTVDE--  238 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~il~~l~~-------~~~~~~~~~~--  238 (1277)
                      -..++|+|..|+|||||++.+.+..      +.+..+++.+.+.. .+.+...+....=..       ...+....+.  
T Consensus       155 GqrigI~G~sG~GKSTLL~~I~~~~------~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~  228 (433)
T PRK07594        155 GQRVGIFSAPGVGKSTLLAMLCNAP------DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVR  228 (433)
T ss_pred             CCEEEEECCCCCCccHHHHHhcCCC------CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHH
Confidence            3588999999999999999998643      33445555555543 333444443221000       0011111111  


Q ss_pred             ---HHHHHHHhh--cCceEEEEecCcc
Q 000803          239 ---VQVQLKKAV--DGKRFLLVLDDVW  260 (1277)
Q Consensus       239 ---~~~~l~~~l--~~kr~LlVlDdv~  260 (1277)
                         ..-.+.+++  +++++|+++||+-
T Consensus       229 a~~~a~tiAEyfrd~G~~VLl~~Dslt  255 (433)
T PRK07594        229 ALFVATTIAEFFRDNGKRVVLLADSLT  255 (433)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCHH
Confidence               112233444  5889999999993

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=91.81  E-value=0.44  Score=54.69  Aligned_cols=26  Identities=35%  Similarity=0.371  Sum_probs=22.3

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ...+|.++|..|+||||+|..++...
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999998887643

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.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=91.80  E-value=0.19  Score=53.58  Aligned_cols=85  Identities=20%  Similarity=0.228  Sum_probs=49.7

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCC--------------CC-C-
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSA--------------TC-D-  232 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~--------------~~-~-  232 (1277)
                      -.++.|.|.+|+|||+||.++......+   .=..++||+..+..  ..+.+.+- .++-+              .. . 
T Consensus        19 gs~~li~G~~GsGKT~l~~q~l~~~~~~---~ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~   92 (226)
T PF06745_consen   19 GSVVLISGPPGSGKTTLALQFLYNGLKN---FGEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPER   92 (226)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHH---HT--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGG
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHhhhh---cCCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEeccccc
Confidence            4789999999999999999876543222   02457888876653  33333322 22210              00 0 


Q ss_pred             ----CCcHHHHHHHHHHhhcC-ceEEEEecCc
Q 000803          233 ----LKTVDEVQVQLKKAVDG-KRFLLVLDDV  259 (1277)
Q Consensus       233 ----~~~~~~~~~~l~~~l~~-kr~LlVlDdv  259 (1277)
                          ..+.+.+...+.+.++. +...+|+|.+
T Consensus        93 ~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsl  124 (226)
T PF06745_consen   93 IGWSPNDLEELLSKIREAIEELKPDRVVIDSL  124 (226)
T ss_dssp             ST-TSCCHHHHHHHHHHHHHHHTSSEEEEETH
T ss_pred             ccccccCHHHHHHHHHHHHHhcCCCEEEEECH
Confidence                24566666666666543 3468888887

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>PRK06936 type III secretion system ATPase; Provisional

Probab=91.79  E-value=0.68  Score=53.23  Aligned_cols=86  Identities=23%  Similarity=0.274  Sum_probs=50.6

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC-HHHHHHHHHHHhcCC-------CCCCCcHHH--
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD-VLSISKALLESITSA-------TCDLKTVDE--  238 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~il~~l~~~-------~~~~~~~~~--  238 (1277)
                      -..++|.|..|+|||||.+.+++..      .-+.++++-+.+... +.++....+..-+..       ..+......  
T Consensus       162 Gq~~~I~G~sG~GKStLl~~Ia~~~------~~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (439)
T PRK06936        162 GQRMGIFAAAGGGKSTLLASLIRSA------EVDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAK  235 (439)
T ss_pred             CCEEEEECCCCCChHHHHHHHhcCC------CCCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHH
Confidence            3689999999999999999998753      335677777776643 333333322211100       111111111  


Q ss_pred             ---HHHHHHHhh--cCceEEEEecCcc
Q 000803          239 ---VQVQLKKAV--DGKRFLLVLDDVW  260 (1277)
Q Consensus       239 ---~~~~l~~~l--~~kr~LlVlDdv~  260 (1277)
                         ..-.+.+++  +++.+|+++||+-
T Consensus       236 a~~~a~tiAEyfrd~G~~Vll~~DslT  262 (439)
T PRK06936        236 AGFVATSIAEYFRDQGKRVLLLMDSVT  262 (439)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchh
Confidence               112233333  5899999999993

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=91.78  E-value=0.45  Score=45.44  Aligned_cols=37  Identities=19%  Similarity=0.284  Sum_probs=28.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEe
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCV  209 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~  209 (1277)
                      --+.|+|-||+||+++.+.+|...-.+   .+...+||+.
T Consensus        21 iK~vivGng~VGKssmiqryCkgifTk---dykktIgvdf   57 (246)
T KOG4252|consen   21 IKFVIVGNGSVGKSSMIQRYCKGIFTK---DYKKTIGVDF   57 (246)
T ss_pred             EEEEEECCCccchHHHHHHHhcccccc---ccccccchhh
Confidence            346799999999999999999755444   3667788764

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=91.72  E-value=0.85  Score=52.65  Aligned_cols=86  Identities=15%  Similarity=0.137  Sum_probs=47.7

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc-CHHHHHHHHHHHhcCC-------CCCCCcHH---
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF-DVLSISKALLESITSA-------TCDLKTVD---  237 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~il~~l~~~-------~~~~~~~~---  237 (1277)
                      -..++|+|..|+|||||++.+....      ..+.++...+.... +..++...+...-...       ..+.....   
T Consensus       168 GqrigI~G~sG~GKSTLl~~I~g~~------~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~  241 (451)
T PRK05688        168 GQRLGLFAGTGVGKSVLLGMMTRFT------EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLR  241 (451)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC------CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHH
Confidence            3579999999999999999997632      22344444444332 3444444443321111       11111111   


Q ss_pred             --HHHHHHHHhh--cCceEEEEecCcc
Q 000803          238 --EVQVQLKKAV--DGKRFLLVLDDVW  260 (1277)
Q Consensus       238 --~~~~~l~~~l--~~kr~LlVlDdv~  260 (1277)
                        .....+.+++  +++.+|+++||+-
T Consensus       242 a~~~a~aiAEyfrd~G~~VLl~~DslT  268 (451)
T PRK05688        242 AAMYCTRIAEYFRDKGKNVLLLMDSLT  268 (451)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEecchh
Confidence              1122233444  5899999999993

>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=91.72  E-value=0.11  Score=52.53  Aligned_cols=23  Identities=43%  Similarity=0.638  Sum_probs=20.5

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998743

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=91.71  E-value=1.2  Score=50.95  Aligned_cols=22  Identities=41%  Similarity=0.622  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      .+++|+|+.|.||||||+.+.-
T Consensus       363 ~~lgIIGPSgSGKSTLaR~lvG  384 (580)
T COG4618         363 EALGIIGPSGSGKSTLARLLVG  384 (580)
T ss_pred             ceEEEECCCCccHHHHHHHHHc
Confidence            5899999999999999998865

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=91.69  E-value=1.6  Score=47.28  Aligned_cols=27  Identities=33%  Similarity=0.329  Sum_probs=24.0

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+..++.|+|.+|+|||||+..+.+..
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l  128 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMRL  128 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            567899999999999999999998753

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=91.67  E-value=0.65  Score=53.38  Aligned_cols=85  Identities=21%  Similarity=0.202  Sum_probs=46.9

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCCcHH---
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF-DVLSISKALLESITS-------ATCDLKTVD---  237 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~il~~l~~-------~~~~~~~~~---  237 (1277)
                      -..++|+|..|+|||||++.+.+..      ..+..+.+.+.... .+.++.......=..       ...+.....   
T Consensus       137 Gq~~~I~G~sG~GKTtLl~~I~~~~------~~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~  210 (411)
T TIGR03496       137 GQRMGIFAGSGVGKSTLLGMMARYT------EADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLR  210 (411)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC------CCCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHH
Confidence            3578999999999999999888643      22344445555543 233333333322100       011111111   


Q ss_pred             --HHHHHHHHhh--cCceEEEEecCc
Q 000803          238 --EVQVQLKKAV--DGKRFLLVLDDV  259 (1277)
Q Consensus       238 --~~~~~l~~~l--~~kr~LlVlDdv  259 (1277)
                        ...-.+.+++  +++.+|+++||+
T Consensus       211 a~~~a~tiAEyfr~~G~~Vll~~Dsl  236 (411)
T TIGR03496       211 AAFYATAIAEYFRDQGKDVLLLMDSL  236 (411)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEeCh
Confidence              1112233333  588999999999

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=91.62  E-value=0.11  Score=53.25  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.8

Q ss_pred             EEEEEccCCCcHHHHHHHHhcc
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ||.|+|++|+||||+|+.+...
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~   22 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVEN   22 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999763

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=91.62  E-value=0.14  Score=52.10  Aligned_cols=25  Identities=28%  Similarity=0.381  Sum_probs=21.9

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ...|.|+|++|+||||+|+.++...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998743

>PRK00889 adenylylsulfate kinase; Provisional

Probab=91.62  E-value=0.16  Score=51.59  Aligned_cols=25  Identities=32%  Similarity=0.444  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      ..++.|+|++|+||||+|+++....
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999998754

>PRK12678 transcription termination factor Rho; Provisional

Probab=91.60  E-value=0.28  Score=57.10  Aligned_cols=84  Identities=23%  Similarity=0.284  Sum_probs=47.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEE-EEEeCCCcCHHHHHHHHHHHhc----CCCCCCCc-----HHHH
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKA-WVCVSDDFDVLSISKALLESIT----SATCDLKT-----VDEV  239 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~-wv~~s~~~~~~~~~~~il~~l~----~~~~~~~~-----~~~~  239 (1277)
                      .-..|+|.+|+|||||++.+.+.... .  +-++.+ .+-|.+.....   .+|-+.+.    ....+...     ...+
T Consensus       417 QR~LIvgpp~aGKTtLL~~IAn~i~~-n--~~~~~~ivvLIgERpeEV---tdm~rsVkgeVVasT~D~p~~~~~~~a~~  490 (672)
T PRK12678        417 QRGLIVSPPKAGKTTILQNIANAITT-N--NPECHLMVVLVDERPEEV---TDMQRSVKGEVIASTFDRPPSDHTTVAEL  490 (672)
T ss_pred             CEeEEeCCCCCCHHHHHHHHHHHHhh-c--CCCeEEEEEEEeCchhhH---HHHHHhccceEEEECCCCCHHHHHHHHHH
Confidence            56789999999999999999885432 1  223333 44455543322   22233331    11112111     1122


Q ss_pred             HHHHHHhh--cCceEEEEecCc
Q 000803          240 QVQLKKAV--DGKRFLLVLDDV  259 (1277)
Q Consensus       240 ~~~l~~~l--~~kr~LlVlDdv  259 (1277)
                      .-.+.+++  +++.+||++|++
T Consensus       491 ai~~Ae~fre~G~dVlillDSl  512 (672)
T PRK12678        491 AIERAKRLVELGKDVVVLLDSI  512 (672)
T ss_pred             HHHHHHHHHHcCCCEEEEEeCc
Confidence            22333444  689999999998

>PRK04328 hypothetical protein; Provisional

Probab=91.60  E-value=0.58  Score=50.41  Aligned_cols=41  Identities=15%  Similarity=0.289  Sum_probs=30.3

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD  212 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~  212 (1277)
                      .-.++.|.|.+|+|||+||.++.... .+   .-..++|++..+.
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~-~~---~ge~~lyis~ee~   62 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNG-LQ---MGEPGVYVALEEH   62 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH-Hh---cCCcEEEEEeeCC
Confidence            34789999999999999999876542 12   2245788887664

>CHL00206 ycf2 Ycf2; Provisional

Probab=91.57  E-value=0.83  Score=60.73  Aligned_cols=26  Identities=19%  Similarity=0.272  Sum_probs=22.5

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhcccc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~  194 (1277)
                      .+=|-++|++|.|||.||++++.+..
T Consensus      1630 PKGILLiGPPGTGKTlLAKALA~es~ 1655 (2281)
T CHL00206       1630 SRGILVIGSIGTGRSYLVKYLATNSY 1655 (2281)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHhcC
Confidence            45688999999999999999998653

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=91.53  E-value=0.48  Score=52.74  Aligned_cols=27  Identities=33%  Similarity=0.449  Sum_probs=23.3

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhcccc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~  194 (1277)
                      ...+++++|++|+||||++..++...+
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~  139 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYK  139 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            458999999999999999999877543

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=91.51  E-value=0.32  Score=44.76  Aligned_cols=51  Identities=18%  Similarity=0.276  Sum_probs=35.4

Q ss_pred             CccccchhhHHHHHHHHhcccc-cCCCCeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          142 PVVFGREEDKTKILEMVLTDTA-ADHANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~-~~~~~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..++|..-..+.+++.+..--. ....++-|++..|..|+|||.+|+.+++.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            3577877666666555543211 12266789999999999999988887765

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

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=91.50  E-value=0.8  Score=48.85  Aligned_cols=41  Identities=17%  Similarity=0.181  Sum_probs=29.6

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD  212 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~  212 (1277)
                      .-.++.|.|.+|+||||||.++..... +   .-..++|++....
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~-~---~g~~~~~is~e~~   59 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGL-R---DGDPVIYVTTEES   59 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHH-h---cCCeEEEEEccCC
Confidence            347999999999999999998765322 1   2246788876443

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=91.49  E-value=0.13  Score=50.71  Aligned_cols=22  Identities=27%  Similarity=0.643  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHhcc
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ++.|+|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            4789999999999999999763

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK09099 type III secretion system ATPase; Provisional

Probab=91.48  E-value=0.67  Score=53.54  Aligned_cols=86  Identities=20%  Similarity=0.216  Sum_probs=47.0

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCC-------CCCCCcHHH---
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSA-------TCDLKTVDE---  238 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~-------~~~~~~~~~---  238 (1277)
                      -..++|.|..|+|||||++.+.......     ..+++..-.+...+.++.+.+...-...       ..+......   
T Consensus       163 Gq~~~I~G~sG~GKTtLl~~ia~~~~~d-----~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a  237 (441)
T PRK09099        163 GQRMGIFAPAGVGKSTLMGMFARGTQCD-----VNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKA  237 (441)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCC-----eEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHH
Confidence            3688999999999999999998643211     1333333233333444444443321100       111111111   


Q ss_pred             --HHHHHHHhh--cCceEEEEecCc
Q 000803          239 --VQVQLKKAV--DGKRFLLVLDDV  259 (1277)
Q Consensus       239 --~~~~l~~~l--~~kr~LlVlDdv  259 (1277)
                        ..-.+.+++  +++.+|+++||+
T Consensus       238 ~~~a~tiAEyfrd~G~~VLl~~Dsl  262 (441)
T PRK09099        238 AYVATAIAEYFRDRGLRVLLMMDSL  262 (441)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccch
Confidence              112233444  578999999998

>TIGR03263 guanyl_kin guanylate kinase

Probab=91.48  E-value=0.15  Score=52.15  Aligned_cols=23  Identities=35%  Similarity=0.668  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ++++|+|+.|+||||||+.++..
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            47999999999999999999873

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.

>PRK06217 hypothetical protein; Validated

Probab=91.44  E-value=0.13  Score=52.45  Aligned_cols=23  Identities=35%  Similarity=0.432  Sum_probs=20.6

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .|.|.|.+|.||||+|+++....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999998754

>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=91.43  E-value=0.18  Score=45.31  Aligned_cols=21  Identities=48%  Similarity=0.593  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHh
Q 000803          170 AVIPIVGMGGIGKTTLAREVY  190 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~  190 (1277)
                      .+++|+|+.|.|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            689999999999999999985

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

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=91.40  E-value=0.23  Score=60.33  Aligned_cols=74  Identities=14%  Similarity=0.088  Sum_probs=52.9

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHH
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  221 (1277)
                      ..++|.++.++.+...+...        +.+.++|.+|+||||+|+.+.+... ..  +++..+|..- ...+....++.
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--------~~~l~~G~~G~GKttla~~l~~~l~-~~--~~~~~~~~~n-p~~~~~~~~~~   98 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--------RHVMMIGSPGTGKSMLAKAMAELLP-KE--ELQDILVYPN-PEDPNNPKIRT   98 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--------CeEEEECCCCCcHHHHHHHHHHHcC-hH--hHHHheEeeC-CCcchHHHHHH
Confidence            46889888888777666432        3688999999999999999987532 22  4577788654 33466677777


Q ss_pred             HHHHhc
Q 000803          222 LLESIT  227 (1277)
Q Consensus       222 il~~l~  227 (1277)
                      +..+++
T Consensus        99 v~~~~G  104 (637)
T PRK13765         99 VPAGKG  104 (637)
T ss_pred             HHHhcC
Confidence            776554

>cd04159 Arl10_like Arl10-like subfamily

Probab=91.37  E-value=1.7  Score=42.79  Aligned_cols=21  Identities=38%  Similarity=0.572  Sum_probs=19.3

Q ss_pred             EEEEccCCCcHHHHHHHHhcc
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      |+|+|..|+|||||.+.+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999999775

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=91.34  E-value=0.87  Score=46.98  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      .+++|.|..|.|||||.+.+..-.
T Consensus        36 e~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          36 ELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            689999999999999999998743

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=91.33  E-value=1.2  Score=48.13  Aligned_cols=89  Identities=12%  Similarity=0.179  Sum_probs=48.0

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCH--HHHHHHHHHHhcCCCCCCCcHHHHHHHHHHh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV--LSISKALLESITSATCDLKTVDEVQVQLKKA  246 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~--~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  246 (1277)
                      ..+++++|.+|+||||++..+......+   . ..+.+++.. .+..  ..-++...+.++.+.....+.+++.+.+...
T Consensus        75 ~~~i~~~G~~g~GKTtl~~~l~~~l~~~---~-~~v~~i~~D-~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l  149 (270)
T PRK06731         75 VQTIALIGPTGVGKTTTLAKMAWQFHGK---K-KTVGFITTD-HSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYF  149 (270)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHHHHc---C-CeEEEEecC-CCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHH
Confidence            3689999999999999999886543211   1 234555543 2222  2222233333332222223455555554443


Q ss_pred             hc-CceEEEEecCcccc
Q 000803          247 VD-GKRFLLVLDDVWNE  262 (1277)
Q Consensus       247 l~-~kr~LlVlDdv~~~  262 (1277)
                      -+ .+.=++++|.....
T Consensus       150 ~~~~~~D~ViIDt~Gr~  166 (270)
T PRK06731        150 KEEARVDYILIDTAGKN  166 (270)
T ss_pred             HhcCCCCEEEEECCCCC
Confidence            22 24568888988553

>PRK03846 adenylylsulfate kinase; Provisional

Probab=91.31  E-value=0.18  Score=52.25  Aligned_cols=26  Identities=27%  Similarity=0.365  Sum_probs=22.7

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      .+..+++|+|++|+||||||+.+...
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~   47 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEA   47 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34579999999999999999999774

>PRK05922 type III secretion system ATPase; Validated

Probab=91.29  E-value=1  Score=51.86  Aligned_cols=84  Identities=14%  Similarity=0.252  Sum_probs=46.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCc-CHHHHHHHHHHHhcCCC-------CCCCcHH----
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF-DVLSISKALLESITSAT-------CDLKTVD----  237 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~il~~l~~~~-------~~~~~~~----  237 (1277)
                      ..++|+|..|+|||||.+.+....      ..+...++-+.+.. .....+.+.........       .+.....    
T Consensus       158 qrigI~G~nG~GKSTLL~~Ia~~~------~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a  231 (434)
T PRK05922        158 QRIGVFSEPGSGKSSLLSTIAKGS------KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIA  231 (434)
T ss_pred             cEEEEECCCCCChHHHHHHHhccC------CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHH
Confidence            568999999999999999998643      22333443343332 23334433333222111       1111111    


Q ss_pred             -HHHHHHHHhh--cCceEEEEecCc
Q 000803          238 -EVQVQLKKAV--DGKRFLLVLDDV  259 (1277)
Q Consensus       238 -~~~~~l~~~l--~~kr~LlVlDdv  259 (1277)
                       ...-.+.+++  +++.+|+++||+
T Consensus       232 ~~~a~tiAEyfrd~G~~VLl~~Dsl  256 (434)
T PRK05922        232 GRAAMTIAEYFRDQGHRVLFIMDSL  256 (434)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccch
Confidence             1122334444  589999999999

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=91.29  E-value=0.16  Score=52.06  Aligned_cols=22  Identities=45%  Similarity=0.614  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      .+++|+|..|.||||||+.+.-
T Consensus        34 e~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          34 ETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhc
Confidence            5899999999999999999865

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=91.27  E-value=0.84  Score=49.19  Aligned_cols=53  Identities=19%  Similarity=0.136  Sum_probs=36.6

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHh
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESI  226 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l  226 (1277)
                      -.++.|.|.+|+|||++|.++..+.....   =..++|++...  +..++...++...
T Consensus        13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~---g~~vly~s~E~--~~~~~~~r~~~~~   65 (242)
T cd00984          13 GDLIIIAARPSMGKTAFALNIAENIAKKQ---GKPVLFFSLEM--SKEQLLQRLLASE   65 (242)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhC---CCceEEEeCCC--CHHHHHHHHHHHh
Confidence            36899999999999999998876543331   23567777655  4556666665443

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=91.20  E-value=0.15  Score=51.59  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999764

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>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=91.15  E-value=0.17  Score=47.39  Aligned_cols=23  Identities=35%  Similarity=0.632  Sum_probs=19.8

Q ss_pred             EEEEccCCCcHHHHHHHHhcccc
Q 000803          172 IPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~~~  194 (1277)
                      |.|+|..|+|||||.+.+.....
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            68999999999999999987543

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.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=91.11  E-value=0.49  Score=54.51  Aligned_cols=87  Identities=14%  Similarity=0.235  Sum_probs=53.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcC-HHHHHHHHHHHhcCC-------CCCCCcHH----
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD-VLSISKALLESITSA-------TCDLKTVD----  237 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~il~~l~~~-------~~~~~~~~----  237 (1277)
                      .-++|.|.+|+|||+|+.++.+... +.  +-+.++|+-+.+..+ +.++.+++...=...       ..+.....    
T Consensus       139 Qr~~Ifg~~G~GKt~l~~~~~~~~~-~~--~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~  215 (449)
T TIGR03305       139 GKAGLFGGAGVGKTVLLTEMIHNMV-GQ--HQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRV  215 (449)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHH-hc--CCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHH
Confidence            5689999999999999999877533 22  346788888877653 444455444321100       11111111    


Q ss_pred             -HHHHHHHHhh---cCceEEEEecCc
Q 000803          238 -EVQVQLKKAV---DGKRFLLVLDDV  259 (1277)
Q Consensus       238 -~~~~~l~~~l---~~kr~LlVlDdv  259 (1277)
                       ...-.+.+++   +++.+|+++||+
T Consensus       216 ~~~a~tiAEyfrd~~G~~VLl~~Dsl  241 (449)
T TIGR03305       216 GHTALTMAEYFRDDEKQDVLLLIDNI  241 (449)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecCh
Confidence             1223344555   468999999999

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.

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=91.10  E-value=0.53  Score=46.89  Aligned_cols=20  Identities=30%  Similarity=0.522  Sum_probs=18.4

Q ss_pred             EEEEEEccCCCcHHHHHHHH
Q 000803          170 AVIPIVGMGGIGKTTLAREV  189 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~  189 (1277)
                      ++..|+|+.|.|||++.+.+
T Consensus        22 ~~~~i~G~NgsGKS~~l~~i   41 (162)
T cd03227          22 SLTIITGPNGSGKSTILDAI   41 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999875

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>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=91.10  E-value=0.12  Score=47.69  Aligned_cols=21  Identities=38%  Similarity=0.672  Sum_probs=16.1

Q ss_pred             EEEEccCCCcHHHHHHHHhcc
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      |-|+|.+|+||||+|+.++..
T Consensus         2 vLleg~PG~GKT~la~~lA~~   22 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARS   22 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHH
T ss_pred             EeeECCCccHHHHHHHHHHHH
Confidence            679999999999999999874

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.

>PRK13949 shikimate kinase; Provisional

Probab=91.08  E-value=0.16  Score=50.92  Aligned_cols=23  Identities=39%  Similarity=0.517  Sum_probs=20.4

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      -|.|+|+.|+||||+|+.++...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48899999999999999998743

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=91.06  E-value=7.1  Score=42.63  Aligned_cols=69  Identities=10%  Similarity=0.161  Sum_probs=46.2

Q ss_pred             cCceEEEEecCcccccHHhHHhhhcccccCCCCcEEEEEcccc-cccccc-CCCceeecCCCCHHHHHHHHH
Q 000803          248 DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-GPIDHYNLEHLLDDDCWSIFK  317 (1277)
Q Consensus       248 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~  317 (1277)
                      .+++=++|+||++......++.+...+-.-..++.+|.+|.+. .+...+ +....+.+.+ +.++..+.+.
T Consensus       102 ~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~  172 (290)
T PRK07276        102 EGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLE  172 (290)
T ss_pred             cCCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHH
Confidence            3566789999999988888898888887666667777766554 344332 2224566766 6666555554

>PRK14738 gmk guanylate kinase; Provisional

Probab=91.03  E-value=0.19  Score=52.35  Aligned_cols=25  Identities=24%  Similarity=0.402  Sum_probs=22.3

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhc
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      ...+++.|+|++|+|||||++.+..
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHh
Confidence            4568999999999999999999965

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=91.01  E-value=1.1  Score=54.57  Aligned_cols=116  Identities=16%  Similarity=0.196  Sum_probs=59.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCCCCCC---CcHHHHHHHHHHh
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDL---KTVDEVQVQLKKA  246 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~~~~~---~~~~~~~~~l~~~  246 (1277)
                      ++..|.|.+|.||||++..+......... .-...+.+.....--..++...+-..+..-....   .....-..-+++.
T Consensus       168 ~~~vItGgpGTGKTt~v~~ll~~l~~~~~-~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrl  246 (615)
T PRK10875        168 RISVISGGPGTGKTTTVAKLLAALIQLAD-GERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRL  246 (615)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHhcC-CCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHH
Confidence            58999999999999999888764321110 1123555555544334444433332221100000   0000001122222


Q ss_pred             hc------------Cce---EEEEecCcccccHHhHHhhhcccccCCCCcEEEEEccc
Q 000803          247 VD------------GKR---FLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRN  289 (1277)
Q Consensus       247 l~------------~kr---~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtr~  289 (1277)
                      |.            +.+   =++|+|.+.-.+......+...++   +++|+|+.-=.
T Consensus       247 Lg~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al~---~~~rlIlvGD~  301 (615)
T PRK10875        247 LGAQPGSQRLRYHAGNPLHLDVLVVDEASMVDLPMMARLIDALP---PHARVIFLGDR  301 (615)
T ss_pred             hCcCCCccchhhccccCCCCCeEEEChHhcccHHHHHHHHHhcc---cCCEEEEecch
Confidence            21            111   289999987666666666666665   46788776443

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=91.01  E-value=1.8  Score=45.20  Aligned_cols=23  Identities=39%  Similarity=0.511  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      .+++|+|..|.|||||++.+..-
T Consensus        35 ~~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          35 EKIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            58999999999999999999754

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>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=90.98  E-value=0.15  Score=50.00  Aligned_cols=22  Identities=36%  Similarity=0.558  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHhcc
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      +|.|+|..|+||||+|+.+...
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~   22 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKK   22 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999764

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=90.93  E-value=0.16  Score=48.76  Aligned_cols=22  Identities=32%  Similarity=0.685  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHhcc
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      .++|+|+.|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999874

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.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=90.91  E-value=0.19  Score=51.47  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=21.6

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhcc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..++.|.|.+|+||||+|+.+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999774

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=90.89  E-value=0.53  Score=53.96  Aligned_cols=91  Identities=13%  Similarity=0.206  Sum_probs=53.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcccccc---------ccCCcceEEEEEeCCCcCHHHHHHHHHHHhc-CC-------CCC
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVE---------DSGKFDVKAWVCVSDDFDVLSISKALLESIT-SA-------TCD  232 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~~~---------~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~-~~-------~~~  232 (1277)
                      .-++|.|-+|+|||||+.++.+.....         ..+.=..++++-+.+.....+.+.+.+..-+ ..       ..+
T Consensus       142 QRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~atsd  221 (466)
T TIGR01040       142 QKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLAN  221 (466)
T ss_pred             CeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECCC
Confidence            568999999999999999988754310         0001115677777777555555555554433 11       111


Q ss_pred             CCcHHH-----HHHHHHHhhc---CceEEEEecCcc
Q 000803          233 LKTVDE-----VQVQLKKAVD---GKRFLLVLDDVW  260 (1277)
Q Consensus       233 ~~~~~~-----~~~~l~~~l~---~kr~LlVlDdv~  260 (1277)
                      .....+     ..-.+.++++   ++.+|+++||+-
T Consensus       222 ~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslT  257 (466)
T TIGR01040       222 DPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMS  257 (466)
T ss_pred             CCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChH
Confidence            111111     1223445554   689999999993

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=90.88  E-value=0.17  Score=47.22  Aligned_cols=22  Identities=36%  Similarity=0.528  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHhc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      +-|.|.|.+|+||||+|.+++.
T Consensus         8 PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHH
Confidence            4578999999999999999975

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=90.86  E-value=1.2  Score=46.74  Aligned_cols=23  Identities=26%  Similarity=0.079  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      .+++.|.|+.|.||||+.+.+.-
T Consensus        31 g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          31 GYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36889999999999999988765

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>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=90.86  E-value=0.65  Score=49.19  Aligned_cols=76  Identities=20%  Similarity=0.187  Sum_probs=40.8

Q ss_pred             EEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCC--cCHHHHHHHHHHHh----cCCC--CCCCcHHHHHHH
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD--FDVLSISKALLESI----TSAT--CDLKTVDEVQVQ  242 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~--~~~~~~~~~il~~l----~~~~--~~~~~~~~~~~~  242 (1277)
                      +|+|.|..|+||||+|+.+....+...    ..++.++...-  ++-...-..+..+.    .-..  .+..+.+.+.+.
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~~g----~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~   76 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFAREG----IHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEEL   76 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhcC----CceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHH
Confidence            589999999999999998876432111    12333332221  12122222222221    1112  355667777777


Q ss_pred             HHHhhcCc
Q 000803          243 LKKAVDGK  250 (1277)
Q Consensus       243 l~~~l~~k  250 (1277)
                      ++.+.+++
T Consensus        77 l~~L~~g~   84 (277)
T cd02029          77 FRTYGETG   84 (277)
T ss_pred             HHHHHcCC
Confidence            77776654

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.

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=90.82  E-value=0.94  Score=52.13  Aligned_cols=88  Identities=18%  Similarity=0.147  Sum_probs=49.3

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcCC-------CCCCCc-----H
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSA-------TCDLKT-----V  236 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~~-------~~~~~~-----~  236 (1277)
                      -..++|+|..|+|||||++.++.....     ...++...-.+...+.+..+..+..-+..       ..+...     .
T Consensus       156 Gqri~I~G~sG~GKTtLl~~Ia~~~~~-----~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra  230 (432)
T PRK06793        156 GQKIGIFAGSGVGKSTLLGMIAKNAKA-----DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRA  230 (432)
T ss_pred             CcEEEEECCCCCChHHHHHHHhccCCC-----CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHH
Confidence            357899999999999999999875422     11233322223345555555544432111       111111     1


Q ss_pred             HHHHHHHHHhh--cCceEEEEecCccc
Q 000803          237 DEVQVQLKKAV--DGKRFLLVLDDVWN  261 (1277)
Q Consensus       237 ~~~~~~l~~~l--~~kr~LlVlDdv~~  261 (1277)
                      ......+.+++  +++..|+|+||+-.
T Consensus       231 ~~~a~~iAEyfr~~G~~VLlilDslTr  257 (432)
T PRK06793        231 AKLATSIAEYFRDQGNNVLLMMDSVTR  257 (432)
T ss_pred             HHHHHHHHHHHHHcCCcEEEEecchHH
Confidence            11222333444  47899999999943

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

Probab=90.78  E-value=0.43  Score=54.04  Aligned_cols=62  Identities=26%  Similarity=0.270  Sum_probs=44.6

Q ss_pred             ccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHH
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~  219 (1277)
                      .++|+++....+...+...        +-+.+.|.+|+|||+||+++......    .   ..+|.+.......++.
T Consensus        25 ~~~g~~~~~~~~l~a~~~~--------~~vll~G~PG~gKT~la~~lA~~l~~----~---~~~i~~t~~l~p~d~~   86 (329)
T COG0714          25 VVVGDEEVIELALLALLAG--------GHVLLEGPPGVGKTLLARALARALGL----P---FVRIQCTPDLLPSDLL   86 (329)
T ss_pred             eeeccHHHHHHHHHHHHcC--------CCEEEECCCCccHHHHHHHHHHHhCC----C---eEEEecCCCCCHHHhc
Confidence            4889888888887777654        35789999999999999999874321    2   3556666665555543

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=90.77  E-value=0.85  Score=52.48  Aligned_cols=25  Identities=24%  Similarity=0.294  Sum_probs=21.7

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhccc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      -..++|+|..|+|||||++.+.+..
T Consensus       137 Gqri~I~G~sG~GKTtLl~~i~~~~  161 (413)
T TIGR03497       137 GQRVGIFAGSGVGKSTLLGMIARNA  161 (413)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999887743

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=90.76  E-value=0.19  Score=51.46  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      .+++|+|+.|+|||||++.++..
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            47899999999999999999764

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=90.75  E-value=0.52  Score=51.47  Aligned_cols=24  Identities=38%  Similarity=0.463  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHhccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      +-|..+|++|.|||-||++|+...
T Consensus       246 kgvLm~GPPGTGKTlLAKAvATEc  269 (491)
T KOG0738|consen  246 KGVLMVGPPGTGKTLLAKAVATEC  269 (491)
T ss_pred             ceeeeeCCCCCcHHHHHHHHHHhh
Confidence            568899999999999999998754

>PRK13947 shikimate kinase; Provisional

Probab=90.71  E-value=0.17  Score=51.05  Aligned_cols=23  Identities=35%  Similarity=0.528  Sum_probs=20.3

Q ss_pred             EEEEEccCCCcHHHHHHHHhccc
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      -|.|+|++|+||||+|+.+.+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            38899999999999999998743

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=90.70  E-value=0.59  Score=56.41  Aligned_cols=47  Identities=19%  Similarity=0.127  Sum_probs=35.2

Q ss_pred             CccccchhhHHHHHHHHhcccccCCCCeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..++|....+.++++.+......    -.-|.|+|..|+||+++|+.+.+.
T Consensus       204 ~~~ig~s~~~~~~~~~~~~~A~~----~~pvlI~GE~GtGK~~lA~aiH~~  250 (520)
T PRK10820        204 SQIVAVSPKMRQVVEQARKLAML----DAPLLITGDTGTGKDLLAYACHLR  250 (520)
T ss_pred             cceeECCHHHHHHHHHHHHHhCC----CCCEEEECCCCccHHHHHHHHHHh
Confidence            36899998888888776543221    133779999999999999998653

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=90.70  E-value=0.86  Score=53.08  Aligned_cols=87  Identities=20%  Similarity=0.201  Sum_probs=50.5

Q ss_pred             eEEEEEEccCCCcHHHHH-HHHhccccccccCCcce-EEEEEeCCCcC-HHHHHHHHHHHhcCC-------CCCCCcHHH
Q 000803          169 FAVIPIVGMGGIGKTTLA-REVYNDKAVEDSGKFDV-KAWVCVSDDFD-VLSISKALLESITSA-------TCDLKTVDE  238 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa-~~~~~~~~~~~~~~f~~-~~wv~~s~~~~-~~~~~~~il~~l~~~-------~~~~~~~~~  238 (1277)
                      -.-++|.|..|+|||||| ..+.+..      .-+. ++++-+.+... +.++...+.+.=...       ..+.....+
T Consensus       162 GQR~~Ifg~~g~GKT~Lal~~I~~q~------~~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r  235 (497)
T TIGR03324       162 GQRELILGDRQTGKTAIAIDTILNQK------GRNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQ  235 (497)
T ss_pred             CCEEEeecCCCCCHHHHHHHHHHHhc------CCCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHH
Confidence            356899999999999997 4676642      2344 67888877643 444444444321100       111111111


Q ss_pred             -----HHHHHHHhh--cCceEEEEecCccc
Q 000803          239 -----VQVQLKKAV--DGKRFLLVLDDVWN  261 (1277)
Q Consensus       239 -----~~~~l~~~l--~~kr~LlVlDdv~~  261 (1277)
                           ....+.+++  +++.+|+|+||+-.
T Consensus       236 ~~ap~~a~aiAEyfrd~G~~VLlv~DdlTr  265 (497)
T TIGR03324       236 YIAPYAATSIGEHFMEQGRDVLIVYDDLTQ  265 (497)
T ss_pred             HHHHHHHHHHHHHHHhCCCCEEEEEcChhH
Confidence                 112233444  58899999999943

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

>COG4240 Predicted kinase [General function prediction only]

Probab=90.66  E-value=1  Score=45.43  Aligned_cols=82  Identities=16%  Similarity=0.086  Sum_probs=52.1

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeCCCcCHHHHHHHHHHHhcC-----CCCCCCcHHHHHH
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITS-----ATCDLKTVDEVQV  241 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~il~~l~~-----~~~~~~~~~~~~~  241 (1277)
                      +++-+++|.|+-|.||||++..+++....+.  . ..++..+..+-+-...-.-.++++...     ......+..-..+
T Consensus        48 grPli~gisGpQGSGKStls~~i~~~L~~kg--~-ert~~lSLDDlYlthadrl~La~q~npllq~RGlpGTHD~tlgln  124 (300)
T COG4240          48 GRPLIVGISGPQGSGKSTLSALIVRLLAAKG--L-ERTATLSLDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGLN  124 (300)
T ss_pred             CCceEEEeecCCCCchhhHHHHHHHHHHHhc--c-cceEEeehhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHHH
Confidence            5678999999999999999999998776554  2 356666655544333444445555421     1223345555566


Q ss_pred             HHHHhhcCce
Q 000803          242 QLKKAVDGKR  251 (1277)
Q Consensus       242 ~l~~~l~~kr  251 (1277)
                      .+....+++.
T Consensus       125 VLnai~~g~~  134 (300)
T COG4240         125 VLNAIARGGP  134 (300)
T ss_pred             HHHHHhcCCC
Confidence            6666666653

>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=90.65  E-value=0.24  Score=49.33  Aligned_cols=22  Identities=45%  Similarity=0.640  Sum_probs=18.9

Q ss_pred             EEEEccCCCcHHHHHHHHhccc
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~gGiGKTtLa~~~~~~~  193 (1277)
                      +.|+|..|+|||||++.+++..
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            6899999999999999998765

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=90.62  E-value=0.23  Score=50.60  Aligned_cols=25  Identities=20%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             CeEEEEEEccCCCcHHHHHHHHhcc
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       168 ~~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..++|.|+|++|+|||||++.+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3578999999999999999999764

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=90.62  E-value=1.5  Score=54.46  Aligned_cols=22  Identities=36%  Similarity=0.575  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHhc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~  191 (1277)
                      ..|+|+|..|+||||||+.+..
T Consensus       500 e~vaIvG~SGsGKSTL~KLL~g  521 (709)
T COG2274         500 EKVAIVGRSGSGKSTLLKLLLG  521 (709)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999865

>PRK00300 gmk guanylate kinase; Provisional

Probab=90.57  E-value=0.2  Score=52.38  Aligned_cols=24  Identities=29%  Similarity=0.456  Sum_probs=21.7

Q ss_pred             eEEEEEEccCCCcHHHHHHHHhcc
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~gGiGKTtLa~~~~~~  192 (1277)
                      ..+++|+|+.|+||||||+.++..
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            368999999999999999999874

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=90.52  E-value=0.44  Score=45.33  Aligned_cols=99  Identities=17%  Similarity=0.301  Sum_probs=45.2

Q ss_pred             hhcCCCCeeeEEecCCCCCCCCC-cCCCCCCccceeeccCCccccccc-cccccccCcEEEecCCcCccccch-hhcccc
Q 000803          547 DLLPKFKKLRLLSLQGYYIGELP-IPFEDLRLLRYLNLADTDIRSLPE-SSCSLLNLEILILRNCSSLIKLPS-KIRRLI  623 (1277)
Q Consensus       547 ~~~~~l~~Lr~L~L~~~~i~~lp-~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~lp~-~i~~L~  623 (1277)
                      ..|..+..|+.+.+.. .+..++ ..|..+.+|+.+.+.++ +..++. .+....+|+.+.+.+  .+..++. .+..+.
T Consensus         6 ~~F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~--~~~~i~~~~F~~~~   81 (129)
T PF13306_consen    6 NAFYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN--NLKSIGDNAFSNCT   81 (129)
T ss_dssp             TTTTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS--TT-EE-TTTTTT-T
T ss_pred             HHHhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc--cccccccccccccc
Confidence            3455666666666663 455553 44666667777777664 555544 455555677777754  3444443 345567


Q ss_pred             CcCeeeecCccccccCCCC-CCCCCCCccc
Q 000803          624 NLCHLDIRGAILLKEMPFG-MKELKNLQTL  652 (1277)
Q Consensus       624 ~L~~L~l~~~~~l~~~p~~-i~~L~~L~~L  652 (1277)
                      +|+.+.+..+  +..++.. +.+. +|+.+
T Consensus        82 ~l~~i~~~~~--~~~i~~~~f~~~-~l~~i  108 (129)
T PF13306_consen   82 NLKNIDIPSN--ITEIGSSSFSNC-NLKEI  108 (129)
T ss_dssp             TECEEEETTT---BEEHTTTTTT--T--EE
T ss_pred             cccccccCcc--ccEEchhhhcCC-CceEE
Confidence            7777776543  3344433 3343 45444

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=90.49  E-value=1.2  Score=46.16  Aligned_cols=25  Identities=36%  Similarity=0.348  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcccc
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       170 ~vi~I~G~gGiGKTtLa~~~~~~~~  194 (1277)
                      .+|+|.|..|+||||+|+.+.+...
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~   28 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQ   28 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5799999999999999999987543

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.

>PHA02774 E1; Provisional

Probab=90.46  E-value=1  Score=52.92  Aligned_cols=38  Identities=16%  Similarity=0.108  Sum_probs=27.8

Q ss_pred             CCeEEEEEEccCCCcHHHHHHHHhccccccccCCcceEEEEEeC
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVS  210 (1277)
Q Consensus       167 ~~~~vi~I~G~gGiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~s  210 (1277)
                      ++-..+.|+|++|.|||.+|..+.+-..      -..+.||+..
T Consensus       432 PKknciv~~GPP~TGKS~fa~sL~~~L~------G~vi~fvN~~  469 (613)
T PHA02774        432 PKKNCLVIYGPPDTGKSMFCMSLIKFLK------GKVISFVNSK  469 (613)
T ss_pred             CcccEEEEECCCCCCHHHHHHHHHHHhC------CCEEEEEECc
Confidence            3446899999999999999999987421      1245667653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	1277
4fcg_A	328	Structure Of The Leucine-Rich Repeat Domain Of The		2e-06
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		2e-04

>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii Effector Xcv3220 (Xopl) Length = 328

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 47/161 (29%), Positives = 71/161 (44%), Gaps = 27/161 (16%)
Query: 956  LRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKG--KLPSSLKSLQIENLT 1013
            LR L I     L  LPE +   ++  E   +    SL+    G   LP+S+ +LQ     
Sbjct: 152  LRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQ----N 207
Query: 1014 LESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSL 1073
            L+SLKIR+ P L+ L   IH L  LE+L +R C  L + P        I+  + P     
Sbjct: 208  LKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPP-------IFGGRAP----- 254
Query: 1074 AEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKEC 1114
                    +  + +  C  L  LP  +H+L  L+ L ++ C
Sbjct: 255  --------LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGC 287

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 75/318 (23%), Positives = 127/318 (39%), Gaps = 47/318 (14%)
Query: 172 IPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATC 231
           + I GM G GK+ LA E   D ++ +        WV V    D   +   L    T    
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQNLCTRLDQ 208
Query: 232 DLKTVDEVQVQLKKAVDGKRF---------LLVLDDVWNEDYSLWVDLKAPFLAAAPNSK 282
           D      + + +++A D  R          LL+LDDVW+     WV       A     +
Sbjct: 209 DESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----WV-----LKAFDSQCQ 259
Query: 283 MIITTRNSHVA-STMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVG 341
           +++TTR+  V  S MGP     +E  L  +      +     +  +  E + S    ++ 
Sbjct: 260 ILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHS----IIK 315
Query: 342 KCGGLPLAAKTLGGLLRT--TTYDMWDDILDSKIWDLPRQSS------ILPVLRLSYHHL 393
           +C G PL    +G LLR     ++ +   L +K +   R+SS      +   + +S   L
Sbjct: 316 ECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEML 375
Query: 394 PSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSI 453
              +K  +   +I  KD +   K L  LW            E+++D+      + V++S+
Sbjct: 376 REDIKDYYTDLSILQKDVKVPTKVLCILW--------DMETEEVEDI----LQEFVNKSL 423
Query: 454 F--QRTGFGSSKFAMHDL 469
               R G  S ++ +HDL
Sbjct: 424 LFCDRNG-KSFRYYLHDL 440

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	1277
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-114
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-105
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-50
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-19
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-11
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	8e-21
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-20
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-13
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-12
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-10
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-13
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-13
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-11
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	6e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	9e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-05
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	7e-10
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-10
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-06
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-09
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	3e-07
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	7e-06
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	9e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-09
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	4e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	8e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-06
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-06
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-08
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-08
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	1e-07
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	9e-07
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-07
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-07
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	6e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	6e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	5e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	9e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	8e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	1e-05
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	3e-05
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	8e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	3e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-06
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	1e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-06
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	8e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	4e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	6e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	8e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	5e-06
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	7e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	9e-06
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-05
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	7e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	8e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	3e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	4e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-05
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	6e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	5e-04
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	2e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	5e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-04

>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 =  369 bits (949), Expect = e-114
 Identities = 94/607 (15%), Positives = 182/607 (29%), Gaps = 94/607 (15%)

Query: 45  KLIQAVLRDAEEKQLTDEAVKMWLDDLQD---LACDAEDILDEFATQALEHKLMAEGLDQ 101
              +  L    E    D      +D +     L    E+ +    TQ     ++ + + +
Sbjct: 3   AKARNCLLQHREALEKDIKTSYIMDHMISDGFLTISEEEKVRNEPTQQQRAAMLIKMILK 62

Query: 102 PGSS-------KLCKQRIE-------------LGLQLIPGGTSSTAAAQRRPPSSSVPTE 141
             +         L  +  +                      +  T+  +       VP  
Sbjct: 63  KDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQR 122

Query: 142 PVVF-GREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGK 200
           PVVF  R++    I + +             + I GM G GK+ LA E   D ++ +   
Sbjct: 123 PVVFVTRKKLVNAIQQKLS----KLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCF 178

Query: 201 FDVKAWVCVSDDFDV--LSISKALLESITSATCDLK----TVDEVQVQLKK--AVDGKRF 252
                WV V        L   + L   +       +     ++E + +L+        R 
Sbjct: 179 PGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRS 238

Query: 253 LLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMG--PIDHYNLEHLLDD 310
           LL+LDDVW+                    ++++TTR+  V  ++            L  +
Sbjct: 239 LLILDDVWDSWV--LKAF-------DSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKE 289

Query: 311 DCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTT--TYDMWDDI 368
               I        +              ++ +C G PL    +G LLR     ++ +   
Sbjct: 290 KGLEILSLFVNMKKAD-----LPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQ 344

Query: 369 LDSKIWDLPRQSS------ILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLW 422
           L +K +   R+SS      +   + +S   L   +K  +   +I  KD +   K L  LW
Sbjct: 345 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILW 404

Query: 423 IAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSK-FAMHDLVHALAQLVSGET 481
                           +       + V++S+      G S  + +HDL        +   
Sbjct: 405 DMET------------EEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQ 452

Query: 482 IFRLEEDNSSSRRFERVRHSSYACGELDG---RNKFKVFYEIEHLRTFLPLHKTDYIITC 538
           +  L +   +  +     H+     E                +  +    L  +   I  
Sbjct: 453 LQDLHKKIITQFQRYHQPHTLSPDQEDCMYWYNFLAYHMASAKMHKELCALMFSLDWIKA 512

Query: 539 YITSMVLYDLLPKFKK----------------LRLLSLQGYYIGELPIPFEDLRLLRYLN 582
               +    L+ +F +                   LSL G+ +G  P P  ++  L    
Sbjct: 513 KTELVGPAHLIHEFVEYRHILDEKDCAVSENFQEFLSLNGHLLGRQPFP--NIVQLGLCE 570

Query: 583 LADTDIR 589
              +++ 
Sbjct: 571 PETSEVY 577

>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 =  343 bits (880), Expect = e-105
 Identities = 75/550 (13%), Positives = 161/550 (29%), Gaps = 83/550 (15%)

Query: 50  VLRDAEEKQLTDEAVKMWLDDLQDLACDAEDILDEFATQALEHKLMAEGLD--------- 100
            L  A  + + D   +  L  L+      ED  +  +  +   + +A  L          
Sbjct: 9   ALSTAHTRLIHDFEPRDALTYLEGKNIFTEDHSELISKMSTRLERIANFLRIYRRQASEL 68

Query: 101 -----------QPGSSKLCKQRIELGLQ-------LIPGGTSSTAAAQRRPPSSSVPTEP 142
                      Q   +   +  I+  +        ++     S     R+    +VP + 
Sbjct: 69  GPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQM 128

Query: 143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFD 202
             + RE    ++++ +      D      + + G  G GK+ +A +  +         +D
Sbjct: 129 TCYIREYHVDRVIKKLDEMCDLDS---FFLFLHGRAGSGKSVIASQALSKSDQLIGINYD 185

Query: 203 VKAWVCVSDDF---------DVLSISKALLESITSATCDLKTVDEVQVQLKKA-VDGKRF 252
              W+  S            D+L + K+  + +   + +  T   ++  +  A +D    
Sbjct: 186 SIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNT 245

Query: 253 LLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTM-GPIDHYNLEHLLDDD 311
           L V DDV  E+   W              + ++TTR+  +++      +   +  L  D+
Sbjct: 246 LFVFDDVVQEETIRWAQEL--------RLRCLVTTRDVEISNAASQTCEFIEVTSLEIDE 297

Query: 312 CWSIFKTHAFEGRDHNAL-EISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDI-- 368
           C+   + +           ++      K +    G P             T++    +  
Sbjct: 298 CYDFLEAYGMPMPVGEKEEDVL----NKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNN 353

Query: 369 -LDSKIWDLPRQ------SSILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFL 421
            L+S+              S+   L+     L    +   A+  + P   +   K    +
Sbjct: 354 KLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIPVKLWSCV 413

Query: 422 WIAGGIIRQSSNNEQLKDLGSQCFHDLVSRSIFQRTGFGSSK-FAMHDLVHALAQLVSG- 479
                   +    EQL D  +     L  R             F +  ++H   + V   
Sbjct: 414 IPVDICSNE---EEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDA 470

Query: 480 ---ETIFRLEEDN----SSSRRFERVRHSSYA--------CGELDGRNKFKVFYEIEHLR 524
                   + E       ++      RH              E+  +   +     E   
Sbjct: 471 QTIANGISILEQRLLEIGNNNVSVPERHIPSHFQKFRRSSASEMYPKTTEETVIRPEDFP 530

Query: 525 TFLPLHKTDY 534
            F+ LH+  Y
Sbjct: 531 KFMQLHQKFY 540

>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 =  195 bits (495), Expect = 1e-50
 Identities = 101/622 (16%), Positives = 202/622 (32%), Gaps = 134/622 (21%)

Query: 46  LIQAVLRDAEEKQL-----TDEAVKMWLDDLQDLACDAEDILDEFATQALE--HKLMAEG 98
           + +++L   E   +                L       E+++ +F  + L   +K +   
Sbjct: 41  MPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS---KQEEMVQKFVEEVLRINYKFLMSP 97

Query: 99  LDQPGSSKLCKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEP---VVFGREEDKTKIL 155
           +         +Q         P   +     QR    +         V   R +   K+ 
Sbjct: 98  I-----KTEQRQ---------PSMMTRMYIEQRDRLYNDNQVFAKYNVS--RLQPYLKLR 141

Query: 156 EMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWV----CVSD 211
           + +L    A +     + I G+ G GKT +A +V     V+    F +  W+    C S 
Sbjct: 142 QALLELRPAKN-----VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI-FWLNLKNCNSP 195

Query: 212 DFDVLSISKALLESITSATCDLK--------TVDEVQVQLKKAVDGKRF---LLVLDDVW 260
           +  VL + + LL  I                 +  +Q +L++ +  K +   LLVL +V 
Sbjct: 196 E-TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ 254

Query: 261 NEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPID--HYNLEH----LLDDDCWS 314
           N          A F     + K+++TTR   V   +      H +L+H    L  D+  S
Sbjct: 255 NA----KA-WNA-F---NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305

Query: 315 IFKTHAFEGRDHNALEIS-ESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKI 373
           +             L+   +   ++V       P     +   +R      WD+      
Sbjct: 306 LLL---------KYLDCRPQDLPREV---LTTNPRRLSIIAESIRDGL-ATWDNWKHVNC 352

Query: 374 WDLPRQSSILPVLRLSYHHL-PSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGIIRQSS 432
             L        ++  S + L P+  ++ F   ++FP         L  +W          
Sbjct: 353 DKLTT------IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW------FDVI 400

Query: 433 NNEQLKDLGSQCFHDLVSRSIFQRTGFGSSKFAMHDLVHALAQLVSGETIFRLEEDNSSS 492
            ++ +  +     + L   S+ ++     S  ++  +      L       +++ +N  +
Sbjct: 401 KSDVMVVV-----NKLHKYSLVEKQPK-ESTISIPSI-----YLE-----LKVKLENEYA 444

Query: 493 --RRF-ERVR-HSSYACGELDGRNKFKVFYE-IE-HLRTFLPLHKTDYIITCYITSMVLY 546
             R   +      ++   +L      + FY  I  HL+      +           MV  
Sbjct: 445 LHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF------RMVFL 498

Query: 547 DLLPKF--KKLRLLSLQGYYIGELPIPFEDLRLLR-YLNLADTDIRSLPESSCSLLNLEI 603
           D   +F  +K+R  S      G +    + L+  + Y+     D     E    L+N  +
Sbjct: 499 DF--RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYI----CDNDPKYE---RLVNAIL 549

Query: 604 LILRNCSSLIKLPSKIRRLINL 625
             L      + + SK   L+ +
Sbjct: 550 DFLPKIEENL-ICSKYTDLLRI 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 = 93.4 bits (231), Expect = 3e-19
 Identities = 121/708 (17%), Positives = 220/708 (31%), Gaps = 186/708 (26%)

Query: 627  HLDIRGAILLKEMPFGMKELKNLQT-LSNFVVGKGGETASGLEDLK---ILKFLSGELCI 682
            H+D        E  +  K++  L      FV           ++     +       L  
Sbjct: 6    HMDFE----TGEHQYQYKDI--LSVFEDAFV-----------DNFDCKDVQDMPKSILSK 48

Query: 683  SGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQP-YKFVKE- 740
              + ++  SK+A    L          L W     + ++E+ ++ V  VL+  YKF+   
Sbjct: 49   EEIDHIIMSKDAVSGTL---------RLFW--TLLSKQEEMVQKFVEEVLRINYKFLMSP 97

Query: 741  ---------LTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRD--- 788
                     +  + Y   R  L+  + +F+K NV  L              L  LR    
Sbjct: 98   IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ-----ALLELRPAKN 152

Query: 789  LTIKRMTNLKSIGCEFFGK-------CFSEPFQSLEILSFE-YLPEWERWDTNVDRNEHV 840
            + I  +     +G    GK       C S   Q    + F+ +      W    + N   
Sbjct: 153  VLIDGV-----LGS---GKTWVALDVCLSYKVQCK--MDFKIF------WLNLKNCNSPE 196

Query: 841  EIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLK--FSLSSYPMLCRLEADEC- 897
             +   LQKL     P  + +  +   ++K  + S   +L+       Y   C L      
Sbjct: 197  TVLEMLQKLLYQIDPNWTSR-SDHSSNIKLRIHSIQAELRRLLKSKPYEN-CLLVLLNVQ 254

Query: 898  -KELL------CRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALD 950
              +        C+      L+   T     +  +          +      T T      
Sbjct: 255  NAKAWNAFNLSCKI-----LL---TTRFKQV-TDFLSAATTTHISLDHHSMTLTPDEVKS 305

Query: 951  FFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIE 1010
                 L+YL        + LP E++  N R  S+ I                  +S++  
Sbjct: 306  LL---LKYLDCRP----QDLPREVLTTNPRRLSI-IA-----------------ESIRDG 340

Query: 1011 NLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESI-PKGLH---KLRSIY--- 1063
              T ++ K  +C +LT +      L  LE    R      S+ P   H    L S+    
Sbjct: 341  LATWDNWKHVNCDKLTTIIESS--LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD 398

Query: 1064 -IKKCPSLV-------SLAEKGLPN---TISHVTISYCEKLDALPNGMHKLQSLQYLKIK 1112
             IK    +V       SL EK       +I  + +    KL+     +H+   + +  I 
Sbjct: 399  VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA-LHR-SIVDHYNIP 456

Query: 1113 ECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFP 1172
            +      F  +              +D   Y     +  H     IG  ++     E   
Sbjct: 457  KT-----FDSDDLIPPY--------LD--QY-----FYSH-----IGHHLKNIEHPERM- 490

Query: 1173 DEEMRMMLPASLTFLILRRL-SKLKYLSSMGFQSLTSLEHLLIEDCPNLTSF--PEVGLP 1229
                RM+      FL  R L  K+++  S  + +  S+ + L         +        
Sbjct: 491  -TLFRMV------FLDFRFLEQKIRH-DSTAWNASGSILNTLQ-QLKFYKPYICDNDPKY 541

Query: 1230 SSLLSLEIKNCPKLRKQCKRDRGKEWSKIARIPCVKIDDKFIYDPEAE 1277
              L++  +   PK+ +     +  +  +IA +     +D+ I++ EA 
Sbjct: 542  ERLVNAILDFLPKIEENLICSKYTDLLRIALMA----EDEAIFE-EAH 584

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 67.6 bits (164), Expect = 2e-11
 Identities = 91/575 (15%), Positives = 177/575 (30%), Gaps = 136/575 (23%)

Query: 211 DDFDVLSISKALLESITSATCD--LKTVDEVQ--------VQLKKAVDGKRFLLVLDDVW 260
           D+FD   +       ++    D  + + D V         +  K+    ++F   +++V 
Sbjct: 31  DNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF---VEEVL 87

Query: 261 NEDYS-LWVDLKAPFLAAAPNSKMIITTRNSHVASTMGPIDHYNLEHLLDDDCWSIFKTH 319
             +Y  L   +K      +  ++M I  R+  + +       YN+  L       + +  
Sbjct: 88  RINYKFLMSPIKTEQRQPSMMTRMYIEQRDR-LYNDNQVFAKYNVSRL--QPYLKL-RQA 143

Query: 320 AFEGRDHNALEISESFRKKVV----GKCGGLPLAAKTLGGLLRTTTYDMWDDILDSKI-W 374
             E R            K V+       G   +A           +Y +    +D KI W
Sbjct: 144 LLELRPA----------KNVLIDGVLGSGKTWVALDVC------LSYKV-QCKMDFKIFW 186

Query: 375 -DLPRQSS----ILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGG--- 426
            +L   +S    +  + +L Y   P+   R      I        + EL  L  +     
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI-KLRIHSIQAELRRLLKSKPYEN 245

Query: 427 ---IIRQSSNNEQLKDLGSQCFHDLV-SRSIFQRTGFGSSKFAMH-DLVHALAQLVSGET 481
              ++    N +        C   L+ +R   Q T F S+    H  L H    L   E 
Sbjct: 246 CLLVLLNVQNAKAWNAFNLSC-KILLTTRFK-QVTDFLSAATTTHISLDHHSMTLTPDEV 303

Query: 482 --IFR--LEEDNSSSRRFERVRHSSYAC---GEL--DGRNKFKVF--YEIEHLRTFLPLH 530
             +    L+       R E +  +        E   DG   +  +     + L T     
Sbjct: 304 KSLLLKYLDCRPQDLPR-EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT----- 357

Query: 531 KTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDI-- 588
               II   +  +   +    F +L +            IP   L L+ + ++  +D+  
Sbjct: 358 ----IIESSLNVLEPAEYRKMFDRLSVFPP------SAHIPTILLSLI-WFDVIKSDVMV 406

Query: 589 -------RSL-----PESSCSLLNLEILILRNCSSLIKLPSKIRRLIN----LCHLDIRG 632
                   SL      ES+ S+ ++ + +     +   L    R +++        D   
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH---RSIVDHYNIPKTFDSDD 463

Query: 633 AILLKE-------MPFGMKELKNLQTLS---------NFVVGK-------GGETASGLED 669
            I           +   +K +++ + ++          F+  K          + S L  
Sbjct: 464 LIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT 523

Query: 670 LKILKFLSGELCISGLQNVNDSKNAREAALCEKLN 704
           L+ LKF    +C        D+    E  +   L+
Sbjct: 524 LQQLKFYKPYIC--------DNDPKYERLVNAILD 550

>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 = 98.7 bits (246), Expect = 8e-21
 Identities = 86/405 (21%), Positives = 147/405 (36%), Gaps = 56/405 (13%)

Query: 88  QALEHKLMAEGLDQPGSSKLCKQRIELGLQLIPGGTSSTAAAQRRPPSSSVPTEPVVF-G 146
            AL H+   + L     S L       G     G TS     +       VP  PV+F  
Sbjct: 73  NALLHEGY-KDLAALLQSGLPLVSSSSGKDTDGGITSFV---RTVLCEGGVPQRPVIFVT 128

Query: 147 REEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAW 206
           R++    I + +          +  I   GM G GK+ LA E   D ++ +        W
Sbjct: 129 RKKLVHAIQQKLWKLN--GEPGWVTI--YGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHW 184

Query: 207 VCVSDDFD------VLSISKALLESITSATCDLKTVDEVQVQLKKAVDGK--RFLLVLDD 258
           V +           + ++   L +  + +      ++E + +L+  +  K  R LL+LDD
Sbjct: 185 VSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDD 244

Query: 259 VWNEDYSLWVDLKAPFLAAAPNSKMIITTRN-SHVASTMGPIDHYNLEH-LLDDDCWSIF 316
           VW+              A     ++++TTR+ S   S MGP     +E  L  +    I 
Sbjct: 245 VWDPWV---------LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEIL 295

Query: 317 KTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMWDDIL----DSK 372
               F       L         ++ +C G PL    +G LLR    + W   L    + +
Sbjct: 296 --SLFVNMKKEDLPAE---AHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQ 349

Query: 373 IWDLPRQSS-----ILPVLRLSYHHLPSHLKRCFAYCAIFPKDFEFDEKELVFLWIAGGI 427
              + + SS     +   + +S   L   +K  +   +I  KD +   K L  LW     
Sbjct: 350 FKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW----- 404

Query: 428 IRQSSNNEQLKDLGSQCFHDLVSRS-IFQRTGFGSSKFAMHDLVH 471
                  E+++D+      + V++S +F      S  + +HDL  
Sbjct: 405 ---DLETEEVEDI----LQEFVNKSLLFCNRNGKSFCYYLHDLQV 442

>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 = 91.9 bits (229), Expect = 5e-20
 Identities = 67/384 (17%), Positives = 118/384 (30%), Gaps = 91/384 (23%)

Query: 865  LPSLKTLVVSKCQKLKF---SLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSL 921
                + L       L+     LS +      + +           +S   +  T +  +L
Sbjct: 11   SSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAW--RQANSNNPQIETRTGRAL 68

Query: 922  DINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRL 981
                                  T     D        L +  +  L   P++     S L
Sbjct: 69   --------------------KATADLLEDATQPGRVALELRSVP-LPQFPDQAF-RLSHL 106

Query: 982  ESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDL 1041
            + + I     L      +LP +++        LE+L +     L  L + I  L  L +L
Sbjct: 107  QHMTIDAA-GLM-----ELPDTMQQFA----GLETLTLARN-PLRALPASIASLNRLREL 155

Query: 1042 HIRNCPKLESIPKGLHKLRSIY-IKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGM 1100
             IR CP+L  +P+ L    +    +   +L SL             + +   + +LP  +
Sbjct: 156  SIRACPELTELPEPLASTDASGEHQGLVNLQSL------------RLEWT-GIRSLPASI 202

Query: 1101 HKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGL 1160
              LQ+L+ LKI+    + +                               +H L  L  L
Sbjct: 203  ANLQNLKSLKIRNS-PLSALGPA---------------------------IHHLPKLEEL 234

Query: 1161 SIEECHDAESFPDE--EMRMMLPASLTFLILRRLSKLKYL-SSMGFQSLTSLEHLLIEDC 1217
             +  C    ++P             L  LIL+  S L  L   +    LT LE L +  C
Sbjct: 235  DLRGCTALRNYPPIFGGRA-----PLKRLILKDCSNLLTLPLDIH--RLTQLEKLDLRGC 287

Query: 1218 PNLTSFP-EVGLPSSLLSLEIKNC 1240
             NL+  P  +    +   + +   
Sbjct: 288  VNLSRLPSLIAQLPANCIILVPPH 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 = 80.8 bits (200), Expect = 3e-16
 Identities = 56/304 (18%), Positives = 92/304 (30%), Gaps = 61/304 (20%)

Query: 954  RNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLT 1013
                 L     + LR   + +    S+ +  Y                 S       N  
Sbjct: 12   SGRENLYFQGSTALRPYHDVL----SQWQRHYNADR---------NRWHSAWRQ--ANSN 56

Query: 1014 LESLKIRDCPQLTCLSSGIHLL--EALEDLHIRNCPKLESIPKG---LHKLRSIYIKKCP 1068
               ++ R    L   +  +          L +R+   L   P     L  L+ + I    
Sbjct: 57   NPQIETRTGRALKATADLLEDATQPGRVALELRSV-PLPQFPDQAFRLSHLQHMTIDAA- 114

Query: 1069 SLVSLAEKGLPNTISHVT------ISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSE 1122
             L+      LP+T+          ++    L ALP  +  L  L+ L I+ CP +    E
Sbjct: 115  GLME-----LPDTMQQFAGLETLTLARN-PLRALPASIASLNRLRELSIRACPELTELPE 168

Query: 1123 EGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPA 1182
                               +           L +L  L +E      S P     +    
Sbjct: 169  P------------------LASTDASGEHQGLVNLQSLRLEWTG-IRSLPASIANL---Q 206

Query: 1183 SLTFLILRRLSKLKYL-SSMGFQSLTSLEHLLIEDCPNLTSFPE-VGLPSSLLSLEIKNC 1240
            +L  L +R  S L  L  ++    L  LE L +  C  L ++P   G  + L  L +K+C
Sbjct: 207  NLKSLKIRN-SPLSALGPAIH--HLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDC 263

Query: 1241 PKLR 1244
              L 
Sbjct: 264  SNLL 267

>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 = 79.2 bits (196), Expect = 8e-16
 Identities = 27/114 (23%), Positives = 46/114 (40%)

Query: 540 ITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLL 599
           + S            L+ L L+   I  LP    +L+ L+ L + ++ + +L  +   L 
Sbjct: 170 LASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLP 229

Query: 600 NLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
            LE L LR C++L   P        L  L ++    L  +P  +  L  L+ L 
Sbjct: 230 KLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLD 283

>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 = 74.2 bits (183), Expect = 3e-14
 Identities = 30/101 (29%), Positives = 49/101 (48%), Gaps = 1/101 (0%)

Query: 553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLAD-TDIRSLPESSCSLLNLEILILRNCSS 611
           + L+ L ++   +  L      L  L  L+L   T +R+ P        L+ LIL++CS+
Sbjct: 206 QNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSN 265

Query: 612 LIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL 652
           L+ LP  I RL  L  LD+RG + L  +P  + +L     +
Sbjct: 266 LLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCII 306

>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 = 71.1 bits (175), Expect = 4e-13
 Identities = 47/259 (18%), Positives = 82/259 (31%), Gaps = 53/259 (20%)

Query: 551 KFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCS 610
                  L L+   + + P     L  L+++ +    +  LP++      LE L L    
Sbjct: 79  TQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN- 137

Query: 611 SLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDL 670
            L  LP+ I  L  L  L IR    L E+P  +                       L+ L
Sbjct: 138 PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGL---------VNLQSL 188

Query: 671 KI----LKFLSGELC-ISGLQNVNDSKNARE---AALCEKLNLEALSLEWGSQFDNSRDE 722
           ++    ++ L   +  +  L+++    +       A+     LE L L   +   N    
Sbjct: 189 RLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRN---- 244

Query: 723 VAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLP-SLG 781
                                       +P   G    + +  L L DC N  +LP  + 
Sbjct: 245 ----------------------------YPPIFGG--RAPLKRLILKDCSNLLTLPLDIH 274

Query: 782 LLSSLRDLTIKRMTNLKSI 800
            L+ L  L ++   NL  +
Sbjct: 275 RLTQLEKLDLRGCVNLSRL 293

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 67.7 bits (166), Expect = 5e-12
 Identities = 47/279 (16%), Positives = 90/279 (32%), Gaps = 48/279 (17%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRL--LRYLNLADTDIRSLPESSCSLLNLEILIL 606
                  ++ +  G  +       ED        L L    +   P+ +  L +L+ + +
Sbjct: 52  QANSNNPQIETRTGRALKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTI 111

Query: 607 RNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASG 666
                L++LP  +++   L  L +     L+ +P  +  L  L+ LS             
Sbjct: 112 DAA-GLMELPDTMQQFAGLETLTLARN-PLRALPASIASLNRLRELS------------- 156

Query: 667 LEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKL-NLEALSLEWGSQFDNSRDEVAE 725
           +     L  L   L            +   +   + L NL++L LE           +  
Sbjct: 157 IRACPELTELPEPLA-----------STDASGEHQGLVNLQSLRLE-----WTGIRSLPA 200

Query: 726 EQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLP-SLGLLS 784
              +  L   + +K L I+    +     I      K+  L+L  C    + P   G  +
Sbjct: 201 S--IANL---QNLKSLKIRNSPLSALGPAIHH--LPKLEELDLRGCTALRNYPPIFGGRA 253

Query: 785 SLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEY 823
            L+ L +K  +NL ++      +        LE L    
Sbjct: 254 PLKRLILKDCSNLLTL-PLDIHRL-----TQLEKLDLRG 286

>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 = 63.8 bits (156), Expect = 1e-10
 Identities = 27/81 (33%), Positives = 39/81 (48%), Gaps = 2/81 (2%)

Query: 553 KKLRLLSLQGY-YIGELPIPFEDLRLLRYLNLAD-TDIRSLPESSCSLLNLEILILRNCS 610
            KL  L L+G   +   P  F     L+ L L D +++ +LP     L  LE L LR C 
Sbjct: 229 PKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCV 288

Query: 611 SLIKLPSKIRRLINLCHLDIR 631
           +L +LPS I +L   C + + 
Sbjct: 289 NLSRLPSLIAQLPANCIILVP 309

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 51.1 bits (123), Expect = 1e-06
 Identities = 66/457 (14%), Positives = 115/457 (25%), Gaps = 143/457 (31%)

Query: 590  SLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNL 649
            S           E L  +  ++L      + +     + D                  N 
Sbjct: 3    SSHHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQA----NSNNP 58

Query: 650  QTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALS 709
            Q  +                 + LK  +  L  +                   L L ++ 
Sbjct: 59   QIETR--------------TGRALKATADLLEDATQPGR------------VALELRSVP 92

Query: 710  LEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELD 769
            L                                       +FP        S +  + +D
Sbjct: 93   LP--------------------------------------QFPDQAFR--LSHLQHMTID 112

Query: 770  DCWNCTSLP-SLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWE 828
                   LP ++   + L  LT+ R   L+++               L  LS    PE  
Sbjct: 113  AA-GLMELPDTMQQFAGLETLTLAR-NPLRAL-PASIASL-----NRLRELSIRACPELT 164

Query: 829  RWDTNVDRNEHVEIFPRLQKLSI--VECPELSGKVPE---LLPSLKTLVVSKCQKLKFSL 883
                 +   +       L  L    +E   +   +P     L +LK+L +     L    
Sbjct: 165  ELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPASIANLQNLKSLKIRNSP-LSALG 222

Query: 884  SSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQT- 942
             +   L +LE                           LD+ GC           + L+  
Sbjct: 223  PAIHHLPKLE--------------------------ELDLRGC-----------TALRNY 245

Query: 943  -ETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLP 1001
                          L+ LI+ + S L +LP +I    ++LE L +  C +L      +LP
Sbjct: 246  PPIFGGR-----APLKRLILKDCSNLLTLPLDI-HRLTQLEKLDLRGCVNLS-----RLP 294

Query: 1002 SSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEAL 1038
            S +  L         + +    Q        H   A 
Sbjct: 295  SLIAQLP----ANCIILVPPHLQAQLDQ---HRPVAR 324

>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 = 43.8 bits (104), Expect = 2e-04
 Identities = 56/357 (15%), Positives = 112/357 (31%), Gaps = 83/357 (23%)

Query: 575 LRLLRYLNLAD-TDIRSLPESSCSL-------------------LNLEILILRNCSSLIK 614
                 L     T +R   +                         N   +  R   +L  
Sbjct: 11  SSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKA 70

Query: 615 LPSKIRRL--INLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKI 672
               +          L++R    L + P     L +LQ ++             ++    
Sbjct: 71  TADLLEDATQPGRVALELRSV-PLPQFPDQAFRLSHLQHMT-------------IDAAG- 115

Query: 673 LKFLSGELC-ISGLQNVNDSKNARE---AALCEKLNLEALSLEWGSQFDNSRDEVAEEQV 728
           L  L   +   +GL+ +  ++N      A++     L  LS+    +     + +A    
Sbjct: 116 LMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDA 175

Query: 729 LGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLP-SLGLLSSLR 787
            G  Q    ++ L ++  G    P  I +     +  L++ +    ++L  ++  L  L 
Sbjct: 176 SGEHQGLVNLQSLRLEWTGIRSLPASIAN--LQNLKSLKIRNS-PLSALGPAIHHLPKLE 232

Query: 788 DLTIKRMTNLKSIGCEFFGKCFSEPFQSLEIL------SFEYLPEWERWDTNVDRNEHVE 841
           +L ++  T L++     FG         L+ L      +   LP               +
Sbjct: 233 ELDLRGCTALRNY-PPIFGGR-----APLKRLILKDCSNLLTLPL--------------D 272

Query: 842 I--FPRLQKLSIVECPELSGKVPEL---LPSLKTLVVSKC------QKLKFSLSSYP 887
           I    +L+KL +  C  LS ++P L   LP+   ++V         Q    +  + P
Sbjct: 273 IHRLTQLEKLDLRGCVNLS-RLPSLIAQLPANCIILVPPHLQAQLDQHRPVARPAEP 328

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 72.8 bits (179), Expect = 3e-13
 Identities = 110/544 (20%), Positives = 190/544 (34%), Gaps = 82/544 (15%)

Query: 555  LRLLSLQGYYIGELPI-PFEDLRLLRYLNLADTDIRSLPESSCS-LLNLEILILRNCSSL 612
             + L L    +  L    F     L+ L+L+  +I+++ + +   L +L  LIL   + +
Sbjct: 30   TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTG-NPI 88

Query: 613  IKLPSKI-RRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS----NFVVGKGGETASGL 667
              L       L +L  L      L     F +  LK L+ L+         K  E  S L
Sbjct: 89   QSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNL 148

Query: 668  EDLKILKFLSG----ELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEV 723
             +L+ L  LS      +  + L+ ++         L   L+L            N  + +
Sbjct: 149  TNLEHL-DLSSNKIQSIYCTDLRVLHQMPL-----LNLSLDLS----------LNPMNFI 192

Query: 724  AEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLL 783
                  G  +  +   +LT+         L +       +  LE+        L      
Sbjct: 193  QP----GAFKEIRL-HKLTL---RNNFDSLNVMKTCIQGLAGLEVHR----LVLGEFRNE 240

Query: 784  SSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIF 843
             +L       +  L ++  E F   + + +    I  F  L     +       E V+ F
Sbjct: 241  GNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDF 300

Query: 844  PRLQKLSIVECPELS-GKVPEL-LPSLKTLVVSKCQ-KLKFSLSSYPMLCRLEADECKEL 900
                    +E      G+ P L L SLK L  +  +    FS    P L  L+       
Sbjct: 301  SYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLD------- 353

Query: 901  LCRTPIDSKLIKSMTISNSS----LDINGCEGMLHASRTSSSLLQTETI---SNALDFFP 953
            L R  +  K   S +   ++    LD++    ++  S     L Q E +    + L    
Sbjct: 354  LSRNGLSFKGCCSQSDFGTTSLKYLDLSFNG-VITMSSNFLGLEQLEHLDFQHSNLKQMS 412

Query: 954  --------RNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLK 1005
                    RNL YL IS  +  R     I +  S LE L +    S +      + + L+
Sbjct: 413  EFSVFLSLRNLIYLDISH-THTRVAFNGIFNGLSSLEVLKMAGN-SFQENFLPDIFTELR 470

Query: 1006 SLQIENLTLESLKIRDCPQLTCLSSGI-HLLEALEDLHIRNCPKLESIPKG----LHKLR 1060
            +L         L +  C QL  LS    + L +L+ L++ +  +L+S+P G    L  L+
Sbjct: 471  NLTF-------LDLSQC-QLEQLSPTAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTSLQ 521

Query: 1061 SIYI 1064
             I++
Sbjct: 522  KIWL 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 = 52.4 bits (126), Expect = 9e-07
 Identities = 32/137 (23%), Positives = 52/137 (37%), Gaps = 14/137 (10%)

Query: 551 KFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSL---PESSCSLLNLEILILR 607
           K K L+ L+      G       DL  L +L+L+   +       +S     +L+ L L 
Sbjct: 323 KLKSLKRLTFTSNKGGNAF-SEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381

Query: 608 NCSSLIKLPSKIRRLINLCHLDIRG---AILLKEMPFGMKELKNLQTL---SNFVVGKGG 661
               +I + S    L  L HLD +      + +   F    L+NL  L            
Sbjct: 382 FN-GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVF--LSLRNLIYLDISHTHTRVAFN 438

Query: 662 ETASGLEDLKILKFLSG 678
              +GL  L++LK ++G
Sbjct: 439 GIFNGLSSLEVLK-MAG 454

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 47.8 bits (114), Expect = 2e-05
 Identities = 63/407 (15%), Positives = 122/407 (29%), Gaps = 78/407 (19%)

Query: 865  LPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCR---TPIDSKLIKSMTISNSSL 921
            L +L+ L +S  +      +   +L ++        L       I     K + +    L
Sbjct: 148  LTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLH--KL 205

Query: 922  DINGCEGMLHASRTS-SSLLQTETISNALDFFPR--NLRYLIISEISTLRSLPEEIMDNN 978
             +      L+  +T    L   E     L  F    NL     S +  L +L  E     
Sbjct: 206  TLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLA 265

Query: 979  S----------------RLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDC 1022
                              + S  +    +++ V         + L++ N           
Sbjct: 266  YLDYYLDDIIDLFNCLTNVSSFSLVSV-TIERVKDFSYNFGWQHLELVNCKFGQFPTLKL 324

Query: 1023 PQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYI----KKCPSLVSLAEKGL 1078
              L  L+               N          L  L  + +           S ++ G 
Sbjct: 325  KSLKRLT--------FTSNKGGNAFSEV----DLPSLEFLDLSRNGLSFKGCCSQSDFGT 372

Query: 1079 PNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGF---PTNLKLIRIG 1135
             + + ++ +S+   +  + +    L+ L++L  +   ++   SE        NL  + I 
Sbjct: 373  TS-LKYLDLSFN-GVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDIS 429

Query: 1136 GGVDAKMYKAVIQWG-LHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLI------ 1188
                   +  V   G  + L+SL  L +      E+F  +    +   +LTFL       
Sbjct: 430  H-----THTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTEL--RNLTFLDLSQCQL 482

Query: 1189 -------------LRRLS----KLKYLSSMGFQSLTSLEHLLIEDCP 1218
                         L+ L+    +LK +    F  LTSL+ + +   P
Sbjct: 483  EQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHTNP 529

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 43.2 bits (102), Expect = 5e-04
 Identities = 21/128 (16%), Positives = 38/128 (29%), Gaps = 12/128 (9%)

Query: 539 YITSMVLYDLLPKFKKLRLLSLQGYYIGELPIP-FEDLRLLRY----LNLADTDIRSLPE 593
            I S  L +       L  L L    I  +       L  +      L+L+   +  +  
Sbjct: 135 LIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQP 194

Query: 594 SSCSLLNLEILILRNCSSLIKLPSKI------RRLINLCHLDIRGAILLKEMPFG-MKEL 646
            +   + L  L LRN    + +            +  L   + R    L++     ++ L
Sbjct: 195 GAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGL 254

Query: 647 KNLQTLSN 654
            NL     
Sbjct: 255 CNLTIEEF 262

>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 = 73.3 bits (180), Expect = 4e-13
 Identities = 110/677 (16%), Positives = 201/677 (29%), Gaps = 104/677 (15%)

Query: 538  CYITSMVLYDLLPKFKKLRLLSLQGYYIGEL--PIPFEDLRLLRYLNLADTDIRSLPESS 595
             YI + V     P  ++L+LL L   Y         F +L  LR L+L  + I  L   +
Sbjct: 34   NYIRT-VTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDA 92

Query: 596  -CSLLNLEILILRNC--SSLIKLPSKIRRLINLCHLDIRG-AILLKEMPFGMKELKNLQT 651
               L +L  L L  C  S  +      R L  L  LD+    I    +     +L +L++
Sbjct: 93   FQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKS 152

Query: 652  L---SNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEAL 708
            +   SN +          LE L+        L  + L +       +       + LE L
Sbjct: 153  IDFSSNQIFLVCEHE---LEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEIL 209

Query: 709  SLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLEL 768
             +                    V     F   ++  +             L    +++  
Sbjct: 210  DV--------------SGNGWTVDITGNFSNAISKSQA----------FSLILAHHIMGA 245

Query: 769  DDCWNCTSLPSLGLLSSLRDLTIKRMT----NLKSIGCEFFGKCFSEPFQSLEILSFEY- 823
               ++    P     + L   +++ +      + S+    F     E  + L++L+  Y 
Sbjct: 246  GFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVF-----ETLKDLKVLNLAYN 300

Query: 824  ----LPEWERWDTNVDRNEHVEIFPRLQKLSIVECP--ELSGKVPELLPSLKTLVVSKCQ 877
                +            +E       LQ L++      EL       LP +  + + K  
Sbjct: 301  KINKIA-----------DEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNH 349

Query: 878  KLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCE-GMLHASRTS 936
                   ++  L +L+                          +LD+       +H   + 
Sbjct: 350  IAIIQDQTFKFLEKLQ--------------------------TLDLRDNALTTIHFIPSI 383

Query: 937  SSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVT 996
              +  +      L         + +SE           +     L+ L +         +
Sbjct: 384  PDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQN-RFSSCS 442

Query: 997  KGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIP--- 1053
              + PS   SL+   L L    ++   +          L  L+ L++ +   L S+P   
Sbjct: 443  GDQTPSENPSLEQ--LFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHN-YLNSLPPGV 499

Query: 1054 -KGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIK 1112
               L  LR + +     L  L+   LP  +  + IS   +L A    +    SL  L I 
Sbjct: 500  FSHLTALRGLSLNSN-RLTVLSHNDLPANLEILDISRN-QLLAPNPDV--FVSLSVLDIT 555

Query: 1113 ECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFP 1172
                I       F   L    +           V         SL  LS E C + E   
Sbjct: 556  HNKFICECELSTFINWLNHTNVTIAGPPADIYCVYP-DSFSGVSLFSLSTEGCDEEEVLK 614

Query: 1173 DEEMRMMLPASLTFLIL 1189
              +  + +  ++T  + 
Sbjct: 615  SLKFSLFIVCTVTLTLF 631

>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 = 52.1 bits (125), Expect = 1e-06
 Identities = 52/301 (17%), Positives = 101/301 (33%), Gaps = 48/301 (15%)

Query: 955  NLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTL 1014
            ++R+L +S    + SL   + +    L+ L + Y   +  +        L +LQ      
Sbjct: 267  SVRHLDLSHGF-VFSLNSRVFETLKDLKVLNLAYN-KINKIADEAF-YGLDNLQ------ 317

Query: 1015 ESLKIRDCPQLTCLSSGI-HLLEALEDLHIRNCPKLESIP----KGLHKLRSIY-----I 1064
              L +     L  L S   + L  +  + ++    +  I     K L KL+++      +
Sbjct: 318  -VLNLSYN-LLGELYSSNFYGLPKVAYIDLQKN-HIAIIQDQTFKFLEKLQTLDLRDNAL 374

Query: 1065 KKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEG 1124
                 + S+ +  L    S   +    K++   N +H    L   +++    +       
Sbjct: 375  TTIHFIPSIPDIFL----SGNKLVTLPKINLTANLIH----LSENRLENLDILYFLLR-- 424

Query: 1125 FPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSL------IGLSIEECHDAESFPDEEMRM 1178
               +L+++ +     +             L  L      + L+ E     + F       
Sbjct: 425  -VPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEG----- 478

Query: 1179 MLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIK 1238
             L   L  L L   + L  L    F  LT+L  L +     LT      LP++L  L+I 
Sbjct: 479  -LS-HLQVLYLNH-NYLNSLPPGVFSHLTALRGLSLNSN-RLTVLSHNDLPANLEILDIS 534

Query: 1239 N 1239
             
Sbjct: 535  R 535

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 68.2 bits (167), Expect = 1e-11
 Identities = 83/548 (15%), Positives = 171/548 (31%), Gaps = 113/548 (20%)

Query: 549  LPKFKKLRLLSLQGYYIGELPI-PFEDLRLLRYLNLADTDIRSLPESSCS-LLNLEILIL 606
            L     L++L L+   I  +    F  L  L +L+L+D  + SL  S    L +L+ L L
Sbjct: 46   LRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL 105

Query: 607  RNCS-SLIKLPSKIRRLINLCHLDIRGAILLKEMPFGM-KELKNLQTLSNFVVGKGGETA 664
                   + + S    L NL  L I       E+       L +L  L            
Sbjct: 106  MGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELE----------- 154

Query: 665  SGLEDLKILKFLSGELC-ISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEV 723
              ++ L +  + S  L  I  + ++    +              L   +     + R   
Sbjct: 155  --IKALSLRNYQSQSLKSIRDIHHLTLHLS----------ESAFLLEIFADILSSVRYLE 202

Query: 724  AEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSLGLL 783
              +  L   Q      +              +    F    + +         L  +  L
Sbjct: 203  LRDTNLARFQFSPLPVD---------EVSSPMKKLAFRGSVLTDESFNELLKLLRYILEL 253

Query: 784  SSLR--DLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVE 841
            S +   D T+  + +      +   +       ++  L       +       D +    
Sbjct: 254  SEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFY------DLSTVYS 307

Query: 842  IFPRLQKLSIVECP--ELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKE 899
            +  +++++++       +     + L SL+ L +S+                        
Sbjct: 308  LLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENL---------------------- 345

Query: 900  LLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRT---SSSLLQTETISNALDFFP--R 954
                            +    L  + C+G   + +T   S + L+  ++    +     +
Sbjct: 346  ----------------MVEEYLKNSACKGAWPSLQTLVLSQNHLR--SMQKTGEILLTLK 387

Query: 955  NLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSL-----QI 1009
            NL  L IS  +T   +P+       ++  L +     ++ V    +P +L+ L      +
Sbjct: 388  NLTSLDISR-NTFHPMPDSC-QWPEKMRFLNLSST-GIRVVKTC-IPQTLEVLDVSNNNL 443

Query: 1010 ENLT-----LESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKG----LHKLR 1060
            ++ +     L+ L I    +L  L     L   L  + I    +L+S+P G    L  L+
Sbjct: 444  DSFSLFLPRLQELYISRN-KLKTLPDAS-LFPVLLVMKISRN-QLKSVPDGIFDRLTSLQ 500

Query: 1061 SIYIKKCP 1068
             I++   P
Sbjct: 501  KIWLHTNP 508

>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 = 59.7 bits (145), Expect = 4e-09
 Identities = 70/457 (15%), Positives = 142/457 (31%), Gaps = 72/457 (15%)

Query: 775  TSLPSLGL---LSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWD 831
             +L    L   L++L+ L I  +     I    F         SL  L  +         
Sbjct: 111  QTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDF-----AGLTSLNELEIKA-------- 157

Query: 832  TNVDRNEHVEIFPRLQKLSIV-----ECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSY 886
                RN   +    ++ +  +     E   L     ++L S++ L +      +F  S  
Sbjct: 158  -LSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPL 216

Query: 887  PMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGC--EGMLHASRTSSSLLQTET 944
            P+       +          D    + + +    L+++    +          +  +++ 
Sbjct: 217  PVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDV 276

Query: 945  ISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSL 1004
            +S         +R L I +   L      +     +++ + +     +  V        L
Sbjct: 277  VSELGKVETVTIRRLHIPQFY-LFYDLSTVYSLLEKVKRITVENS-KVFLVPCS-FSQHL 333

Query: 1005 KSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYI 1064
            KSL+   L L    + +         G     +L+ L +     L S+ K    L     
Sbjct: 334  KSLEF--LDLSENLMVEEYLKNSACKG--AWPSLQTLVLSQN-HLRSMQKTGEIL----- 383

Query: 1065 KKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEG 1124
                +L SL             IS       +P+     + +++L +      +   +  
Sbjct: 384  LTLKNLTSL------------DISRN-TFHPMPDSCQWPEKMRFLNLSSTG--IRVVKTC 428

Query: 1125 FPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLS---IEECHDAESFPDEEMRMMLP 1181
             P  L+++ +                L RL  L  +S   ++   DA  FP         
Sbjct: 429  IPQTLEVLDVSN-----NNLDSFSLFLPRLQELY-ISRNKLKTLPDASLFP--------- 473

Query: 1182 ASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCP 1218
              L  + + R ++LK +    F  LTSL+ + +   P
Sbjct: 474  -VLLVMKISR-NQLKSVPDGIFDRLTSLQKIWLHTNP 508

>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 = 59.0 bits (143), Expect = 6e-09
 Identities = 97/566 (17%), Positives = 192/566 (33%), Gaps = 97/566 (17%)

Query: 570  IPFEDLRLLRYLNLADTDIRSLPESSCSLL-NLEILILRNCSSLIKLPSKI-RRLINLCH 627
            IP      ++ L+L+   I  +         NL++LIL++   +  +       L +L H
Sbjct: 20   IPSGLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSS-RINTIEGDAFYSLGSLEH 78

Query: 628  LDIRGAILLKEMPFGM-KELKNLQTLS----NFVVGKGGETASGLEDLKILKFLSGELCI 682
            LD+     L  +       L +L+ L+     +           L +L+ L         
Sbjct: 79   LDLSD-NHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTL--------- 128

Query: 683  SGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELT 742
              + NV      R        +L  L +              + Q L  ++    +  LT
Sbjct: 129  -RIGNVETFSEIRRIDFAGLTSLNELEI------KALSLRNYQSQSLKSIRD---IHHLT 178

Query: 743  IKRYGGARFPLWIGDPLFSKMNVLELDDCW----NCTSLPSLGLLSSLRDLTIK--RMTN 796
            +     A       D L S +  LEL D        + LP   + S ++ L  +   +T+
Sbjct: 179  LHLSESAFLLEIFADIL-SSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTD 237

Query: 797  LKSIG-CEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECP 855
                   +             +  +   L ++   +++V           +++L I +  
Sbjct: 238  ESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFY 297

Query: 856  --ELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKS 913
                   V  LL  +K + V   +           +  +     + L             
Sbjct: 298  LFYDLSTVYSLLEKVKRITVENSK-----------VFLVPCSFSQHLK------------ 334

Query: 914  MTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDF-FPRNLRYLIIS--EISTLRSL 970
               S   LD+            S +L+  E + N+       +L+ L++S   + +++  
Sbjct: 335  ---SLEFLDL------------SENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKT 379

Query: 971  PEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSS 1030
              EI+     L SL I    +        +P S +  +     +  L +     +  + +
Sbjct: 380  G-EILLTLKNLTSLDISRN-TFH-----PMPDSCQWPE----KMRFLNLSST-GIRVVKT 427

Query: 1031 GIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYC 1090
             I   + LE L + N   L+S    L +L+ +YI +   L +L +  L   +  + IS  
Sbjct: 428  CI--PQTLEVLDVSNN-NLDSFSLFLPRLQELYISRN-KLKTLPDASLFPVLLVMKISRN 483

Query: 1091 EKLDALPNG-MHKLQSLQYLKIKECP 1115
             +L ++P+G   +L SLQ + +   P
Sbjct: 484  -QLKSVPDGIFDRLTSLQKIWLHTNP 508

>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 = 47.4 bits (113), Expect = 3e-05
 Identities = 20/118 (16%), Positives = 50/118 (42%), Gaps = 12/118 (10%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELPIP------FEDLRLLRYLNLADTDIRSLPESSCSLL- 599
           D++ +  K+  ++++  +I +  +       +  L  ++ + + ++ +  +P S    L 
Sbjct: 275 DVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLK 334

Query: 600 NLEILILRNC---SSLIKLPSKIRRLINLCHLDIRGAIL--LKEMPFGMKELKNLQTL 652
           +LE L L         +K  +      +L  L +    L  +++    +  LKNL +L
Sbjct: 335 SLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSL 392

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 42.4 bits (100), Expect = 8e-04
 Identities = 51/328 (15%), Positives = 103/328 (31%), Gaps = 59/328 (17%)

Query: 954  RNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLT 1013
            R++ +L +  +S    L E   D  S +  L +    +L       LP    S  ++ L 
Sbjct: 172  RDIHHLTLH-LSESAFLLEIFADILSSVRYLELRDT-NLARFQFSPLPVDEVSSPMKKLA 229

Query: 1014 LESLKIRDCPQLTCLSSGIHLLEALEDLHIRNC---------PKLESIPKGLHKLRSIYI 1064
                 + D      L   +  +  L ++   +C         P    +   L K+ ++ I
Sbjct: 230  FRGSVLTDES-FNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTI 288

Query: 1065 K-------KCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGM-HKLQSLQYL-----KI 1111
            +            +S     L   +  +T+    K+  +P      L+SL++L      +
Sbjct: 289  RRLHIPQFYLFYDLSTVYSLLEK-VKRITVENS-KVFLVPCSFSQHLKSLEFLDLSENLM 346

Query: 1112 KECPSILSFSEEGFPT---------NLKLIRIGGGVDAKMYK-----------AVIQWGL 1151
             E     S  +  +P+         +L+ ++  G +   +               +    
Sbjct: 347  VEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSC 406

Query: 1152 HRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEH 1211
                 +  L++                 +P +L  L +     L   S      L  L+ 
Sbjct: 407  QWPEKMRFLNLSSTGIRVVKTC------IPQTLEVLDVSNN-NLDSFSL----FLPRLQE 455

Query: 1212 LLIEDCPNLTSFPEVGLPSSLLSLEIKN 1239
            L I     L + P+  L   LL ++I  
Sbjct: 456  LYISRN-KLKTLPDASLFPVLLVMKISR 482

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 63.1 bits (154), Expect = 4e-10
 Identities = 89/543 (16%), Positives = 162/543 (29%), Gaps = 104/543 (19%)

Query: 555  LRLLSLQGYYIGELPIP-FEDLRLLRYLNLADTDIRSLPESSCSLL-NLEILILRNCSSL 612
             + L L    +  L    F     L+ L+L+  +I+++ + +   L +L  LIL     +
Sbjct: 30   TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PI 88

Query: 613  IKLPSK-IRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS----NFVVGKGGETASGL 667
              L       L +L  L      L     F +  LK L+ L+         K  E  S L
Sbjct: 89   QSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNL 148

Query: 668  EDLKILKFLSG----ELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEV 723
             +L+ L  LS      +  + L+ ++         L   L+L    +             
Sbjct: 149  TNLEHL-DLSSNKIQSIYCTDLRVLHQMPL-----LNLSLDLSLNPMN------------ 190

Query: 724  AEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPSL-GL 782
                                          +I    F ++ + +L    N  SL  +   
Sbjct: 191  ------------------------------FIQPGAFKEIRLHKLTLRNNFDSLNVMKTC 220

Query: 783  LSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEI 842
            +  L  L + R+   +        K      + L  L+ E                  +I
Sbjct: 221  IQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEF------RLAYLDYYLDDI 274

Query: 843  FPRLQKLSIVECPELSG----KVPEL--LPSLKTLVVSKCQKLKFSLSSYPMLCRLEADE 896
                  L+ V    L      +V +       + L +  C+  +F       L RL    
Sbjct: 275  IDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTS 334

Query: 897  CKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQT--------ETISNA 948
             K     + +D   ++ + +S + L   GC      S   ++ L+          T+S+ 
Sbjct: 335  NKGGNAFSEVDLPSLEFLDLSRNGLSFKGC---CSQSDFGTTSLKYLDLSFNGVITMSSN 391

Query: 949  LDFFPRNLRYLIISE--ISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKS 1006
                   L +L      +  +      +  +   L  L I +       T+         
Sbjct: 392  FLGLE-QLEHLDFQHSNLKQM--SEFSVFLSLRNLIYLDISHTH-----TRVAFNGIFNG 443

Query: 1007 LQIENLTLESLKIRDCPQLTCLSSGI-HLLEALEDLHIRNCPKLESIP----KGLHKLRS 1061
            L     +LE LK+            I   L  L  L +  C +LE +       L  L+ 
Sbjct: 444  LS----SLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQV 498

Query: 1062 IYI 1064
            + +
Sbjct: 499  LNM 501

>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 = 48.5 bits (116), Expect = 1e-05
 Identities = 29/158 (18%), Positives = 50/158 (31%), Gaps = 33/158 (20%)

Query: 553 KKLRLLSLQG---YYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILR-- 607
             L  L L      + G           L+YL+L+   + ++  +   L  LE L  +  
Sbjct: 347 PSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHS 406

Query: 608 ------------NCSSLIKL-----------PSKIRRLINLCHLDIRG-AILLKEMPFGM 643
                       +  +LI L                 L +L  L + G +     +P   
Sbjct: 407 NLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIF 466

Query: 644 KELKNLQTL---SNFVVGKGGETASGLEDLKILKFLSG 678
            EL+NL  L      +        + L  L++L  +S 
Sbjct: 467 TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL-NMSH 503

>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 = 44.2 bits (105), Expect = 3e-04
 Identities = 55/328 (16%), Positives = 101/328 (30%), Gaps = 51/328 (15%)

Query: 955  NLRYLIISEISTLRSLPEEIMDNNSRLESLYIGY-----CGSLKFVTKGKLPSSLKSLQI 1009
             L  L +       ++ +  +   + LE   +        G+L+   K  L   L +L I
Sbjct: 201  RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSAL-EGLCNLTI 259

Query: 1010 ENLTLESLKI---------RDCPQLTCLS---------SGIHLLEALEDLHIRNCPKLES 1051
            E   L  L                ++  S                  + L + NC   + 
Sbjct: 260  EEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQF 319

Query: 1052 IPKGLHKLRSIYIKKCPSLVSLAEKGLPN-TISHVTISYCEKLDALPNGMHKLQSLQYLK 1110
                L  L+ +         + +E  LP+     ++ +                SL+YL 
Sbjct: 320  PTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLD 379

Query: 1111 IKECPSILSFSEEGFPTNLKLI-----RIGGGVDAKMYK----------------AVIQW 1149
            +     I   S       L+ +      +    +  ++                      
Sbjct: 380  LSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG 439

Query: 1150 GLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSL 1209
              + L+SL  L +      E+F  +    +   +LTFL L +  +L+ LS   F SL+SL
Sbjct: 440  IFNGLSSLEVLKMAGNSFQENFLPDIFTELR--NLTFLDLSQ-CQLEQLSPTAFNSLSSL 496

Query: 1210 EHLLIEDCPNLTSFPEVGLPSSLLSLEI 1237
            + L +    N  S         L SL++
Sbjct: 497  QVLNMSHN-NFFSLDTFPY-KCLNSLQV 522

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 43.1 bits (102), Expect = 6e-04
 Identities = 78/503 (15%), Positives = 144/503 (28%), Gaps = 106/503 (21%)

Query: 547  DLLPKFKKLRLLSLQGYYIGELPIP--FEDLRLLRYLNLADTDIRSLPESS-CSLLNLEI 603
              +   K L+ L++    I    +P  F +L  L +L+L+   I+S+  +    L  + +
Sbjct: 118  FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPL 177

Query: 604  LILR-NCS--SLIKLPSKIRRLINLCHLDIRGAILLKEMPFG-MKELKNLQTLS------ 653
            L L  + S   +  +     + I L  L +R       +    ++ L  L+         
Sbjct: 178  LNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEF 237

Query: 654  NFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWG 713
                       S LE L  L           L  ++   +          N+ + SL   
Sbjct: 238  RNEGNLEKFDKSALEGLCNLTIEE-----FRLAYLDYYLDDIIDLFNCLTNVSSFSLV-- 290

Query: 714  SQFDNSRDEVAEEQVLGVLQ------------PYKFVKELTIKRYGGARFPLWIGDPLFS 761
                 + + V +       Q            P   +K L    +   +      +    
Sbjct: 291  ---SVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLP 347

Query: 762  KMNVLELDDCWNCTS---LPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEI 818
             +  L+L             S    +SL+ L +     + ++   F G       + LE 
Sbjct: 348  SLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDL-SFNGVITMSSNFLG------LEQLEH 400

Query: 819  LSFEYLPEWERWDTNVDRNEHVEIF---PRLQKLSIVECPELSGKVPEL---LPSLKTLV 872
            L F+         +N+ +     +F     L  L I            +   L SL+ L 
Sbjct: 401  LDFQ--------HSNLKQMSEFSVFLSLRNLIYLDISHT-HTRVAFNGIFNGLSSLEVLK 451

Query: 873  VSKCQKLKFSLSSYP-MLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLH 931
            ++     +  L      L  L                            LD++ C     
Sbjct: 452  MAGNSFQENFLPDIFTELRNLT--------------------------FLDLSQC----- 480

Query: 932  ASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGS 991
                   L   +    A +    +L+ L +S  +   SL        + L+ L       
Sbjct: 481  ------QL--EQLSPTAFNSLS-SLQVLNMSHNN-FFSLDTFPYKCLNSLQVLDYSLN-H 529

Query: 992  LKFVTK---GKLPSSLKSLQIEN 1011
            +    K      PSSL  L +  
Sbjct: 530  IMTSKKQELQHFPSSLAFLNLTQ 552

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 63.0 bits (153), Expect = 5e-10
 Identities = 76/627 (12%), Positives = 159/627 (25%), Gaps = 130/627 (20%)

Query: 549  LPKFKKLRLLSLQGYYI-GELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILR 607
            L    ++  LSL G+   G +P     L  L+ L+                  L   +  
Sbjct: 319  LDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSG-RLFGDEELTPDMSE 377

Query: 608  NCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGL 667
                 I++  K   L     L++                  LQ   N             
Sbjct: 378  ERKHRIRMHYKKMFLDYDQRLNL---------------SDLLQDAINRNPEMKPIKKDSR 422

Query: 668  EDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQ 727
              LK  +  +    I+ +            A+     L+ +        ++         
Sbjct: 423  ISLKDTQIGNLTNRITFI----------SKAIQRLTKLQIIYFA-----NSPFTYDNIAV 467

Query: 728  VLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLP-SLGLLSSL 786
                       +             L   +     +  +EL +C N T LP  L  L  L
Sbjct: 468  DWEDANSDYAKQYENE--------ELSWSN--LKDLTDVELYNCPNMTQLPDFLYDLPEL 517

Query: 787  RDL---------TIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEY--LPEWERWDTNVD 835
            + L           +   +   +  +            ++I    Y  L           
Sbjct: 518  QSLNIACNRGISAAQLKADWTRLADDEDT------GPKIQIFYMGYNNL-------EEFP 564

Query: 836  RNEHVEIFPRLQKL-----SIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLC 890
             +  ++   +L  L      +                L  L +   Q     +   P   
Sbjct: 565  ASASLQKMVKLGLLDCVHNKVRHLEAFGT-----NVKLTDLKLDYNQ-----IEEIP--- 611

Query: 891  RLEADECKELLCRTPIDSKLIKSMTISN-------SSLDINGCEGM--LHASRTSSSLLQ 941
                   ++    T      ++ +  S+       +  +      M  +  S        
Sbjct: 612  -------EDFCAFTD----QVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEG 660

Query: 942  TETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYC--GSLKFVTKGK 999
                 +  D+   N   + +S    ++  P E+    S + ++ +      S+   +   
Sbjct: 661  RNISCSMDDYKGINASTVTLSYNE-IQKFPTELFATGSPISTIILSNNLMTSIPENSLKP 719

Query: 1000 LPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHL--LEALEDLHIRNCPKLESIPKG-- 1055
               + K+       L ++ +R   +LT LS       L  L ++ +       S P    
Sbjct: 720  KDGNYKNTY----LLTTIDLRFN-KLTSLSDDFRATTLPYLSNMDVSYN-CFSSFPTQPL 773

Query: 1056 -LHKLRSIYIKKCPSLVS-LAEKGLPNTISHVT------ISYCEKLDALPNGMHKLQSLQ 1107
               +L++  I+           +  P  I+         I     +  +   +     L 
Sbjct: 774  NSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSN-DIRKVDEKL--TPQLY 830

Query: 1108 YLKIKECPSILSFSEEGFPTNLKLIRI 1134
             L I + P  +S         ++    
Sbjct: 831  ILDIADNP-NISIDVTSVCPYIEAGMY 856

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 55.7 bits (134), Expect = 9e-08
 Identities = 57/439 (12%), Positives = 122/439 (27%), Gaps = 95/439 (21%)

Query: 830  WDTNVDRNEHVEIFP-------RLQKLSIVECPELSGKVPEL---LPSLKTLVVSKCQKL 879
            W+ N + +   +          R+  LS+       G+VP+    L  LK L      + 
Sbjct: 302  WNFNKELDMWGDQPGVDLDNNGRVTGLSLAGF-GAKGRVPDAIGQLTELKVLSFGTHSET 360

Query: 880  KFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMT-------ISNSSLDINGCEGMLHA 932
                         +  E ++   R       +           + ++       + +   
Sbjct: 361  VSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKD 420

Query: 933  SRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSL 992
            SR S    Q   ++N + F  + ++ L                   ++L+ +Y       
Sbjct: 421  SRISLKDTQIGNLTNRITFISKAIQRL-------------------TKLQIIYFANS--- 458

Query: 993  KFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESI 1052
                         ++  E+   +  K                L+ L D+ + NCP +  +
Sbjct: 459  ------PFTYDNIAVDWEDANSDYAKQ-----YENEELSWSNLKDLTDVELYNCPNMTQL 507

Query: 1053 PKGLHKLRSIYIKKCPSLVSLAEKGLP-NTISHVTISYCEKLDALPNGMHKLQSLQYL-- 1109
            P  L+ L        P L SL    +  N          +    L +       +Q    
Sbjct: 508  PDFLYDL--------PELQSL---NIACNRGISAAQLKAD-WTRLADDEDTGPKIQIFYM 555

Query: 1110 ---KIKECPSILSFSEEGFPTNLKLIRIGG----GVDAKMYKAVIQWGLHRLTSLIGLSI 1162
                ++E P+  S  +      L L+         ++A                L  L +
Sbjct: 556  GYNNLEEFPASASLQKM---VKLGLLDCVHNKVRHLEA----------FGTNVKLTDLKL 602

Query: 1163 EECHDAESFPDEEMRMMLPASLTFLILR--RLSKLKYLSSMGFQSLTSLEHLLIEDCPNL 1220
            +     E  P++         +  L     +L  +   +    +S+  +  +       +
Sbjct: 603  DYNQ-IEEIPEDFCAFT--DQVEGLGFSHNKLKYI--PNIFNAKSVYVMGSVDFSYN-KI 656

Query: 1221 TSFPEVGLPSSLLSLEIKN 1239
             S     +  S+   +  N
Sbjct: 657  GSEGR-NISCSMDDYKGIN 674

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 51.8 bits (124), Expect = 1e-06
 Identities = 51/357 (14%), Positives = 96/357 (26%), Gaps = 81/357 (22%)

Query: 540 ITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLL 599
           +        L K  KL LL      +  L   F     L  L L    I  +PE  C+  
Sbjct: 560 LEEFPASASLQKMVKLGLLDCVHNKVRHLE-AFGTNVKLTDLKLDYNQIEEIPEDFCAFT 618

Query: 600 -NLEILILRNCSSLIKLPSK--IRRLINLCHLD-----IRGAILLKEMPFGMKELKNLQT 651
             +E L   +   L  +P+    + +  +  +D     I              +  N  T
Sbjct: 619 DQVEGLGFSHN-KLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINAST 677

Query: 652 L---SNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEAL 708
           +    N +     E  +    +  +  LS    ++ +    +S   ++        L  +
Sbjct: 678 VTLSYNEIQKFPTELFATGSPISTII-LSN-NLMTSIP--ENSLKPKDGNYKNTYLLTTI 733

Query: 709 SLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLEL 768
            L       N                      LT                    ++ +++
Sbjct: 734 DLR-----FNK---------------------LT-------SLSDDFRATTLPYLSNMDV 760

Query: 769 DDCWNCTSLP-SLGLLSSLRDLTIKRMTNLKSIGC-----EFFGKCFSEPFQSLEILS-- 820
                 +S P      S L+   I+   + +              C      SL  L   
Sbjct: 761 SYN-CFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTC-----PSLIQLQIG 814

Query: 821 ---FEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVS 874
                 + E              ++ P+L  L I + P +S  V  + P ++  +  
Sbjct: 815 SNDIRKVDE--------------KLTPQLYILDIADNPNISIDVTSVCPYIEAGMYV 857

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 49.1 bits (117), Expect = 1e-05
 Identities = 15/121 (12%), Positives = 35/121 (28%), Gaps = 13/121 (10%)

Query: 545 LYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADT-DIRSLPESSCSLLNLEI 603
                         S          + + +L+ L  + L +  ++  LP+    L  L+ 
Sbjct: 460 FTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQS 519

Query: 604 LILRN---------CSSLIKLPSKIRRLINLCHLDIRGAILLKEMP--FGMKELKNLQTL 652
           L +            +   +L         +    +     L+E P    ++++  L  L
Sbjct: 520 LNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYN-NLEEFPASASLQKMVKLGLL 578

Query: 653 S 653
            
Sbjct: 579 D 579

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare} Length = 115

 Score = 56.8 bits (137), Expect = 7e-10
 Identities = 16/59 (27%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 29 LQGGVSSELRKWERKLKLIQAVLRDAEEKQL--TDEAVKMWLDDLQDLACDAEDILDEF 85
          L  GV   +    ++L+ + A L    E      D   K+W D++++L+   ED++D+F
Sbjct: 20 LHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKF 78

>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 = 62.3 bits (152), Expect = 8e-10
 Identities = 100/606 (16%), Positives = 188/606 (31%), Gaps = 112/606 (18%)

Query: 552  FKKLRLLSLQGYYIGELPIP-FEDLRLLRYLNLADTDIRSLPESSCSLL-NLEILILRNC 609
               + +L+L    +  LP   F     L  L++    I  L    C  L  L++L L++ 
Sbjct: 24   PTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHN 83

Query: 610  SSLIKLPSK-IRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS---NFVVGKGGETAS 665
              L +L  K      NL  L +    + K       + KNL TL    N +      T  
Sbjct: 84   -ELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQV 142

Query: 666  GLEDLKILKFLSG------------ELCISGLQNVNDSKNA----REAALCEKLNLEALS 709
             LE+L+ L  LS                 S L+ +  S N               L  L 
Sbjct: 143  QLENLQEL-LLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLF 201

Query: 710  LEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPL-FSKMNVLEL 768
            L      +        E++   L     ++ L++     +         L ++ + +L+L
Sbjct: 202  LN-----NVQLGPSLTEKLCLELANTS-IRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDL 255

Query: 769  DDCWNCTSLP--SLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPE 826
                N   +   S   L  L    +    N++ +              ++  L       
Sbjct: 256  SYN-NLNVVGNDSFAWLPQLEYFFL-EYNNIQHLFSHSLHGL-----FNVRYL------- 301

Query: 827  WERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSY 886
                  N+ R+         Q +S+   P++     + L  L+ L +             
Sbjct: 302  ------NLKRSFTK------QSISLASLPKIDDFSFQWLKCLEHLNMEDND---IPGIKS 346

Query: 887  PMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQ----- 941
             M   L                  +K +++SNS   +         S   S L       
Sbjct: 347  NMFTGLIN----------------LKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTK 390

Query: 942  ---TETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKG 998
               ++  S+A  +   +L  L +      + L  +       +  +Y+ Y      +T+ 
Sbjct: 391  NKISKIESDAFSWLG-HLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYN-KYLQLTRN 448

Query: 999  KLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIP----K 1054
               + + SLQ   L L  + +++   +    S    L  L  L + N   + +I     +
Sbjct: 449  SF-ALVPSLQR--LMLRRVALKN---VDSSPSPFQPLRNLTILDLSNN-NIANINDDMLE 501

Query: 1055 GLHKLRSIYIKKCPSLVSLAEKGLPNTISHVT----------ISYCEKLDALPNGM-HKL 1103
            GL KL  + ++   +L  L +   P    +            +      D +P  +   L
Sbjct: 502  GLEKLEILDLQHN-NLARLWKHANPGGPIYFLKGLSHLHILNLESN-GFDEIPVEVFKDL 559

Query: 1104 QSLQYL 1109
              L+ +
Sbjct: 560  FELKII 565

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 51.5 bits (124), Expect = 2e-06
 Identities = 55/358 (15%), Positives = 116/358 (32%), Gaps = 57/358 (15%)

Query: 906  IDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEIS 965
            + S  +  +  +   L++         S  S   +   +         + L +L + + +
Sbjct: 287  LFSHSLHGLF-NVRYLNLKRSFTKQSISLASLPKIDDFSFQWL-----KCLEHLNMED-N 339

Query: 966  TLRSLPEEIMDNNSRLESLYIGY-CGSLKFVTKGKLPS-SLKSLQIENL------TLESL 1017
             +  +   +      L+ L +     SL+ +T     S +   L I NL       +ES 
Sbjct: 340  DIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESD 399

Query: 1018 KIRDCPQLTCLS-SGIHLLEALEDLHIRNCPKLESIPKGLH----KLRSIY---IKKCPS 1069
                   L  L      + + L     R    +      ++    K   +        PS
Sbjct: 400  AFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFE----IYLSYNKYLQLTRNSFALVPS 455

Query: 1070 LVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFP--T 1127
            L  L        +  V +     +D+ P+    L++L  L +    +I + +++      
Sbjct: 456  LQRL-------MLRRVALK---NVDSSPSPFQPLRNLTILDLSNN-NIANINDDMLEGLE 504

Query: 1128 NLKLIRIGG----GVDAKMYKAVIQWGLHRLTSLIGLSIEECH----DAESFPDEEMRMM 1179
             L+++ +       +          + L  L+ L  L++E         E F D      
Sbjct: 505  KLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKD------ 558

Query: 1180 LPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEI 1237
            L   L  + L   + L  L +  F +  SL+ L ++    +TS  +     +  +L  
Sbjct: 559  LF-ELKIIDLGL-NNLNTLPASVFNNQVSLKSLNLQKN-LITSVEKKVFGPAFRNLTE 613

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 50.8 bits (122), Expect = 3e-06
 Identities = 84/567 (14%), Positives = 176/567 (31%), Gaps = 115/567 (20%)

Query: 547  DLLPKFKKLRLLSLQGYYIGEL-PIPFEDLRLLRYLNLADTDIRSLPESSCSLL-NLEIL 604
                    L  L L    I ++   PF   + L  L+L+   + S    +   L NL+ L
Sbjct: 91   KTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQEL 150

Query: 605  ILRNC--SSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL---SNFVVGK 659
            +L N    +L      I    +L  L++    + +  P     +  L  L   +  +   
Sbjct: 151  LLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPS 210

Query: 660  GGETASGLEDLKILKFLS--------------GELCISGLQNVNDSKNA----REAALCE 701
              E          ++ LS                L  + L  ++ S N        +   
Sbjct: 211  LTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAW 270

Query: 702  KLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFS 761
               LE   LE      N+   +        L     V+ L +KR               +
Sbjct: 271  LPQLEYFFLE-----YNNIQHLFS----HSLHGLFNVRYLNLKRS------FTKQSISLA 315

Query: 762  KMNVLELDDCWNCTSLPSLGL----LSSLRDLTIKRMTNLKSIG----CEFFGKCFSEPF 813
             +  ++         L  L +    +  ++      + NLK +             +E F
Sbjct: 316  SLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETF 375

Query: 814  QSLEILSFEYLPEWERWDTNVDRNEHVEIFP-------RLQKLSIVECP---ELSGKVPE 863
             SL       L        N+ +N+  +I          L+ L +       EL+G+   
Sbjct: 376  VSLAHSPLHIL--------NLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWR 427

Query: 864  LLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDI 923
             L ++  + +S  + L+ + +S+ ++  L+                           L +
Sbjct: 428  GLENIFEIYLSYNKYLQLTRNSFALVPSLQR--------------------------LML 461

Query: 924  NGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLES 983
                          +L   ++  +       NL  L +S  + + ++ +++++   +LE 
Sbjct: 462  RRV-----------ALKNVDSSPSPFQPLR-NLTILDLSN-NNIANINDDMLEGLEKLEI 508

Query: 984  LYIGYCGSLKFVTKGKLPSSLKSLQIENLT-LESLKIRDCPQLTCLSSG-IHLLEALEDL 1041
            L + +  +L  + K   P       ++ L+ L  L +        +       L  L+ +
Sbjct: 509  LDLQHN-NLARLWKHANPGGPIYF-LKGLSHLHILNLESN-GFDEIPVEVFKDLFELKII 565

Query: 1042 HIRNCPKLESIPK----GLHKLRSIYI 1064
             +     L ++P         L+S+ +
Sbjct: 566  DLGLN-NLNTLPASVFNNQVSLKSLNL 591

>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 = 45.8 bits (109), Expect = 1e-04
 Identities = 51/308 (16%), Positives = 113/308 (36%), Gaps = 35/308 (11%)

Query: 955  NLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQI----E 1010
            NL  L +S  + L  +  +      +LE  ++ Y  +++ +    L   L +++      
Sbjct: 249  NLTMLDLSY-NNLNVVGNDSFAWLPQLEYFFLEYN-NIQHLFSHSL-HGLFNVRYLNLKR 305

Query: 1011 NLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIP----KGLHKLRSIYI-- 1064
            + T +S+ +   P++   S     L+ LE L++ +   +  I      GL  L+ + +  
Sbjct: 306  SFTKQSISLASLPKIDDFS--FQWLKCLEHLNMEDN-DIPGIKSNMFTGLINLKYLSLSN 362

Query: 1065 --KKCPSLVSLAEKGLPNT-ISHVTISYCEKLDALPNGM-HKLQSLQYLKIKECP--SIL 1118
                  +L +     L ++ +  + ++   K+  + +     L  L+ L +        L
Sbjct: 363  SFTSLRTLTNETFVSLAHSPLHILNLTKN-KISKIESDAFSWLGHLEVLDLGLNEIGQEL 421

Query: 1119 SFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECH--DAESFPDEEM 1176
            +  E     N+  I +        Y  + +     + SL  L +      + +S P    
Sbjct: 422  TGQEWRGLENIFEIYLSYN----KYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQ 477

Query: 1177 RMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLE 1236
             +    +LT L L   + +  ++    + L  LE L ++   NL    +   P   +   
Sbjct: 478  PLR---NLTILDLSN-NNIANINDDMLEGLEKLEILDLQHN-NLARLWKHANPGGPIYF- 531

Query: 1237 IKNCPKLR 1244
            +K    L 
Sbjct: 532  LKGLSHLH 539

>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 = 60.7 bits (147), Expect = 2e-09
 Identities = 69/507 (13%), Positives = 147/507 (28%), Gaps = 96/507 (18%)

Query: 755  IGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTI--KRMTNLKSIGCEFFGKCFSEP 812
            +       +  L+LD C   T+   L +++  R +       ++      ++     ++ 
Sbjct: 132  LAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWL-HELAQH 190

Query: 813  FQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGK-VPELLPSLKTL 871
              SLE+L+F      +    ++           L  + + +   L      +   +L+  
Sbjct: 191  NTSLEVLNFYMTEFAKISPKDL--ETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEF 248

Query: 872  VVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLH 931
                  +       Y  L          L    P +  ++         LD+        
Sbjct: 249  CGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYAL---- 304

Query: 932  ASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGS 991
                    L+TE     +   P NL  L    +   R L E +     +L+ L I     
Sbjct: 305  --------LETEDHCTLIQKCP-NLEVLETRNVIGDRGL-EVLAQYCKQLKRLRIERGAD 354

Query: 992  LKFVTKGKLPSSLKSLQ--IENLT-LESLKIRDCPQLT-----CLSSGIHLLEALEDLHI 1043
             + +   +   S + L    +    LE + +     +T      + + +  L     + +
Sbjct: 355  EQGMEDEEGLVSQRGLIALAQGCQELEYMAV-YVSDITNESLESIGTYLKNLCDFRLVLL 413

Query: 1044 RNCPK---------LESIPKGLHKLRSIYIKKCPSLVSLAE-----KGLPNTISHVTISY 1089
                +         + S+  G  KLR          ++        +  PN +  + + Y
Sbjct: 414  DREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPN-VRWMLLGY 472

Query: 1090 CEKLDA-LPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQ 1148
              + D  L        +LQ L+++ C     FSE                        I 
Sbjct: 473  VGESDEGLMEFSRGCPNLQKLEMRGCC----FSERA----------------------IA 506

Query: 1149 WGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTS 1208
              + +L SL  L ++                  AS+T   L ++++             +
Sbjct: 507  AAVTKLPSLRYLWVQGYR---------------ASMTGQDLMQMAR----------PYWN 541

Query: 1209 LEHLLIEDCPNLTSFPEVGLPSSLLSL 1235
            +E +     P +    E+        +
Sbjct: 542  IELIPSRRVPEVNQQGEIREMEHPAHI 568

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 53.8 bits (129), Expect = 3e-07
 Identities = 58/422 (13%), Positives = 119/422 (28%), Gaps = 85/422 (20%)

Query: 843  FPRLQKLSIVECPELSGK----VPELLPSLKTLVVSKCQKLKFS---LSSYPMLCRLEAD 895
               L+ L + +C   +      +      +KTL++ +    +     L            
Sbjct: 137  ADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEV 196

Query: 896  ECKELLCRTPIDSKLIKSMTISNSSL---DINGCEGMLHASRTSSSLLQTETISNALDFF 952
                +     I  K ++++  +  SL    +   E +           +           
Sbjct: 197  LNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEIL-----ELVGFFK----------A 241

Query: 953  PRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENL 1012
              NL       ++    +PE+ M+     +   +G    L ++   ++P           
Sbjct: 242  AANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLG----LSYMGPNEMPILFPFAA---- 293

Query: 1013 TLESLKIRDCPQLT-CLSSGIHLLEALEDLHIRNC---PKLESIPKGLHKLRSIYIKKCP 1068
             +  L +      T    + I     LE L  RN      LE + +   +L+ + I++  
Sbjct: 294  QIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGA 353

Query: 1069 SLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTN 1128
                   +G+ +    V+      L AL  G  +L+ +          I         TN
Sbjct: 354  DE-----QGMEDEEGLVS---QRGLIALAQGCQELEYMAV----YVSDI---------TN 392

Query: 1129 LKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFL- 1187
              L  IG               L  L     + ++        P +     L      L 
Sbjct: 393  ESLESIGT-------------YLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLR 439

Query: 1188 ILRRLSKLKYLSSMGFQSLTS----LEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKL 1243
                  +   L+ +G   +      +  +L+                 L+    + CP L
Sbjct: 440  RFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESD--------EGLMEF-SRGCPNL 490

Query: 1244 RK 1245
            +K
Sbjct: 491  QK 492

>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 = 7e-06
 Identities = 57/359 (15%), Positives = 108/359 (30%), Gaps = 63/359 (17%)

Query: 897  CKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNL 956
            C+       IDS+  + +T++                      L++  +         NL
Sbjct: 41   CRRWFK---IDSETREHVTMALCYTA------TPDRLSRRFPNLRSLKLKGKPRAAMFNL 91

Query: 957  RYLIISEISTLRSLPEEIMDNNSRLESLYIGYC----GSLKFVTKGKLPSSLKSLQIENL 1012
                     T      EI +N  +L+S++          L  + K +             
Sbjct: 92   IPENWGGYVT--PWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARADD---------- 139

Query: 1013 TLESLKIRDCPQLTC--LSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSL 1070
             LE+LK+  C   T   L S +     ++ L +      E   K LH+L     +   SL
Sbjct: 140  -LETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHEL----AQHNTSL 194

Query: 1071 VSLAEKGLPNTISHVTISYCEKL--DALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTN 1128
              L          +  ++   K+    L       +SL  +K+ +   +          N
Sbjct: 195  EVL----------NFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAAN 244

Query: 1129 LKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLI 1188
            L+    G  ++  +        L     L  L +                 +P      +
Sbjct: 245  LEEFCGGS-LNEDIGMPEKYMNLVFPRKLCRLGLSYMGPN----------EMPI-----L 288

Query: 1189 LRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGL--PSSLLSLEIKNCPKLRK 1245
                ++++ L  +     T     LI+ CPNL       +     L  L  + C +L++
Sbjct: 289  FPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVL-AQYCKQLKR 346

>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 = 45.7 bits (108), Expect = 9e-05
 Identities = 72/503 (14%), Positives = 156/503 (31%), Gaps = 121/503 (24%)

Query: 578  LRYLNLADTDIRSLPESSCSLLNLEILILRNCSSL--IKLPSKIRRLINLCHLDIRGAIL 635
             R + ++D D+  L ++     +LE L L  CS      L S +     +  L +  +  
Sbjct: 119  FRRMIVSDLDLDRLAKARAD--DLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSF 176

Query: 636  LKEMPFGMKEL----KNLQTLSNFVVGKGGETASGLEDL-KILKFLSGELCISGLQNVND 690
             ++    + EL     +L+ L+ ++      +   LE + +  + L   + +   + +  
Sbjct: 177  SEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLV-SVKVGDFEILEL 235

Query: 691  SKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGAR 750
                + AA  E+    +L+ + G                    P K++  +  ++     
Sbjct: 236  VGFFKAAANLEEFCGGSLNEDIGM-------------------PEKYMNLVFPRK----- 271

Query: 751  FPLWIGDPLFSKMNVLELDDCWNCT--SLPSLG-LLSSLRDLTIKRMTNLKSIGCEFFGK 807
                           L            +P L    + +R L +          C    K
Sbjct: 272  ---------------LCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQK 316

Query: 808  CFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIF----PRLQKLSIVECPELSGK--- 860
            C      +LE+L             NV  +  +E+      +L++L I    +  G    
Sbjct: 317  C-----PNLEVLET----------RNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDE 361

Query: 861  -----------VPELLPSLKTLVVSKCQKLKFSL----SSYPMLCRLEADECKELLCRTP 905
                       + +    L+ + V        SL    +    LC         L+    
Sbjct: 362  EGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFR------LVLLDR 415

Query: 906  IDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEIS 965
             +      +     SL + GC+ +   +        T+   + +  +  N+R++++  + 
Sbjct: 416  EERITDLPLDNGVRSL-LIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVG 474

Query: 966  -TLRSLPEEIMDNNSRLESLYIGYCG----SLKFVTKGKLPSSLKSLQIEN--------- 1011
             +   L  E       L+ L +  C     ++       LPS L+ L ++          
Sbjct: 475  ESDEGL-MEFSRGCPNLQKLEMRGCCFSERAIAAAVTK-LPS-LRYLWVQGYRASMTGQD 531

Query: 1012 --------LTLESLKIRDCPQLT 1026
                      +E +  R  P++ 
Sbjct: 532  LMQMARPYWNIELIPSRRVPEVN 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 = 45.3 bits (107), Expect = 1e-04
 Identities = 58/390 (14%), Positives = 116/390 (29%), Gaps = 53/390 (13%)

Query: 520 IEHLRTFLPLHKTDYIITCYITS---MVLYDLLPKFKKLRLLSLQGYYIGE-----LPIP 571
           +  + T     KT  +     +      L++L      L +L+       +     L   
Sbjct: 156 LLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETI 215

Query: 572 FEDLRLLRYLNLADT---DIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHL 628
             + R L  + + D    ++    +++ +L       L     + +    +     LC L
Sbjct: 216 ARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRL 275

Query: 629 DIRGAILLKEMPFGMKELKNLQTLS----NFVVGKGGETASGLEDLKILKFLSGELCISG 684
            +   +   EMP        ++ L                    +L++L+     +   G
Sbjct: 276 GLSY-MGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLE-TRNVIGDRG 333

Query: 685 LQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIK 744
           L+ +        A  C+   L+ L +E G+      DE       G++   +  +EL   
Sbjct: 334 LEVL--------AQYCK--QLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYM 383

Query: 745 RYGGARF------PLWIGDPLFSKMNVLELDDCWNCTSLPSLGLLSSLRDLTIKRMTNLK 798
               +         +           ++ LD     T LP    + SL    +     L+
Sbjct: 384 AVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSL----LIGCKKLR 439

Query: 799 SI----GCEFFG----KCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLS 850
                               +   ++  +   Y+ E     ++    E     P LQKL 
Sbjct: 440 RFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGE-----SDEGLMEFSRGCPNLQKLE 494

Query: 851 IVECPELSGKVPEL---LPSLKTLVVSKCQ 877
           +  C      +      LPSL+ L V   +
Sbjct: 495 MRGCCFSERAIAAAVTKLPSLRYLWVQGYR 524

>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 = 59.9 bits (145), Expect = 3e-09
 Identities = 65/285 (22%), Positives = 100/285 (35%), Gaps = 57/285 (20%)

Query: 841  EIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKEL 900
             +   +  L I +   L+  +P L P L+TL VS  Q     L+S P+L         EL
Sbjct: 58   CLPAHITTLVIPDN-NLT-SLPALPPELRTLEVSGNQ-----LTSLPVLPP----GLLEL 106

Query: 901  ----LCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETIS-NALDFFPR- 954
                   T +   L   +      L I G +  L +       LQ  ++S N L   P  
Sbjct: 107  SIFSNPLTHL-PALPSGLC----KLWIFGNQ--LTSLPVLPPGLQELSVSDNQLASLPAL 159

Query: 955  --NLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENL 1012
               L  L       L SLP       S L+ L +     L       LP+    L     
Sbjct: 160  PSELCKLWAYNNQ-LTSLPMLP----SGLQELSVSDN-QLA-----SLPTLPSELY---- 204

Query: 1013 TLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVS 1072
                L   +  +LT L +   L   L++L +    +L S+P    +L+ + +     L S
Sbjct: 205  ---KLWAYNN-RLTSLPA---LPSGLKELIVSGN-RLTSLPVLPSELKELMVSGN-RLTS 255

Query: 1073 LAEKGLPNTISHVTISYCE--KLDALPNGMHKLQSLQYLKIKECP 1115
            L     P   S +        +L  LP  +  L S   + ++  P
Sbjct: 256  L-----PMLPSGLLSLSVYRNQLTRLPESLIHLSSETTVNLEGNP 295

>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 = 56.4 bits (136), Expect = 4e-08
 Identities = 59/302 (19%), Positives = 101/302 (33%), Gaps = 68/302 (22%)

Query: 952  FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIEN 1011
                   L + E S L +LP+ +  +   + +L I    +L  +    LP  L++L++  
Sbjct: 38   LNNGNAVLNVGE-SGLTTLPDCLPAH---ITTLVIPDN-NLTSLP--ALPPELRTLEVSG 90

Query: 1012 LTLESL--KIRDCPQLTCLSSGI----HLLEALEDLHIRNCPKLESIPKGLHKLRSIYIK 1065
              L SL        +L+  S+ +     L   L  L I    +L S+P     L+ + + 
Sbjct: 91   NQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGN-QLTSLPVLPPGLQELSVS 149

Query: 1066 KC---------PSLVSLAEKG-----LPNTISHVT---ISYCEKLDALPNGMHKLQSLQY 1108
                         L  L         LP   S +    +S   +L +LP    +L  L  
Sbjct: 150  DNQLASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDN-QLASLPTLPSELYKLWA 208

Query: 1109 L--KIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIG----LSI 1162
               ++   P+         P+ LK + + G              L  L  L      L +
Sbjct: 209  YNNRLTSLPA--------LPSGLKELIVSGN------------RLTSLPVLPSELKELMV 248

Query: 1163 EECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTS 1222
                   S P        P+ L  L + R ++L  L       L+S   + +E  P L+ 
Sbjct: 249  SGNR-LTSLPML------PSGLLSLSVYR-NQLTRLPE-SLIHLSSETTVNLEGNP-LSE 298

Query: 1223 FP 1224
              
Sbjct: 299  RT 300

>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 = 49.1 bits (117), Expect = 8e-06
 Identities = 38/152 (25%), Positives = 54/152 (35%), Gaps = 22/152 (14%)

Query: 549 LPK--FKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILIL 606
           LP      +  L +    +  LP        LR L ++   + SLP     LL L I   
Sbjct: 55  LPDCLPAHITTLVIPDNNLTSLP---ALPPELRTLEVSGNQLTSLPVLPPGLLELSIFSN 111

Query: 607 RNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASG 666
              + L  LPS       LC L I G   L  +P     L+ L    N +        + 
Sbjct: 112 PL-THLPALPS------GLCKLWIFG-NQLTSLPVLPPGLQELSVSDNQL----ASLPAL 159

Query: 667 LEDLKILKFLSGEL-----CISGLQNVNDSKN 693
             +L  L   + +L       SGLQ ++ S N
Sbjct: 160 PSELCKLWAYNNQLTSLPMLPSGLQELSVSDN 191

>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 = 47.6 bits (113), Expect = 2e-05
 Identities = 29/129 (22%), Positives = 43/129 (33%), Gaps = 22/129 (17%)

Query: 539 YITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSL 598
            I    L  L     +LR L + G  +  LP+    L  L   +   T + +LP   C L
Sbjct: 67  VIPDNNLTSLPALPPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKL 126

Query: 599 L--------------NLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMK 644
                           L+ L + +   L  LP+    L  L   + +    L  +P    
Sbjct: 127 WIFGNQLTSLPVLPPGLQELSVSDN-QLASLPALPSELCKLWAYNNQ----LTSLP---M 178

Query: 645 ELKNLQTLS 653
               LQ LS
Sbjct: 179 LPSGLQELS 187

>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 = 44.5 bits (105), Expect = 2e-04
 Identities = 29/111 (26%), Positives = 40/111 (36%), Gaps = 14/111 (12%)

Query: 545 LYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEIL 604
           L  L  +  KL   + Q   +  LP        L+ L+++D  + SLP     L  L   
Sbjct: 156 LPALPSELCKLWAYNNQ---LTSLP---MLPSGLQELSVSDNQLASLPTLPSELYKLWAY 209

Query: 605 ILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNF 655
             R    L  LP+       L  L + G   L  +P    ELK L    N 
Sbjct: 210 NNR----LTSLPALPS---GLKELIVSG-NRLTSLPVLPSELKELMVSGNR 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 = 57.7 bits (140), Expect = 2e-08
 Identities = 69/579 (11%), Positives = 145/579 (25%), Gaps = 137/579 (23%)

Query: 578  LRYLNLADTDIR-SLPESSCSLLNLEILILRN----CSSLIKLPSKIRRLINLCHLDIRG 632
            +  L+L        +P++   L  LE+L L +     +  +  P  I   ++        
Sbjct: 83   VTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMR 142

Query: 633  AILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSK 692
                K              + + +        +     K +K  S          +    
Sbjct: 143  MHYQKTFVDYDPREDFSDLIKDCI--------NSDPQQKSIKKSSRIT--LKDTQIGQLS 192

Query: 693  NARE---AALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGA 749
            N       A+     L    +   S F                                 
Sbjct: 193  NNITFVSKAVMRLTKLRQFYM-GNSPF--------------------------------- 218

Query: 750  RFPLWIGDPLFSKMNVLELDDCWNCTSLP-SLGLLSSLRDLTIKRMTNLKSIGCEFFGKC 808
                 + + +         +      +       L  L D+ +    NL  +   F    
Sbjct: 219  -----VAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLP-TFLKAL 272

Query: 809  FSEPFQSLEILSFEY--LPEWERWDTNVDRNEHVEIFPRLQKL--------------SIV 852
                   +++++         E+   +        +  ++Q +              S+ 
Sbjct: 273  -----PEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQ 327

Query: 853  ECPEL----------SGKVPEL--LPSLKTLVVSKCQ--KLKFSLSSY-PMLCRLEADEC 897
            +  +L           GK+P       L +L ++  Q  ++  +   +   +  L     
Sbjct: 328  KMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHN 387

Query: 898  KELLCRTPIDSKLIKSMTISN----SSLDINGCEGMLHASRTSSSLLQTETISNALDFFP 953
            K L         +       +    S++D +  E        S      + +     F  
Sbjct: 388  K-L-------KYIPNIFDAKSVSVMSAIDFSYNE------IGSVDGKNFDPLDPTP-FKG 432

Query: 954  RNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLT 1013
             N+  + +S    +   P+E+    S L S+ +            K     ++   +N  
Sbjct: 433  INVSSINLSNNQ-ISKFPKELFSTGSPLSSINLMGN---MLTEIPKNSLKDENENFKNTY 488

Query: 1014 -LESLKIRDCPQLTCLSSGIHL--LEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSL 1070
             L S+ +R   +LT LS       L  L  + +         P               +L
Sbjct: 489  LLTSIDLRFN-KLTKLSDDFRATTLPYLVGIDLSYN-SFSKFPTQ--------PLNSSTL 538

Query: 1071 VSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYL 1109
                        +         L   P G+    SL  L
Sbjct: 539  KGF------GIRNQRDAQGNRTLREWPEGITLCPSLTQL 571

>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 = 51.6 bits (124), Expect = 2e-06
 Identities = 77/558 (13%), Positives = 164/558 (29%), Gaps = 104/558 (18%)

Query: 536  ITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELP--IPFEDLRLLRYLNLA-DTDIRSLP 592
                        +       +   ++ +Y        P ED   L    +  D   +S+ 
Sbjct: 117  EKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIK 176

Query: 593  ESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL 652
            +SS   L    +   + +++  +   + RL  L    +  +  + E      E +N +  
Sbjct: 177  KSSRITLKDTQIGQLS-NNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYA 235

Query: 653  SNFVVGKGGETASGLEDLKILKF----LSGEL--CISGLQNVNDSKNAREAALCEKLNLE 706
              +           L+DL  ++        +L   +  L  +            + +N+ 
Sbjct: 236  QQY--KTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEM------------QLINVA 281

Query: 707  ALSLEWGSQFDNSRDEVAEEQVLGVLQP----YKFVKELTIKRYGGARFPLWIGDPLFSK 762
                  G Q  +    +A+  V   +Q     Y  +K   +           +      K
Sbjct: 282  CNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPV--------ETSLQK--MKK 331

Query: 763  MNVLELDDCWNC---TSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEIL 819
            + +LE            LP+ G    L  L +     +  I   F G       + +E L
Sbjct: 332  LGMLEC---LYNQLEGKLPAFGSEIKLASLNL-AYNQITEIPANFCGFT-----EQVENL 382

Query: 820  SFEY-----LPEWERWDT-------NVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPS 867
            SF +     +P      +       +   NE       +   +         K      +
Sbjct: 383  SFAHNKLKYIPNIFDAKSVSVMSAIDFSYNE----IGSVDGKNFDPLDPTPFK----GIN 434

Query: 868  LKTLVVSKCQ---KLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISN----SS 920
            + ++ +S  Q     K   S+   L  +        L   P +S   ++    N    +S
Sbjct: 435  VSSINLSNNQISKFPKELFSTGSPLSSINLMGNM--LTEIPKNSLKDENENFKNTYLLTS 492

Query: 921  LDINGCE-GMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNS 979
            +D+   +   L     +++L                L  + +S  S     P + + N+S
Sbjct: 493  IDLRFNKLTKLSDDFRATTL--------------PYLVGIDLSYNS-FSKFPTQPL-NSS 536

Query: 980  RLESLYIGYCGSLKFVTK-GKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEAL 1038
             L+   I      +      + P  +        +L  L+I     +  ++  I     +
Sbjct: 537  TLKGFGIRNQRDAQGNRTLREWPEGITLCP----SLTQLQIGSN-DIRKVNEKI--TPNI 589

Query: 1039 EDLHIRNCPKLESIPKGL 1056
              L I++ P +      +
Sbjct: 590  SVLDIKDNPNISIDLSYV 607

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 49.7 bits (119), Expect = 6e-06
 Identities = 83/649 (12%), Positives = 179/649 (27%), Gaps = 182/649 (28%)

Query: 554  KLRLLSLQGYYI-GELPIPFEDLRLLRYLNLADTDIR-----SLPESSCSLLNLEILILR 607
            ++  LSL+G+   G +P     L  L  L L     +       P+   + ++ E     
Sbjct: 82   RVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKM 141

Query: 608  NCSSLIKLPSKIRRLI--NLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETAS 665
                         R    +L    I      K +    +       +             
Sbjct: 142  RMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIG------------ 189

Query: 666  GLEDLKILKFLSGELC-ISGLQNVNDSKNA-REAALCEKLNLEALSLEWGSQFDNSRDEV 723
                   + F+S  +  ++ L+      +      +CE       + E+  Q+       
Sbjct: 190  -QLSNN-ITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWEN--ENSEYAQQYKT----- 240

Query: 724  AEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLP-SLGL 782
                                         L   +     +  +E+ +C N T LP  L  
Sbjct: 241  ---------------------------EDLKWDN--LKDLTDVEVYNCPNLTKLPTFLKA 271

Query: 783  LSSLR--DLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRN--E 838
            L  ++  ++   R  + + +  ++     +   + ++I+              +  N  +
Sbjct: 272  LPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQII-------------YIGYNNLK 318

Query: 839  HVEI---FPRLQKLSIVECPE--LSGKVPEL--LPSLKTLVVS-------------KCQK 878
               +     +++KL ++EC    L GK+P       L +L ++               ++
Sbjct: 319  TFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQ 378

Query: 879  LKF------SLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISN---SSLDINGCEGM 929
            ++        L   P     +A     +            ++  S     S+D    + +
Sbjct: 379  VENLSFAHNKLKYIP--NIFDAKSVSVM-----------SAIDFSYNEIGSVDGKNFDPL 425

Query: 930  LHASRTSSSLLQTETI---SNALDFFP-------RNLRYLIISE-------ISTLRSLPE 972
                    ++    +I   +N +  FP         L  + +          ++L+   E
Sbjct: 426  DPTPFKGINV---SSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENE 482

Query: 973  EIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLT-LESLKIRDCPQLTCLSSG 1031
                N   L S+ + +          KL       +   L  L  + +      +   + 
Sbjct: 483  NF-KNTYLLTSIDLRFN---------KLTKLSDDFRATTLPYLVGIDLSYN-SFSKFPTQ 531

Query: 1032 IHLLEALEDLHIRNCPKL------ESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHV 1085
                  L+   IRN             P+G        I  CPSL  L            
Sbjct: 532  PLNSSTLKGFGIRNQRDAQGNRTLREWPEG--------ITLCPSLTQLQ----------- 572

Query: 1086 TISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRI 1134
             I     +  +   +    ++  L IK+ P  +S         ++    
Sbjct: 573  -IGSN-DIRKVNEKI--TPNISVLDIKDNP-NISIDLSYVCPYIEAGMY 616

>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 = 48.5 bits (116), Expect = 1e-05
 Identities = 50/441 (11%), Positives = 109/441 (24%), Gaps = 121/441 (27%)

Query: 830  WDTNVDRNEHVEIFP-------RLQKLSIVECPELSGKVPE---LLPSLKTLVVSKCQKL 879
            W+ N + +              R+  LS+      SG+VP+    L  L+ L +    + 
Sbjct: 60   WNFNKELDMWGAQPGVSLNSNGRVTGLSLEGF-GASGRVPDAIGQLTELEVLALGSHGEK 118

Query: 880  KFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSL 939
                   P          K +      + K    M    + +D +  E      +   + 
Sbjct: 119  VNERLFGP----------KGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINS 168

Query: 940  LQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGK 999
               +               +     + +  + + +M   ++L   Y+G            
Sbjct: 169  DPQQKSIKKSSRITLKDTQIGQLSNN-ITFVSKAVM-RLTKLRQFYMGNS---------P 217

Query: 1000 LPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKL 1059
              +       EN   E  +     Q          L+ L D+ + NCP L  +P  L   
Sbjct: 218  FVAENICEAWENENSEYAQ-----QYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKA- 271

Query: 1060 RSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYL-----KIKEC 1114
                                                       L  +Q +     +    
Sbjct: 272  -------------------------------------------LPEMQLINVACNRGISG 288

Query: 1115 PSILS----FSEEGFPTNLKLI-----RIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEEC 1165
              +       ++      +++I      +            ++  L ++  L  L     
Sbjct: 289  EQLKDDWQALADAPVGEKIQIIYIGYNNLKTF--------PVETSLQKMKKLGMLECLYN 340

Query: 1166 HDAESFPDEEMRMMLPASLTFLILR--RLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSF 1223
               E              L  L L   +++++   ++        +E+L       L   
Sbjct: 341  Q-LEGKLPAFGSE---IKLASLNLAYNQITEI--PANF-CGFTEQVENLSFAHN-KLKYI 392

Query: 1224 PEVGLPSSLLSLEIKNCPKLR 1244
            P           + K+   + 
Sbjct: 393  PN--------IFDAKSVSVMS 405

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 57.6 bits (139), Expect = 2e-08
 Identities = 54/399 (13%), Positives = 111/399 (27%), Gaps = 78/399 (19%)

Query: 783  LSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEI 842
              + + L +       + G             +L+ L        +     +  +   + 
Sbjct: 129  FKNFKVLVLSSCEGFSTDGLAAIAATCR----NLKELDLRESDVDDVSGHWL--SHFPDT 182

Query: 843  FPRLQKLSIVECPELSG-----KVPELLPSLKTLVVSKC---QKLKFSLSSYPMLCRLEA 894
            +  L  L+I             ++    P+LK+L +++    +KL   L   P L  L  
Sbjct: 183  YTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGT 242

Query: 895  DECKELLCRTPIDSKLIKSMTISNSSLDINGC-----EGMLHASRTSSSL---------L 940
                    R  + S L  +++       ++G        +       S L         +
Sbjct: 243  GGYTAE-VRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATV 301

Query: 941  QTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGK- 999
            Q+  +   L   P  L+ L + +      L E +      L  L +              
Sbjct: 302  QSYDLVKLLCQCP-KLQRLWVLDYIEDAGL-EVLASTCKDLRELRVFPSEPFVMEPNVAL 359

Query: 1000 -------LPSSLKSLQI-----ENLTLESLK--IRDCPQLTCLS---------------- 1029
                   +      L+        +T  +L    R+ P +T                   
Sbjct: 360  TEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEP 419

Query: 1030 --SGIHLL----EALEDLHIRNC---PKLESIPKGLHKLRSIYIKKCP----SLVSLAEK 1076
               G   +    + L  L +         E I     K+  + +         +  +   
Sbjct: 420  LDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVL-S 478

Query: 1077 GLPNTISHVTISYCEKLD-ALPNGMHKLQSLQYLKIKEC 1114
            G  + +  + I  C   D AL     KL++++ L +  C
Sbjct: 479  GCDS-LRKLEIRDCPFGDKALLANASKLETMRSLWMSSC 516

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 57.2 bits (138), Expect = 2e-08
 Identities = 74/518 (14%), Positives = 138/518 (26%), Gaps = 112/518 (21%)

Query: 771  CWNCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERW 830
                  + S+ L           + +        + +  S  +  LE +  + +      
Sbjct: 62   IRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVV---- 117

Query: 831  DTNVDRNEHVEIFPRLQKLSIVECPELSGK----VPELLPSLKTLVVSKCQKLKFSLSSY 886
             T+       + F   + L +  C   S      +     +LK L + +      S    
Sbjct: 118  -TDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWL 176

Query: 887  PMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETIS 946
                         L+                  SL+I+     +    + S+L   E + 
Sbjct: 177  SHFPDT----YTSLV------------------SLNISCLASEV----SFSAL---ERLV 207

Query: 947  NALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKS 1006
                    NL+ L ++    L  L   ++    +LE L  G   +     +  + S L  
Sbjct: 208  TRC----PNLKSLKLNRAVPLEKL-ATLLQRAPQLEELGTGGYTAE---VRPDVYSGLSV 259

Query: 1007 LQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPK----LESIPKGLHKLRSI 1062
                   L  L          L +   +   L  L++         L  +     KL+ +
Sbjct: 260  ALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRL 319

Query: 1063 YI-------------KKCPSLVSLAEKGLPNTISHVTISYCEK-LDALPNGMHKLQSLQY 1108
            ++               C  L  L        +    ++  E+ L ++  G  KL+S+  
Sbjct: 320  WVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESV-- 377

Query: 1109 LKIKECPSI----LSFSEEGFP--TNLKLIRIGGGVDAKMYKAVIQWGLHRL----TSLI 1158
              +  C  +    L       P  T  +L  I       +    +  G   +      L 
Sbjct: 378  --LYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLR 435

Query: 1159 GLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMG-----------FQSLT 1207
             LS+          D+             I     K++ LS                   
Sbjct: 436  RLSLSGLLT-----DKVFEY---------IGTYAKKMEMLSVAFAGDSDLGMHHVLSGCD 481

Query: 1208 SLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKNCPKLRK 1245
            SL  L I DCP            +LL+        +R 
Sbjct: 482  SLRKLEIRDCPFGD--------KALLAN-ASKLETMRS 510

>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 = 54.9 bits (132), Expect = 1e-07
 Identities = 72/533 (13%), Positives = 155/533 (29%), Gaps = 68/533 (12%)

Query: 604  LILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGET 663
            + + NC ++    + IRR   +  ++++G     +                +V       
Sbjct: 48   VFIGNCYAVS-PATVIRRFPKVRSVELKGKPHFADFNL------VPDGWGGYVYPWIEAM 100

Query: 664  ASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEV 723
            +S    L+ ++     +    L+ +        A   +  N + L L     F       
Sbjct: 101  SSSYTWLEEIRLKRMVVTDDCLELI--------AKSFK--NFKVLVLSSCEGFSTDG--- 147

Query: 724  AEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLE---LDDCWNCTSLPSL 780
                +  +    + +KEL ++                     L    +    +  S  +L
Sbjct: 148  ----LAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSAL 203

Query: 781  GLLS----SLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDR 836
              L     +L+ L + R   L+ +      +        LE L         R D     
Sbjct: 204  ERLVTRCPNLKSLKLNRAVPLEKLA-TLLQRA-----PQLEELGTGGYTAEVRPDVYSGL 257

Query: 837  NEHVEIFPRLQKLSIVECPELSG--KVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEA 894
            +  +     L+ LS       +    V  +   L TL +S      + L    +LC+   
Sbjct: 258  SVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVK--LLCQCPK 315

Query: 895  DECKELLCRTPIDSKLIKSMTISNS---SLDINGCEGMLHASRTSSSLLQTETISNALDF 951
             +   L     I+   ++ +  +      L +   E  +     + +     ++S     
Sbjct: 316  LQ--RLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGC-- 371

Query: 952  FPRNLRYLIISEIS-TLRSLPEEIMDNNSRLESLYIGYCGSLK--FVTKGKLPSSLKSLQ 1008
                L  ++      T  +L   I  N   +    +         ++T   L     ++ 
Sbjct: 372  --PKLESVLYFCRQMTNAAL-ITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIV 428

Query: 1009 IENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPK----LESIPKGLHKLRSIYI 1064
                 L  L +                + +E L +         +  +  G   LR + I
Sbjct: 429  EHCKDLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEI 488

Query: 1065 KKCP----SLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKL-QSLQYLKIK 1112
            + CP    +L++ A   L   +  + +S C            L Q +  L ++
Sbjct: 489  RDCPFGDKALLANA-SKLET-MRSLWMSSCSVSFG---ACKLLGQKMPKLNVE 536

>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 = 52.2 bits (125), Expect = 9e-07
 Identities = 32/186 (17%), Positives = 63/186 (33%), Gaps = 13/186 (6%)

Query: 538 CYITSMVLYDLLPKFKKLRLLSLQG-YYIGELPIP--FEDLRLLRYLNLADTDI-----R 589
             +T   L  +   FK  ++L L          +       R L+ L+L ++D+      
Sbjct: 115 MVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGH 174

Query: 590 SLPESSCSLLNLEILILRNCSSLIK---LPSKIRRLINLCHLDIRGAILLKEMPFGMKEL 646
            L     +  +L  L +   +S +    L   + R  NL  L +  A+ L+++   ++  
Sbjct: 175 WLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRA 234

Query: 647 KNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLE 706
             L+ L                    L       C+SG  +   +      ++C    L 
Sbjct: 235 PQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCS--RLT 292

Query: 707 ALSLEW 712
            L+L +
Sbjct: 293 TLNLSY 298

>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 = 57.2 bits (138), Expect = 2e-08
 Identities = 86/528 (16%), Positives = 167/528 (31%), Gaps = 93/528 (17%)

Query: 555  LRLLSLQGYYIGELPIP-FEDLRLLRYLNLADTDIRSLPESSC-SLLNLEILILRNCSSL 612
              +L++   YI EL       L  LR L ++   I+ L  S       LE L L +   L
Sbjct: 23   TTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHN-KL 81

Query: 613  IKLPSKIRRLINLCHLDIRGAILLKEMPFGM--KELKNLQTLSNFVVGKGGETASGLE-- 668
            +K+       +NL HLD+        +P       +  L+ L            + LE  
Sbjct: 82   VKISC--HPTVNLKHLDLSFN-AFDALPICKEFGNMSQLKFLGLS--------TTHLEKS 130

Query: 669  DLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQV 728
             +  +  L+    +  L      K   E           +      +F    D   +   
Sbjct: 131  SVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVA 190

Query: 729  LGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNC-TSLPSLGLLSSLR 787
               L   K V E     Y  +       +P  S + +  ++  WN    +  L   +++ 
Sbjct: 191  NLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVW 250

Query: 788  DLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRL- 846
              +I  +     +        F     SL+ LS   +       ++V       I+    
Sbjct: 251  YFSISNVKLQGQLDFRD----FDYSGTSLKALSIHQV------VSDVFGFPQSYIYEIFS 300

Query: 847  ----QKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLC 902
                +  ++     +    P  +     L  S        L+          + C  L  
Sbjct: 301  NMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNL-----LTD------TVFENCGHL-- 347

Query: 903  RTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPR--NLRYLI 960
                 ++L +++ +  + L                     + +S   +   +  +L+ L 
Sbjct: 348  -----TEL-ETLILQMNQL---------------------KELSKIAEMTTQMKSLQQLD 380

Query: 961  ISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIR 1020
            IS+ S      +        L SL +     L       LP  +K L + +         
Sbjct: 381  ISQNSVSYDEKKGDCSWTKSLLSLNMSSN-ILTDTIFRCLPPRIKVLDLHS--------- 430

Query: 1021 DCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKG----LHKLRSIYI 1064
               ++  +   +  LEAL++L++ +  +L+S+P G    L  L+ I++
Sbjct: 431  --NKIKSIPKQVVKLEALQELNVASN-QLKSVPDGIFDRLTSLQKIWL 475

>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 = 54.1 bits (130), Expect = 2e-07
 Identities = 56/362 (15%), Positives = 113/362 (31%), Gaps = 42/362 (11%)

Query: 775  TSLPSLGLLSSLRDLTIKRMTN--LKSIGCEFFG--------------KCFSEPFQSLEI 818
             +LP      ++  L    ++   L+                          E  + L+ 
Sbjct: 103  DALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVLGETYGEKEDPEGLQD 162

Query: 819  LSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQK 878
             + E L          ++  H  +   ++ ++ +E   +   + +   S    +++K Q 
Sbjct: 163  FNTESL----HIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQT 218

Query: 879  LKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSS 938
                 +          +    +L    +    +   +ISN  L           S TS  
Sbjct: 219  NPKLSNLTLNNIETTWNSFIRIL--QLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLK 276

Query: 939  LLQTETISNALDFFPRNLRYLIISE-------ISTLRSLPEEIMDNNSRLESLYIGYCGS 991
             L    + + +  FP++  Y I S        +S  R +        S    L       
Sbjct: 277  ALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNN-L 335

Query: 992  LKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLES 1051
            L           L  L+   L +  LK     +L+ ++     +++L+ L I        
Sbjct: 336  LTDTVFEN-CGHLTELETLILQMNQLK-----ELSKIAEMTTQMKSLQQLDISQNSVSYD 389

Query: 1052 IPKG----LHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQ 1107
              KG       L S+ +     L     + LP  I  + +    K+ ++P  + KL++LQ
Sbjct: 390  EKKGDCSWTKSLLSLNMSSN-ILTDTIFRCLPPRIKVLDLHSN-KIKSIPKQVVKLEALQ 447

Query: 1108 YL 1109
             L
Sbjct: 448  EL 449

>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 = 53.5 bits (129), Expect = 1e-07
 Identities = 33/166 (19%), Positives = 58/166 (34%), Gaps = 20/166 (12%)

Query: 954  RNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLT 1013
              + ++ I     L  +  + +     L+ L I   G LK         S     I    
Sbjct: 80   SKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTG-LKMFPDLTKVYSTDIFFI---- 134

Query: 1014 LESLKIRDCPQLTCLSSGI--HLLEALEDLHIRNCPKLESIPKG---LHKLRSIYIKKCP 1068
               L+I D P +T +       L      L + N     S+        KL ++Y+ K  
Sbjct: 135  ---LEITDNPYMTSIPVNAFQGLCNETLTLKLYNN-GFTSVQGYAFNGTKLDAVYLNKNK 190

Query: 1069 SLVSLAE---KGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKI 1111
             L  + +    G+ +  S + +S    + ALP+    L+ L+ L  
Sbjct: 191  YLTVIDKDAFGGVYSGPSLLDVSQT-SVTALPSKG--LEHLKELIA 233

>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 = 46.2 bits (110), Expect = 2e-05
 Identities = 30/197 (15%), Positives = 67/197 (34%), Gaps = 23/197 (11%)

Query: 952  FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIEN 1011
             P + + L + E + LR++P     N   +  +Y+    +L+ +       +L  +    
Sbjct: 29   LPPSTQTLKLIE-THLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSF-YNLSKVTH-- 84

Query: 1012 LTLESLKIRDCPQLTCLSSGI-HLLEALEDLHIRNCPKLESIP-----KGLHKLRSIYIK 1065
                 ++IR+   LT +       L  L+ L I N   L+  P             + I 
Sbjct: 85   -----IEIRNTRNLTYIDPDALKELPLLKFLGIFNT-GLKMFPDLTKVYSTDIFFILEIT 138

Query: 1066 KCPSLVSLAE---KGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSE 1122
              P + S+     +GL N    + +       ++         L  + + +   +    +
Sbjct: 139  DNPYMTSIPVNAFQGLCNETLTLKLYNN-GFTSVQGYAFNGTKLDAVYLNKNKYLTVIDK 197

Query: 1123 EGF---PTNLKLIRIGG 1136
            + F    +   L+ +  
Sbjct: 198  DAFGGVYSGPSLLDVSQ 214

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 53.5 bits (129), Expect = 2e-07
 Identities = 24/116 (20%), Positives = 48/116 (41%), Gaps = 3/116 (2%)

Query: 540 ITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLL 599
           I ++   +L      L  L+LQ  +I ++         L+ L+L+   +  +     S  
Sbjct: 156 IDTVNFAELAASSDTLEHLNLQYNFIYDVK-GQVVFAKLKTLDLSSNKLAFMGPEFQSAA 214

Query: 600 NLEILILRNCSSLIKLPSKIRRLINLCHLDIRG-AILLKEMPFGMKELKNLQTLSN 654
            +  + LRN   L+ +   +R   NL H D+RG       +     + + +QT++ 
Sbjct: 215 GVTWISLRNN-KLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAK 269

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 45.8 bits (109), Expect = 6e-05
 Identities = 15/106 (14%), Positives = 34/106 (32%), Gaps = 6/106 (5%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEILILR 607
           L     +  L      I    +     +  + + LA+  I  L +        ++ L L+
Sbjct: 95  LLVGPSIETLHAANNNISR--VSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLK 152

Query: 608 NCS-SLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL 652
                 +           L HL+++    + ++   +     L+TL
Sbjct: 153 LNEIDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQVV-FAKLKTL 196

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 44.6 bits (106), Expect = 1e-04
 Identities = 14/106 (13%), Positives = 33/106 (31%), Gaps = 1/106 (0%)

Query: 553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCS-S 611
            KL+ L L    +  +   F+    + +++L +  +  + ++     NLE   LR     
Sbjct: 191 AKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFH 250

Query: 612 LIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVV 657
              L     +   +  +  +    L         +  L     +  
Sbjct: 251 CGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCC 296

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 42.7 bits (101), Expect = 6e-04
 Identities = 23/193 (11%), Positives = 62/193 (32%), Gaps = 37/193 (19%)

Query: 946  SNALDFFP----RNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLP 1001
            +N +        +  + + ++  + +  L +      SR++ L +     +  V   +L 
Sbjct: 108  NNNISRVSCSRGQGKKNIYLAN-NKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELA 165

Query: 1002 SSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRS 1061
            +S  +L+   L L+   I D       +        L+ L + +  KL  +         
Sbjct: 166  ASSDTLEH--LNLQYNFIYDVKGQVVFAK-------LKTLDLSSN-KLAFMGPEFQSA-- 213

Query: 1062 IYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFS 1121
                    +  +            ++    KL  +   +   Q+L++  ++         
Sbjct: 214  ------AGVTWI------------SLRNN-KLVLIEKALRFSQNLEHFDLRGNGFHCGTL 254

Query: 1122 EEGFPTNLKLIRI 1134
             + F  N ++  +
Sbjct: 255  RDFFSKNQRVQTV 267

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 53.5 bits (129), Expect = 3e-07
 Identities = 81/393 (20%), Positives = 131/393 (33%), Gaps = 106/393 (26%)

Query: 861  VPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISNSS 920
            +PEL P L++LV S        L+  P       +  + L           KS+ + N++
Sbjct: 86   LPELPPHLESLVASCNS-----LTELP-------ELPQSL-----------KSLLVDNNN 122

Query: 921  LDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSR 980
            L                          AL   P  L YL +S    L  LPE  + N+S 
Sbjct: 123  L-------------------------KALSDLPPLLEYLGVSNNQ-LEKLPE--LQNSSF 154

Query: 981  LESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALED 1040
            L+ + +    SLK     KLP    SL+   +   + ++ + P+L  L         L  
Sbjct: 155  LKIIDVDNN-SLK-----KLPDLPPSLE--FIAAGNNQLEELPELQNLPF-------LTA 199

Query: 1041 LHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGM 1100
            ++  N   L+ +P     L SI       L  L E      ++ +       L  LP+  
Sbjct: 200  IYADNN-SLKKLPDLPLSLESIVAGNNI-LEELPELQNLPFLTTIYADNN-LLKTLPDLP 256

Query: 1101 HKLQSLQ--YLKIKECPSI------LSFSE------EGFPTNLKLIRIGGGVDAKMYKAV 1146
              L++L      + + P +      L  SE         P NL  +              
Sbjct: 257  PSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYL--------NASSNE 308

Query: 1147 IQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSL 1206
            I+       SL  L++         P        P  L  LI    + L  +        
Sbjct: 309  IRSLCDLPPSLEELNVSNNK-LIELPAL------PPRLERLIASF-NHLAEVPE----LP 356

Query: 1207 TSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKN 1239
             +L+ L +E    L  FP+  +P S+  L + +
Sbjct: 357  QNLKQLHVEYN-PLREFPD--IPESVEDLRMNS 386

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 52.7 bits (127), Expect = 5e-07
 Identities = 64/354 (18%), Positives = 119/354 (33%), Gaps = 74/354 (20%)

Query: 775  TSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEIL-----SFEYLPEWER 829
              LP L   S L+ + +    +LK +          +   SLE +       E LPE + 
Sbjct: 144  EKLPELQNSSFLKIIDV-DNNSLKKL---------PDLPPSLEFIAAGNNQLEELPELQN 193

Query: 830  WDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKF--SLSSYP 887
                          P L  +       L  K+P+L  SL+++V      L+    L + P
Sbjct: 194  -------------LPFLTAIYADNN-SLK-KLPDLPLSLESIVAGNNI-LEELPELQNLP 237

Query: 888  MLCRLEADECKELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISN 947
             L  + AD     L   P     ++++ + ++ L       +    ++ + L  +E I +
Sbjct: 238  FLTTIYADNNL--LKTLPDLPPSLEALNVRDNYL-----TDLPELPQSLTFLDVSENIFS 290

Query: 948  ALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSL 1007
             L   P NL YL  S    +RSL +        LE L +     L      +LP+    L
Sbjct: 291  GLSELPPNLYYLNASSNE-IRSLCDLP----PSLEELNVSNN-KLI-----ELPALPPRL 339

Query: 1008 QIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKC 1067
            +                L  +     L + L+ LH+     L   P     +  +     
Sbjct: 340  ERLIA--------SFNHLAEVPE---LPQNLKQLHVEYN-PLREFPDIPESVEDLR---- 383

Query: 1068 PSLVSLAEKGLPNTISHVTISYCE--KLDALPNGMHKLQSLQ--YLKIKECPSI 1117
               ++     +P    ++   + E   L   P+    ++ L+    ++ +    
Sbjct: 384  ---MNSHLAEVPELPQNLKQLHVETNPLREFPDIPESVEDLRMNSERVVDPYEF 434

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 47.7 bits (114), Expect = 2e-05
 Identities = 27/110 (24%), Positives = 41/110 (37%), Gaps = 9/110 (8%)

Query: 545 LYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEIL 604
           L  L      L  L      + ELP   + L+ L   N     +  LP        LE L
Sbjct: 83  LSSLPELPPHLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPP------LLEYL 136

Query: 605 ILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSN 654
            + N   L KLP  ++    L  +D+     LK++P     L+ +   +N
Sbjct: 137 GVSNN-QLEKLPE-LQNSSFLKIIDVDN-NSLKKLPDLPPSLEFIAAGNN 183

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 47.7 bits (114), Expect = 2e-05
 Identities = 44/265 (16%), Positives = 87/265 (32%), Gaps = 59/265 (22%)

Query: 1009 IENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKLRSIYIKKCP 1068
            + N  L+   +R    LT +      +++  + +        + P G  + R + + +  
Sbjct: 8    VSNTFLQEP-LRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLR 66

Query: 1069 SLV--SLAE--------KGLPNTISHVT--ISYCEKLDALPNGMHKLQSLQYLKIKECPS 1116
              +     E          LP    H+   ++ C  L  LP     L+SL          
Sbjct: 67   DCLDRQAHELELNNLGLSSLPELPPHLESLVASCNSLTELPELPQSLKSLLVDN------ 120

Query: 1117 ILSFSE-EGFPTNLKLIRIGG----GVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESF 1171
              +       P  L+ + +       +            L   + L  + ++     +  
Sbjct: 121  -NNLKALSDLPPLLEYLGVSNNQLEKLPE----------LQNSSFLKIIDVDNNS-LKKL 168

Query: 1172 PDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSS 1231
            PD       P SL F+     ++L+ L  +   +L  L  +  ++  +L   P+  LP S
Sbjct: 169  PDL------PPSLEFIAAGN-NQLEELPELQ--NLPFLTAIYADNN-SLKKLPD--LPLS 216

Query: 1232 LLSL-----------EIKNCPKLRK 1245
            L S+           E++N P L  
Sbjct: 217  LESIVAGNNILEELPELQNLPFLTT 241

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 46.9 bits (112), Expect = 3e-05
 Identities = 20/102 (19%), Positives = 45/102 (44%), Gaps = 7/102 (6%)

Query: 553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSL 612
             L  L +    + +LP   ++   L+ +++ +  ++ LP+      +LE +   N   L
Sbjct: 131 PLLEYLGVSNNQLEKLP-ELQNSSFLKIIDVDNNSLKKLPD---LPPSLEFIAAGNN-QL 185

Query: 613 IKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSN 654
            +LP  ++ L  L  +       LK++P     L+++   +N
Sbjct: 186 EELPE-LQNLPFLTAIYADNN-SLKKLPDLPLSLESIVAGNN 225

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 42.7 bits (101), Expect = 8e-04
 Identities = 24/110 (21%), Positives = 48/110 (43%), Gaps = 12/110 (10%)

Query: 545 LYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEIL 604
           L +L     +L  L     ++ E+P   E  + L+ L++    +R  P+   S+ +L + 
Sbjct: 329 LIELPALPPRLERLIASFNHLAEVP---ELPQNLKQLHVEYNPLREFPDIPESVEDLRM- 384

Query: 605 ILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSN 654
                S L ++P   +   NL  L +     L+E P   + +++L+  S 
Sbjct: 385 ----NSHLAEVPELPQ---NLKQLHVET-NPLREFPDIPESVEDLRMNSE 426

>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 = 52.8 bits (127), Expect = 5e-07
 Identities = 57/280 (20%), Positives = 100/280 (35%), Gaps = 43/280 (15%)

Query: 954  RNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLT 1013
             NLR L +     L+ +P  +    S L  L I     +  +         + L      
Sbjct: 80   FNLRTLGLRSNR-LKLIPLGVFTGLSNLTKLDISEN-KIVILL----DYMFQDLY----N 129

Query: 1014 LESLKIRDCPQLTCLSSGI-HLLEALEDLHIRNCPKLESIPKG----LHKLRSIYIKKCP 1068
            L+SL++ D   L  +S      L +LE L +  C  L SIP      LH L  + ++   
Sbjct: 130  LKSLEVGDN-DLVYISHRAFSGLNSLEQLTLEKC-NLTSIPTEALSHLHGLIVLRLRHLN 187

Query: 1069 --SLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFP 1126
              ++   + K L   +  + IS+   LD +        +L  L I  C ++ +       
Sbjct: 188  INAIRDYSFKRLYR-LKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVR 245

Query: 1127 --TNLKLIRIGG----GVDAKMYKAVIQWGLHRLTSLI--GLSIEECHDAESFPDEEMRM 1178
                L+ + +       ++  M        L RL  +   G  +       +F       
Sbjct: 246  HLVYLRFLNLSYNPISTIEGSMLH-----ELLRLQEIQLVGGQLAVVE-PYAFRG----- 294

Query: 1179 MLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCP 1218
             L   L  L +   ++L  L    F S+ +LE L+++  P
Sbjct: 295  -LN-YLRVLNVSG-NQLTTLEESVFHSVGNLETLILDSNP 331

>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 = 45.1 bits (107), Expect = 1e-04
 Identities = 31/133 (23%), Positives = 43/133 (32%), Gaps = 26/133 (19%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELP-IPFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEIL 604
            +      L  L +    I  L    F+DL  L+ L + D D+  +   +   L +LE L
Sbjct: 98  GVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQL 157

Query: 605 ILRNC-------------SSLIKL-----------PSKIRRLINLCHLDIRGAILLKEMP 640
            L  C               LI L               +RL  L  L+I     L  M 
Sbjct: 158 TLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMT 217

Query: 641 FGMKELKNLQTLS 653
                  NL +LS
Sbjct: 218 PNCLYGLNLTSLS 230

>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 = 42.4 bits (100), Expect = 9e-04
 Identities = 25/110 (22%), Positives = 42/110 (38%), Gaps = 6/110 (5%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELPI-PFEDLRLLRYLNLADTDIRSLPESSCS-LLNLEIL 604
           D    F  L  L L    +  +    F +L  LR L L    ++ +P    + L NL  L
Sbjct: 50  DEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKL 109

Query: 605 ILRNCSSLIKLPSKI-RRLINLCHLDIRGAILLKEMPFGM-KELKNLQTL 652
            +     ++ L   + + L NL  L++     L  +       L +L+ L
Sbjct: 110 DISEN-KIVILLDYMFQDLYNLKSLEVGD-NDLVYISHRAFSGLNSLEQL 157

>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 = 52.2 bits (125), Expect = 8e-07
 Identities = 24/116 (20%), Positives = 48/116 (41%), Gaps = 3/116 (2%)

Query: 540 ITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLL 599
           I ++   +L      L  L+LQ  +I ++         L+ L+L+   +  +     S  
Sbjct: 156 IDTVNFAELAASSDTLEHLNLQYNFIYDVK-GQVVFAKLKTLDLSSNKLAFMGPEFQSAA 214

Query: 600 NLEILILRNCSSLIKLPSKIRRLINLCHLDIRG-AILLKEMPFGMKELKNLQTLSN 654
            +  + LRN   L+ +   +R   NL H D+RG       +     + + +QT++ 
Sbjct: 215 GVTWISLRNN-KLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAK 269

>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 = 44.8 bits (106), Expect = 1e-04
 Identities = 22/143 (15%), Positives = 46/143 (32%), Gaps = 6/143 (4%)

Query: 553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN---- 608
            KL+ L L    +  +   F+    + +++L +  +  + ++     NLE   LR     
Sbjct: 191 AKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFH 250

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGGETASGLE 668
           C +L    SK +R+  +    ++   L  +              +          A  L 
Sbjct: 251 CGTLRDFFSKNQRVQTVAKQTVKK--LTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLI 308

Query: 669 DLKILKFLSGELCISGLQNVNDS 691
            LK  +        S  + +   
Sbjct: 309 ALKRKEHALLSGQGSETERLECE 331

>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 = 44.1 bits (104), Expect = 3e-04
 Identities = 15/106 (14%), Positives = 34/106 (32%), Gaps = 6/106 (5%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEILILR 607
           L     +  L      I    +     +  + + LA+  I  L +        ++ L L+
Sbjct: 95  LLVGPSIETLHAANNNISR--VSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLK 152

Query: 608 NCS-SLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL 652
                 +           L HL+++    + ++   +     L+TL
Sbjct: 153 LNEIDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQVV-FAKLKTL 196

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 51.7 bits (123), Expect = 1e-06
 Identities = 24/135 (17%), Positives = 49/135 (36%), Gaps = 4/135 (2%)

Query: 520 IEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLR 579
              L+   P+             +    L  ++  +R+L L    +  L    E L L+ 
Sbjct: 408 FSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLC-HLEQLLLVT 466

Query: 580 YLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRG-AILLKE 638
           +L+L+   +R+LP +  +L  LE+L   +    ++    +  L  L  L +    +    
Sbjct: 467 HLDLSHNRLRALPPALAALRCLEVLQASDN--ALENVDGVANLPRLQELLLCNNRLQQSA 524

Query: 639 MPFGMKELKNLQTLS 653
               +     L  L+
Sbjct: 525 AIQPLVSCPRLVLLN 539

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 51.2 bits (123), Expect = 1e-06
 Identities = 15/86 (17%), Positives = 33/86 (38%), Gaps = 3/86 (3%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILIL 606
               K ++L  L +    +  L +  + +  L+ L+L+   +  +  +      LE L L
Sbjct: 266 HPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYL 325

Query: 607 RNCSSLIKLPSKIRRLINLCHLDIRG 632
            +  S++ L         L +L +  
Sbjct: 326 DHN-SIVTLKLST--HHTLKNLTLSH 348

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 50.8 bits (122), Expect = 2e-06
 Identities = 18/103 (17%), Positives = 39/103 (37%), Gaps = 4/103 (3%)

Query: 552 FKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEILILRNCS 610
             +L +L LQ   + +      +   L  ++L+  ++  +       +  LE L + N +
Sbjct: 225 NVELTILKLQHNNLTDTAW-LLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISN-N 282

Query: 611 SLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
            L+ L    + +  L  LD+     L  +     +   L+ L 
Sbjct: 283 RLVALNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLY 324

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 21/109 (19%), Positives = 41/109 (37%), Gaps = 7/109 (6%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELPI-PFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEIL 604
                   ++ L +    I  LP   F+++ LL  L L   D+ SLP     +   L  L
Sbjct: 87  YAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTL 146

Query: 605 ILRNCSSLIKLPSKI-RRLINLCHLDIRGAILLKEMPFGMKELKNLQTL 652
            + N  +L ++     +   +L +L +     L  +   +  + +L   
Sbjct: 147 SMSNN-NLERIEDDTFQATTSLQNLQLSSN-RLTHVDLSL--IPSLFHA 191

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 42.3 bits (100), Expect = 7e-04
 Identities = 34/173 (19%), Positives = 64/173 (36%), Gaps = 16/173 (9%)

Query: 552 FKKLRLLSLQGYYIGELPI-PFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEILILRNC 609
               ++++ +   + +LP    +  R +  LNL D  I  +   +      ++ L +   
Sbjct: 44  LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN 103

Query: 610 SSLIKLPSKI-RRLINLCHLDIRGAILLKEMPFGM-KELKNLQTLS---NFVVGKGGETA 664
            ++  LP  + + +  L  L +     L  +P G+      L TLS   N +     +T 
Sbjct: 104 -AIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTF 161

Query: 665 SGLEDLKILKFLSGEL------CISGLQNVNDSKNAREAALCEKLNLEALSLE 711
                L+ L+  S  L       I  L + N S N   + L   + +E L   
Sbjct: 162 QATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYN-LLSTLAIPIAVEELDAS 213

>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 = 51.6 bits (124), Expect = 1e-06
 Identities = 81/544 (14%), Positives = 161/544 (29%), Gaps = 103/544 (18%)

Query: 542  SMVLYDLLPKFKKLRLLSLQGYYIGELPIP-FEDLRLLRYLNLADTDIRSLPESS-CSLL 599
              +      +   L  L L    I  +    F+    L  L L    +  + E++     
Sbjct: 46   PTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPK 105

Query: 600  NLEILILRNCSSLIKLPSK-IRRLINLCHLDIRGAILLKEMPFGM-KELKNLQTL---SN 654
             L+ L       +  +    +     L  L +     +  +        + L+ L   +N
Sbjct: 106  ALKHLFFIQT-GISSIDFIPLHNQKTLESLYLGS-NHISSIKLPKGFPTEKLKVLDFQNN 163

Query: 655  FVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGS 714
             +     E  S L+    L        I+G+          E    +    ++L+   G+
Sbjct: 164  AIHYLSKEDMSSLQQATNLSLNLNGNDIAGI----------EPGAFDSAVFQSLNF-GGT 212

Query: 715  QFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNC 774
            Q      +  +   +  L    F +++  +    A F          +M+V  ++   + 
Sbjct: 213  QNLLVIFKGLKNSTIQSLWLGTF-EDMDDEDISPAVF------EGLCEMSVESINLQKHY 265

Query: 775  -TSLP--SLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWD 831
              ++   +    S L++L +   T+L  +     G        +L+ L            
Sbjct: 266  FFNISSNTFHCFSGLQELDLTA-THLSELPSGLVG------LSTLKKL------------ 306

Query: 832  TNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKL----KFSLSSYP 887
              +  N          K   +     S       PSL  L +    K        L +  
Sbjct: 307  -VLSAN----------KFENLCQISASN-----FPSLTHLSIKGNTKRLELGTGCLENLE 350

Query: 888  MLCRLEADECKELLCRTPIDSKLIKSMTISN-SSLDINGCEGMLHASRTSSSLLQTETIS 946
             L  L+       L    I++    ++ + N S L        L+ S      L+TE   
Sbjct: 351  NLRELD-------LSHDDIETSDCCNLQLRNLSHLQS------LNLSYNEPLSLKTEAFK 397

Query: 947  NALDFFPRNLRYLIISE--ISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSL 1004
                     L  L ++   +       +    N   L+ L + +   L   ++      L
Sbjct: 398  EC-----PQLELLDLAFTRLKVK--DAQSPFQNLHLLKVLNLSHS-LLDISSEQLF-DGL 448

Query: 1005 KSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPK----GLHKLR 1060
             +LQ   L L+             ++ +  L  LE L +  C  L SI +     L  + 
Sbjct: 449  PALQH--LNLQGNHFPKGNIQ--KTNSLQTLGRLEILVLSFC-DLSSIDQHAFTSLKMMN 503

Query: 1061 SIYI 1064
             + +
Sbjct: 504  HVDL 507

>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 = 45.8 bits (109), Expect = 1e-04
 Identities = 54/311 (17%), Positives = 101/311 (32%), Gaps = 52/311 (16%)

Query: 951  FFPRNLRYLIISEISTLRSLPEEIMDNN-SRLESLYIGYCGSLKFVTKGKLPSSLKSLQI 1009
            F     + L       L  + + + ++    L           + ++   +   L  + +
Sbjct: 199  FDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDM-DDEDISPA-VFEGLCEMSV 256

Query: 1010 ENLTLESLKIRD--------CPQLTCLS----------SGIHLLEALEDLHIRNCPKLES 1051
            E++ L+     +           L  L           SG+  L  L+ L +    K E+
Sbjct: 257  ESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSAN-KFEN 315

Query: 1052 IP----KGLHKLRSIYIKKCP---SLVSLAEKGLPNTISHVTISYC--EKLDALPNGMHK 1102
            +          L  + IK       L +   + L N +  + +S+   E  D     +  
Sbjct: 316  LCQISASNFPSLTHLSIKGNTKRLELGTGCLENLEN-LRELDLSHDDIETSDCCNLQLRN 374

Query: 1103 LQSLQYLKIKECPSILSFSEEGFP--TNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGL 1160
            L  LQ L +      LS   E F     L+L+ +      ++     Q     L  L  L
Sbjct: 375  LSHLQSLNLSYN-EPLSLKTEAFKECPQLELLDLAF---TRLKVKDAQSPFQNLHLLKVL 430

Query: 1161 SIEECH----DAESFPDEEMRMMLPASLTFLILR--RLSKLKYLSSMGFQSLTSLEHLLI 1214
            ++          + F        LP +L  L L+     K     +   Q+L  LE L++
Sbjct: 431  NLSHSLLDISSEQLFDG------LP-ALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVL 483

Query: 1215 EDCPNLTSFPE 1225
              C +L+S  +
Sbjct: 484  SFC-DLSSIDQ 493

>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 = 45.0 bits (107), Expect = 2e-04
 Identities = 27/143 (18%), Positives = 50/143 (34%), Gaps = 14/143 (9%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELPIP-FEDLRLLRYLNLADTDIRSLPESS--CSLLNLEI 603
             L     L+ L+L       L    F++   L  L+LA T ++     S   +L  L++
Sbjct: 370 LQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKV 429

Query: 604 LILRNC--SSLIKLPSKIRRLINLCHLDIRG---AILLKEMPFGMKELKNLQTL---SNF 655
           L L +               L  L HL+++G        +    ++ L  L+ L      
Sbjct: 430 LNLSHSLLDISS--EQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCD 487

Query: 656 VVGKGGETASGLEDLKILKFLSG 678
           +        + L+ +  +  LS 
Sbjct: 488 LSSIDQHAFTSLKMMNHV-DLSH 509

>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 = 44.6 bits (106), Expect = 2e-04
 Identities = 84/572 (14%), Positives = 174/572 (30%), Gaps = 125/572 (21%)

Query: 570  IPFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEILILRNCSSLIKLPSK-IRRLINLCH 627
            IP         L  +   + ++  ++   L+NL  L L  C  +  +     +    L  
Sbjct: 27   IPGTLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRC-QIYWIHEDTFQSQHRLDT 85

Query: 628  LDIRGAILLKEMPFGMKELKNLQTL---SNFVVGKGGETASGLEDLKILKFLSGELCISG 684
            L +    L+      +   K L+ L      +           + L+ L +L      + 
Sbjct: 86   LVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESL-YLGS----NH 140

Query: 685  LQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELTIK 744
            + ++                L+ L  +     +N+         +  L            
Sbjct: 141  ISSIKLP------KGFPTEKLKVLDFQ-----NNA---------IHYLSKEDMSS----- 175

Query: 745  RYGGARFPLWIGDPLFSKMNVLELDDCWNCTSL--PSLGLLSSLRDLTIKRMTNLKSIGC 802
                             +   L L+   N  +   P     +  + L      NL  I  
Sbjct: 176  ---------------LQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVI-- 218

Query: 803  EFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVEC-------P 855
              F    +   QSL + +FE +      D ++       +F  L ++S+           
Sbjct: 219  --FKGLKNSTIQSLWLGTFEDMD-----DEDISPA----VFEGLCEMSVESINLQKHYFF 267

Query: 856  ELSGKVPELLPSLKTLVVSKCQ--KLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKS 913
             +S         L+ L ++     +L   L     L +L        L     ++  +  
Sbjct: 268  NISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLV-------LSANKFEN--LCQ 318

Query: 914  MTISN----SSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISE--ISTL 967
            ++ SN    + L I G               + E  +  L+    NLR L +S   I T 
Sbjct: 319  ISASNFPSLTHLSIKGNT------------KRLELGTGCLENLE-NLRELDLSHDDIETS 365

Query: 968  RSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTC 1027
                 ++  N S L+SL + Y      +           L++  L L   +++     + 
Sbjct: 366  DCCNLQL-RNLSHLQSLNLSYN-EPLSLKTE-AFKECPQLEL--LDLAFTRLKVKDAQSP 420

Query: 1028 LSSGIHLLEALEDLHIRNCPKLESIP----KGLHKLRSIY-----IKKCPSLVSLAEKGL 1078
              +    L  L+ L++ +   L+        GL  L+ +        K     + + + L
Sbjct: 421  FQN----LHLLKVLNLSHS-LLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTL 475

Query: 1079 PNTISHVTISYCEKLDALPNGM-HKLQSLQYL 1109
               +  + +S+C  L ++       L+ + ++
Sbjct: 476  GR-LEILVLSFC-DLSSIDQHAFTSLKMMNHV 505

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 51.5 bits (123), Expect = 2e-06
 Identities = 19/92 (20%), Positives = 32/92 (34%), Gaps = 8/92 (8%)

Query: 545 LYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLE-- 602
           L  L      L +LS++   +  LP   E    L  L+++   + SLP       + E  
Sbjct: 152 LTMLPELPTSLEVLSVRNNQLTFLP---ELPESLEALDVSTNLLESLPAVPVRNHHSEET 208

Query: 603 --ILILRNCSSLIKLPSKIRRLINLCHLDIRG 632
                 R    +  +P  I  L   C + +  
Sbjct: 209 EIFFRCRENR-ITHIPENILSLDPTCTIILED 239

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 48.4 bits (115), Expect = 1e-05
 Identities = 28/108 (25%), Positives = 43/108 (39%), Gaps = 11/108 (10%)

Query: 545 LYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEIL 604
           L  L      L+ L +    +  LP   E   LL Y+N  +  +  LPE      +LE+L
Sbjct: 112 LSTLPELPASLKHLDVDNNQLTMLP---ELPALLEYINADNNQLTMLPE---LPTSLEVL 165

Query: 605 ILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL 652
            +RN   L  LP       +L  LD+    LL+ +P       + +  
Sbjct: 166 SVRNN-QLTFLPELPE---SLEALDVSTN-LLESLPAVPVRNHHSEET 208

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 47.3 bits (112), Expect = 3e-05
 Identities = 43/175 (24%), Positives = 68/175 (38%), Gaps = 30/175 (17%)

Query: 950  DFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQI 1009
            D  P  +  L I++ + L SLPE      + LE L        +  T  +LP+SLK L +
Sbjct: 76   DNLPPQITVLEITQNA-LISLPELP----ASLEYLD---ACDNRLSTLPELPASLKHLDV 127

Query: 1010 EN--LT--------LESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIPKGLHKL 1059
            +N  LT        LE +   +  QLT L     L  +LE L +RN  +L  +P+    L
Sbjct: 128  DNNQLTMLPELPALLEYINADNN-QLTMLPE---LPTSLEVLSVRNN-QLTFLPELPESL 182

Query: 1060 RSIYIKKCPSLVSLAE-----KGLPNTISHVTISYCEKLDALPNGMHKLQSLQYL 1109
             ++ +     L SL            T          ++  +P  +  L     +
Sbjct: 183  EALDVSTNL-LESLPAVPVRNHHSEETEIFFRCREN-RITHIPENILSLDPTCTI 235

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 43.8 bits (103), Expect = 4e-04
 Identities = 38/185 (20%), Positives = 77/185 (41%), Gaps = 26/185 (14%)

Query: 937  SSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVT 996
                + E +S   +        L ++ ++ L SLP+ +     ++  L I        ++
Sbjct: 42   PGENRNEAVSLLKECLINQFSELQLNRLN-LSSLPDNL---PPQITVLEITQN---ALIS 94

Query: 997  KGKLPSSLKSL-----QIENL-----TLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNC 1046
              +LP+SL+ L     ++  L     +L+ L + +  QLT L     L   LE ++  N 
Sbjct: 95   LPELPASLEYLDACDNRLSTLPELPASLKHLDVDNN-QLTMLPE---LPALLEYINADNN 150

Query: 1047 PKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSL 1106
             +L  +P+    L  + ++    L  L E  LP ++  + +S    L++LP    +    
Sbjct: 151  -QLTMLPELPTSLEVLSVRNNQ-LTFLPE--LPESLEALDVSTN-LLESLPAVPVRNHHS 205

Query: 1107 QYLKI 1111
            +  +I
Sbjct: 206  EETEI 210

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 50.8 bits (122), Expect = 2e-06
 Identities = 60/395 (15%), Positives = 123/395 (31%), Gaps = 62/395 (15%)

Query: 760  FSKMNVLELDDCWNC--TSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLE 817
              ++  L   DC N   T +  +  L+ L  L      N+ ++      +       +L 
Sbjct: 38   EEQLATLTSLDCHNSSITDMTGIEKLTGLTKLIC-TSNNITTLD---LSQN-----TNLT 88

Query: 818  ILSFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQ 877
             L+ +          N   N  V    +L  L+     +L+       P L  L  ++  
Sbjct: 89   YLACDS---------NKLTNLDVTPLTKLTYLNCDTN-KLTKLDVSQNPLLTYLNCARNT 138

Query: 878  KLKFSLSSYPMLCRLEADECKELLCRTPIDSKLIKSMTISN---SSLDINGCEGMLHASR 934
              +  +S    L  L+    K++          + ++  S    + LD++          
Sbjct: 139  LTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELDVSQN-------- 190

Query: 935  TSSSLLQTETISN----ALDF-FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYC 989
                LL            LD      L +L  S    L  +    +   ++L        
Sbjct: 191  ---KLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNK-LTEID---VTPLTQLTYFDCSVN 243

Query: 990  GSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLS-SGIHLLEALEDLHIRNCPK 1048
              L  +    L   L +L      L  + +    QL      G   ++ L+   + +  +
Sbjct: 244  -PLTELDVSTLS-KLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELD---VTHNTQ 298

Query: 1049 LESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALP---------NG 1099
            L  +      +  + + + P LV L        ++ + +S+  KL +L          + 
Sbjct: 299  LYLLDCQAAGITELDLSQNPKLVYLYLNN--TELTELDVSHNTKLKSLSCVNAHIQDFSS 356

Query: 1100 MHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRI 1134
            + K+ +L      E    ++  +E    N   I +
Sbjct: 357  VGKIPALNNNFEAE-GQTITMPKETLTNNSLTIAV 390

>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 = 45.8 bits (109), Expect = 8e-05
 Identities = 56/397 (14%), Positives = 117/397 (29%), Gaps = 85/397 (21%)

Query: 863  ELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDS-KLIKSMTISN--- 918
            E L  L  L+ +        LS    L  L  D  K  L    +     +  +       
Sbjct: 61   EKLTGLTKLICTSNNITTLDLSQNTNLTYLACDSNK--LTNLDVTPLTKLTYLNCDTNKL 118

Query: 919  SSLDINGCEG--MLHASRTSSSLLQTETISNALDFFPRNLRYLIISEISTLRSLPEEIMD 976
            + LD++       L+ +R +   L    +S+        L  L       +  L    + 
Sbjct: 119  TKLDVSQNPLLTYLNCARNT---LTEIDVSH-----NTQLTELDCHLNKKITKLD---VT 167

Query: 977  NNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLE 1036
              ++L +L   +   +  +   +    L  L  +   +  L +    QLT L        
Sbjct: 168  PQTQLTTLDCSFN-KITELDVSQNKL-LNRLNCDTNNITKLDLNQNIQLTFLD-----CS 220

Query: 1037 --ALEDLHIRNCPKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLD 1094
               L ++ +    +L      ++ L  + +     L +L        +  + ++      
Sbjct: 221  SNKLTEIDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQ--TDLLEIDLT------ 272

Query: 1095 ALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGG----GVDAKMYKAVIQWG 1150
                       L Y + + C   +   +    T L L+         +D           
Sbjct: 273  -------HNTQLIYFQAEGC-RKIKELDVTHNTQLYLLDCQAAGITELD----------- 313

Query: 1151 LHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMG-------- 1202
            L +   L+ L +                     LT L +   +KLK LS +         
Sbjct: 314  LSQNPKLVYLYLNNTE-----------------LTELDVSHNTKLKSLSCVNAHIQDFSS 356

Query: 1203 FQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKN 1239
               + +L +    +     + P+  L ++ L++ +  
Sbjct: 357  VGKIPALNNNFEAE-GQTITMPKETLTNNSLTIAVSP 392

>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 = 44.7 bits (106), Expect = 2e-04
 Identities = 21/105 (20%), Positives = 35/105 (33%), Gaps = 9/105 (8%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
             +   L  L      I ++    E L  L  L     +I +L  S  +  NL  L   +
Sbjct: 38  EEQLATLTSLDCHNSSITDMT-GIEKLTGLTKLICTSNNITTLDLSQNT--NLTYLACDS 94

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
              L  L   +  L  L +L+      L ++     +   L  L+
Sbjct: 95  N-KLTNLD--VTPLTKLTYLNCDT-NKLTKLDVS--QNPLLTYLN 133

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 43.9 bits (104), Expect = 3e-04
 Identities = 19/103 (18%), Positives = 30/103 (29%), Gaps = 9/103 (8%)

Query: 551 KFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCS 610
           +   L  L+     +  L      L  L YLN     +  L  S      L  L      
Sbjct: 83  QNTNLTYLACDSNKLTNLD--VTPLTKLTYLNCDTNKLTKLDVSQNP--LLTYLNCARN- 137

Query: 611 SLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
           +L ++   +     L  LD      + ++         L TL 
Sbjct: 138 TLTEID--VSHNTQLTELDCHLNKKITKLDVT--PQTQLTTLD 176

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 48.4 bits (116), Expect = 3e-06
 Identities = 23/130 (17%), Positives = 45/130 (34%), Gaps = 9/130 (6%)

Query: 551 KFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCS 610
           +   L  ++L    + +L    E    ++ L + +    +    S  L NLE L +    
Sbjct: 42  QMNSLTYITLANINVTDLT-GIEYAHNIKDLTINNIHATNYNPIS-GLSNLERLRIMGKD 99

Query: 611 SLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL---SNFVVGKGGETASGL 667
                   +  L +L  LDI  +     +   +  L  + ++    N  +         L
Sbjct: 100 VTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAI----TDIMPL 155

Query: 668 EDLKILKFLS 677
           + L  LK L+
Sbjct: 156 KTLPELKSLN 165

>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 = 50.4 bits (121), Expect = 3e-06
 Identities = 26/134 (19%), Positives = 44/134 (32%), Gaps = 7/134 (5%)

Query: 551 KFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESS--CSLLNLEILILRN 608
               LR L L       +   F  L  L++L+   + ++ + E S   SL  L  L +  
Sbjct: 374 GTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISY 433

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGM-KELKNLQTL---SNFVVGKGGETA 664
            ++ I        L +L  L + G          +     NL  L      +        
Sbjct: 434 TNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVF 493

Query: 665 SGLEDLKILKFLSG 678
             L  L++L  +S 
Sbjct: 494 DTLHRLQLL-NMSH 506

>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 = 100/546 (18%), Positives = 176/546 (32%), Gaps = 85/546 (15%)

Query: 542  SMVLYDLLPKFKKLRLLSLQGYYIGELPIP-FEDLRLLRYLNLADTDIRSLPESS-CSLL 599
             ++       F +L+ L L    I  +    +  L  L  L L    I+S    S   L 
Sbjct: 45   KILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLT 104

Query: 600  NLEILILRNCSSLIKLPSK-IRRLINLCHLDIRG-AILLKEMPFGMKELKNLQTL---SN 654
            +LE L+      L  L S  I +LI L  L++    I   ++P     L NL  +    N
Sbjct: 105  SLENLVAVET-KLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYN 163

Query: 655  FVVGKGGETASGLEDLKILKFLSGELCISG--LQNVNDSKNAREAALCEKLNLEALSLEW 712
            ++      T + L+ L+    ++  L +S   +  + D          + + L  L+L  
Sbjct: 164  YIQ---TITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQ-------AFQGIKLHELTLR- 212

Query: 713  GSQFDNSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCW 772
                 N       +  L  L        L +           +    F     LE+ +  
Sbjct: 213  ----GNFNSSNIMKTCLQNLA------GLHV---------HRLILGEFKDERNLEIFEPS 253

Query: 773  NCTSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDT 832
                L  + +    R        N  S     F         ++  +S   +        
Sbjct: 254  IMEGLCDVTID-EFRLTYT----NDFSDDIVKFHCL-----ANVSAMSLAGV-------- 295

Query: 833  NVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQ-KLKFSLSSYPMLCR 891
            ++   E V    + Q LSI+ C +L       LP LK+L ++  +  + F   + P L  
Sbjct: 296  SIKYLEDVPKHFKWQSLSIIRC-QLKQFPTLDLPFLKSLTLTMNKGSISFKKVALPSLSY 354

Query: 892  LEADECK--ELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRT------SSSLLQTE 943
            L+          C +  D        +  S                        S L+  
Sbjct: 355  LDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRV 414

Query: 944  TISNALDFFPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSS 1003
            T  +A       L YL IS  +  +   + I    + L +L +    S K  T   + ++
Sbjct: 415  TEFSAFLSLE-KLLYLDISY-TNTKIDFDGIFLGLTSLNTLKMAGN-SFKDNTLSNVFAN 471

Query: 1004 LKSLQIENLTLESLKIRDCPQLTCLSSGI-HLLEALEDLHIRNCPKLESIP----KGLHK 1058
              +L         L +  C QL  +S G+   L  L+ L++ +   L  +       L+ 
Sbjct: 472  TTNLTF-------LDLSKC-QLEQISWGVFDTLHRLQLLNMSHN-NLLFLDSSHYNQLYS 522

Query: 1059 LRSIYI 1064
            L ++  
Sbjct: 523  LSTLDC 528

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 48.9 bits (117), Expect = 1e-05
 Identities = 90/575 (15%), Positives = 178/575 (30%), Gaps = 81/575 (14%)

Query: 570  IPFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEILILRNCSSLIKLPSK-IRRLINLCH 627
            +P +     + ++L+   ++ L   S  +   L+ L L  C  +  +  K    L +L +
Sbjct: 26   VPDDIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRC-EIETIEDKAWHGLHHLSN 84

Query: 628  LDIRGAILLKEMPFGM-KELKNLQTL---SNFVVGKGGETASGLEDLKILKFLSGELCIS 683
            L + G   ++    G    L +L+ L      +          L  LK L  ++      
Sbjct: 85   LILTG-NPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKL-NVAH----- 137

Query: 684  GLQNVNDSKNAREAALCEKL-NLEALSLEWGSQFDNSRDEVAEEQVLGVLQPYKFVKELT 742
                 N   + +  A    L NL  + L   +          + Q L          +++
Sbjct: 138  -----NFIHSCKLPAYFSNLTNLVHVDLS-YNYIQTITVN--DLQFLRENPQVNLSLDMS 189

Query: 743  ---IKRYGGARFPLWIGDPLFSKMNVLELDDCWNC-TSLPSLGLLSSLRDLTIKRMTNLK 798
               I          +I D  F  + + EL    N  +S      L +L  L + R+   +
Sbjct: 190  LNPID---------FIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGE 240

Query: 799  SIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRNEHVEIFPR-LQKLSIVECPEL 857
                           + L  ++ +           +               L+ V    L
Sbjct: 241  FKDERNLEIFEPSIMEGLCDVTIDEF--------RLTYTNDFSDDIVKFHCLANVSAMSL 292

Query: 858  SG----KVPEL--LPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRTPIDSKLI 911
            +G     + ++      ++L + +CQ  +F     P L  L     K  +    +    +
Sbjct: 293  AGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMNKGSISFKKVALPSL 352

Query: 912  KSMTISNSSLDINGCEGMLHASRTSSSLL-----QTETISNALDFFPRNLRYLIISE--I 964
              + +S ++L  +GC         S   L         +S         L++L      +
Sbjct: 353  SYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLE-ELQHLDFQHSTL 411

Query: 965  STLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQ 1024
              +         +  +L  L I Y       TK         L     +L +LK+     
Sbjct: 412  KRV--TEFSAFLSLEKLLYLDISYTN-----TKIDFDGIFLGLT----SLNTLKMAGNSF 460

Query: 1025 LTCLSSGI-HLLEALEDLHIRNCPKLESIP----KGLHKLRSIYIKKCPSLVSLAEKGLP 1079
                 S +      L  L +  C +LE I       LH+L+ + +    +L+ L      
Sbjct: 461  KDNTLSNVFANTTNLTFLDLSKC-QLEQISWGVFDTLHRLQLLNMSHN-NLLFLDSSHYN 518

Query: 1080 NTIS--HVTISYCEKLDALPNG-MHKLQSLQYLKI 1111
               S   +  S+  +++       H  +SL +  +
Sbjct: 519  QLYSLSTLDCSFN-RIETSKGILQHFPKSLAFFNL 552

>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 = 45.4 bits (108), Expect = 1e-04
 Identities = 19/153 (12%), Positives = 45/153 (29%), Gaps = 17/153 (11%)

Query: 538 CYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIP-FEDLR----LLRYLNLADTDIRSLP 592
            +I S  L         L  + L   YI  + +   + LR    +   L+++   I  + 
Sbjct: 138 NFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQ 197

Query: 593 ESSCSLLNLEILILRNCSSLIKLPSKIR------RLINLCHLDIRGAILLKEMPFGM-KE 645
           + +   + L  L LR   +   +            +  L   + +    L+     + + 
Sbjct: 198 DQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEG 257

Query: 646 LKNLQTLS-----NFVVGKGGETASGLEDLKIL 673
           L ++                      L ++  +
Sbjct: 258 LCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAM 290

>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 = 44.6 bits (106), Expect = 2e-04
 Identities = 53/344 (15%), Positives = 108/344 (31%), Gaps = 43/344 (12%)

Query: 926  CEGMLHASRTSSSLLQTETIS-NALDFFPR------NLRYLIISEISTLRSLPEEIMDNN 978
                L   R +  +  +  +S N +DF          L  L +       ++ +  + N 
Sbjct: 169  TVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNL 228

Query: 979  SRLESLYIGYCGSLKFVTKGKLPSS----LKSLQIENLTLESLKI--------RDCPQLT 1026
            + L    +                S    L  + I+   L                  ++
Sbjct: 229  AGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVS 288

Query: 1027 CLS---------SGIHLLEALEDLHIRNCPKLESIP-KGLHKLRSIYIKKCPSLVSLAEK 1076
             +S           +      + L I  C +L+  P   L  L+S+ +      +S  + 
Sbjct: 289  AMSLAGVSIKYLEDVPKHFKWQSLSIIRC-QLKQFPTLDLPFLKSLTLTMNKGSISFKKV 347

Query: 1077 GLPNTISHVTISYCEKLDALPNGMH---KLQSLQYLKIKECPSILSFSEEGFPTNLKLIR 1133
             LP+ +S++ +S    L       +      SL++L +    +I+  +       L+ + 
Sbjct: 348  ALPS-LSYLDLSRN-ALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLD 405

Query: 1134 IGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLS 1193
                  + + +         L  L+ L I   +    F    + +    SL  L +   S
Sbjct: 406  FQH---STLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLT---SLNTLKMAGNS 459

Query: 1194 KLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEI 1237
                  S  F + T+L  L +  C  L      G+  +L  L++
Sbjct: 460  FKDNTLSNVFANTTNLTFLDLSKC-QLEQISW-GVFDTLHRLQL 501

>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 = 43.1 bits (102), Expect = 5e-04
 Identities = 51/308 (16%), Positives = 98/308 (31%), Gaps = 41/308 (13%)

Query: 953  PRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENL 1012
            P + + + +S  + L+ L      N S L+ L +  C             +++      L
Sbjct: 31   PSSTKNIDLSF-NPLKILKSYSFSNFSELQWLDLSRCE----------IETIEDKAWHGL 79

Query: 1013 T-LESLKIRDCPQLTCLSSG-IHLLEALEDLHIRNCPKLESIP----KGLHKLRSIYIKK 1066
              L +L +     +   S G    L +LE+L      KL S+       L  L+ + +  
Sbjct: 80   HHLSNLILTGN-PIQSFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAH 137

Query: 1067 CPSLVSLAEKGLPNTISHVT------ISYCEKLDALPNGM-----HKLQSLQYLKIKECP 1115
                  +    LP   S++T      +SY   +  +            Q    L +   P
Sbjct: 138  N----FIHSCKLPAYFSNLTNLVHVDLSYN-YIQTITVNDLQFLRENPQVNLSLDMSLNP 192

Query: 1116 SILSFSEEGF-PTNLKLIRIGGGVDAKMYKAVIQWGLHRLT--SLIGLSIEECHDAESFP 1172
             I    ++ F    L  + + G  ++          L  L    LI    ++  + E F 
Sbjct: 193  -IDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFE 251

Query: 1173 DEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSL 1232
               M  +   ++    L           + F  L ++  + +    ++    +V      
Sbjct: 252  PSIMEGLCDVTIDEFRLTYT-NDFSDDIVKFHCLANVSAMSLAGV-SIKYLEDVPKHFKW 309

Query: 1233 LSLEIKNC 1240
             SL I  C
Sbjct: 310  QSLSIIRC 317

>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 = 43.1 bits (102), Expect = 7e-04
 Identities = 80/518 (15%), Positives = 147/518 (28%), Gaps = 110/518 (21%)

Query: 772  WNCTSLPSLGL----LSSLRDLTIKRMTNLKSI---GCEFFGKCFSEPFQ---SLEIL-- 819
               TSL +L      L+SL    I ++  LK +               F    +L  +  
Sbjct: 101  SGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDL 160

Query: 820  ---SFEYLPEWERWDTNVDRNEHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKC 876
                 + +   +      +   ++ +   +    I    + + +       L  L +   
Sbjct: 161  SYNYIQTITVNDLQFLRENPQVNLSL--DMSLNPIDFIQDQAFQ----GIKLHELTLRGN 214

Query: 877  QKLKFSLS-SYPMLCRLEADECKELLCRTPIDSKLIKSMTISN-SSLDINGCEGMLHASR 934
                  +      L  L          +   + ++ +   +     + I+        + 
Sbjct: 215  FNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTID----EFRLTY 270

Query: 935  TSSSLLQTETISNALDFFPRNLRYLIIS--EISTLRSLPEEIMDNNSRLESLYIGYCGSL 992
            T+                  N+  + ++   I  L  +P      + + +SL I  C  L
Sbjct: 271  TNDFSDDIVKFHC-----LANVSAMSLAGVSIKYLEDVP-----KHFKWQSLSIIRC-QL 319

Query: 993  KFVTKGKLPSSLKSLQI-ENLTLESLKIRDCPQLTCLS-SGIHL------------LEAL 1038
            K      LP  LKSL +  N    S K    P L+ L  S   L              +L
Sbjct: 320  KQFPTLDLPF-LKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSL 378

Query: 1039 EDLHIRNCPKLESIP---KGLHKLRSIY-----IKKCPSLVSLAEKGLPNTISHVTISYC 1090
              L +        +     GL +L+ +      +K+     +     L   + ++ ISY 
Sbjct: 379  RHLDLSFN-GAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAF--LSLEK-LLYLDISYT 434

Query: 1091 EKLDALPNGM-HKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQW 1149
                   +G+   L SL  LK+    S    +      N                     
Sbjct: 435  -NTKIDFDGIFLGLTSLNTLKMAGN-SFKDNTLSNVFANT-------------------- 472

Query: 1150 GLHRLTSLIGLSIEECH----DAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQS 1205
                 T+L  L + +C         F        L   L  L +   + L +L S  +  
Sbjct: 473  -----TNLTFLDLSKCQLEQISWGVFDT------LH-RLQLLNMSH-NNLLFLDSSHYNQ 519

Query: 1206 LTSLEHLLIEDCPNLTSFPEV--GLPSSLLSLEIKNCP 1241
            L SL  L       + +   +    P SL    + N  
Sbjct: 520  LYSLSTLDCSFN-RIETSKGILQHFPKSLAFFNLTNNS 556

>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 = 49.5 bits (119), Expect = 4e-06
 Identities = 23/105 (21%), Positives = 42/105 (40%), Gaps = 6/105 (5%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
                +     LQ   + ++ +  E+L  +  L +A   + S+      L NLE L L  
Sbjct: 18  DADLAEGIRAVLQKASVTDV-VTQEELESITKLVVAGEKVASIQGIE-YLTNLEYLNLNG 75

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
               I   S +  L+ L +L I     + ++   ++ L NL+ L 
Sbjct: 76  NQ--ITDISPLSNLVKLTNLYIGT-NKITDIS-ALQNLTNLRELY 116

>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 = 48.3 bits (116), Expect = 1e-05
 Identities = 24/105 (22%), Positives = 39/105 (37%), Gaps = 4/105 (3%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           +    +L  L +    I +L  P  +L  L +L +    I  +      L  L++L + +
Sbjct: 217 VANMTRLNSLKIGNNKITDLS-PLANLSQLTWLEIGTNQISDINAVK-DLTKLKMLNVGS 274

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
               I   S +  L  L  L +    L  E    +  L NL TL 
Sbjct: 275 NQ--ISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLF 317

>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 = 45.2 bits (108), Expect = 8e-05
 Identities = 19/105 (18%), Positives = 40/105 (38%), Gaps = 5/105 (4%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           L    K+  L+L   +      P  ++  L YL + ++ ++ +   + +L +L  L L  
Sbjct: 128 LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTPIA-NLTDLYSLSLNY 186

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
               I+  S +  L +L +       +    P     +  L +L 
Sbjct: 187 NQ--IEDISPLASLTSLHYFTAYVNQITDITPVA--NMTRLNSLK 227

>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 = 43.3 bits (103), Expect = 3e-04
 Identities = 22/104 (21%), Positives = 37/104 (35%), Gaps = 4/104 (3%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           L    +L  L +    I ++    +DL  L+ LN+    I  +   + +L  L  L L N
Sbjct: 239 LANLSQLTWLEIGTNQISDIN-AVKDLTKLKMLNVGSNQISDISVLN-NLSQLNSLFLNN 296

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL 652
                +    I  L NL  L +    +    P     L  + + 
Sbjct: 297 NQLGNEDMEVIGGLTNLTTLFLSQNHITDIRPL--ASLSKMDSA 338

>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 = 42.9 bits (102), Expect = 4e-04
 Identities = 22/105 (20%), Positives = 36/105 (34%), Gaps = 5/105 (4%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           L     LR L L    I ++  P  +L  +  LNL      S      ++  L  L +  
Sbjct: 106 LQNLTNLRELYLNEDNISDIS-PLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTE 164

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
               +K  + I  L +L  L +    +    P     L +L   +
Sbjct: 165 SK--VKDVTPIANLTDLYSLSLNYNQIEDISPLA--SLTSLHYFT 205

>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 = 50.3 bits (120), Expect = 4e-06
 Identities = 15/86 (17%), Positives = 33/86 (38%), Gaps = 3/86 (3%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILIL 606
               K ++L  L +    +  L +  + +  L+ L+L+   +  +  +      LE L L
Sbjct: 272 HPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYL 331

Query: 607 RNCSSLIKLPSKIRRLINLCHLDIRG 632
            +  S++ L         L +L +  
Sbjct: 332 DHN-SIVTLKLST--HHTLKNLTLSH 354

>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 = 49.5 bits (118), Expect = 6e-06
 Identities = 18/103 (17%), Positives = 39/103 (37%), Gaps = 4/103 (3%)

Query: 552 FKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCS-LLNLEILILRNCS 610
             +L +L LQ   + +      +   L  ++L+  ++  +       +  LE L + N +
Sbjct: 231 NVELTILKLQHNNLTDTAW-LLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISN-N 288

Query: 611 SLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
            L+ L    + +  L  LD+     L  +     +   L+ L 
Sbjct: 289 RLVALNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLY 330

>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 = 44.5 bits (105), Expect = 2e-04
 Identities = 27/110 (24%), Positives = 44/110 (40%), Gaps = 6/110 (5%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELP-IPFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEIL 604
            LL  F+++ LL+L    I E+    F     ++ L +    IR LP     ++  L +L
Sbjct: 69  ALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVL 128

Query: 605 ILRNCSSLIKLPSKI-RRLINLCHLDIRGAILLKEMPFGM-KELKNLQTL 652
           +L     L  LP  I      L  L +     L+ +     +   +LQ L
Sbjct: 129 VLERN-DLSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNL 176

>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 = 42.6 bits (100), Expect = 8e-04
 Identities = 51/347 (14%), Positives = 107/347 (30%), Gaps = 75/347 (21%)

Query: 940  LQTETISNALDFFP-RNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKG 998
            +QT+ +    +     N + +     ST+R LP  ++D+  ++E L +     ++ +   
Sbjct: 36   MQTQDVYFGFEDITLNNQKIVTFKN-STMRKLPAALLDSFRQVELLNLNDL-QIEEIDTY 93

Query: 999  KLP--SSLKSL-----QIENL---------TLESLKIRDCPQLTCLSSGI-HLLEALEDL 1041
                  +++ L      I  L          L  L +     L+ L  GI H    L  L
Sbjct: 94   AFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTL 152

Query: 1042 HIRNCPKLESIP----KGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKLDALP 1097
             + N   LE I     +    L+++ +     L  +    +P+ + H  +SY   L  L 
Sbjct: 153  SMSNN-NLERIEDDTFQATTSLQNLQLSSN-RLTHVDLSLIPS-LFHANVSYN-LLSTLA 208

Query: 1098 NGMHKLQSLQYLKIKECPSILSFSEEGFPTNLKLIRIGG----GVDAKMYKAVIQWGLHR 1153
                   +++ L        ++         L ++++                    L  
Sbjct: 209  I----PIAVEELDASHNS--INVVRGPVNVELTILKLQHNNLTDTAW----------LLN 252

Query: 1154 LTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRR------------LSKLKYLS-- 1199
               L+ + +      E         M    L  L +              +  LK L   
Sbjct: 253  YPGLVEVDLSYNE-LEKIMYHPFVKM--QRLERLYISNNRLVALNLYGQPIPTLKVLDLS 309

Query: 1200 -------SMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLLSLEIKN 1239
                            LE+L ++   ++ +        +L +L + +
Sbjct: 310  HNHLLHVERNQPQFDRLENLYLDHN-SIVTLKLSTHH-TLKNLTLSH 354

>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 = 49.1 bits (117), Expect = 5e-06
 Identities = 39/269 (14%), Positives = 75/269 (27%), Gaps = 53/269 (19%)

Query: 952  FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIEN 1011
             PRN   L       LR + +        LE + I     L+ +      S+L  L    
Sbjct: 28   LPRNAIELRFVLTK-LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVF-SNLPKLH--- 82

Query: 1012 LTLESLKIRDCPQLTCLSSGI-HLLEALEDLHIRNCPKLESIPKG----LHKLRSIYIKK 1066
                 ++I     L  ++      L  L+ L I N   ++ +P        +   + I+ 
Sbjct: 83   ----EIRIEKANNLLYINPEAFQNLPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQD 137

Query: 1067 CPSLVSLAEK---GLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEE 1123
              ++ ++      GL      + ++    +  + N       L  L + +  ++     +
Sbjct: 138  NINIHTIERNSFVGLSFESVILWLNKN-GIQEIHNSAFNGTQLDELNLSDNNNLEELPND 196

Query: 1124 GFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPAS 1183
             F                        G      L         D        +      +
Sbjct: 197  VF-----------------------HGASGPVIL---------DISRTRIHSLPSYGLEN 224

Query: 1184 LTFLILRRLSKLKYLSSMGFQSLTSLEHL 1212
            L  L  R    LK L +   + L +L   
Sbjct: 225  LKKLRARSTYNLKKLPT--LEKLVALMEA 251

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 47.9 bits (114), Expect = 1e-05
 Identities = 45/254 (17%), Positives = 83/254 (32%), Gaps = 40/254 (15%)

Query: 1000 LPSSLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIP----KG 1055
            LP +   L+     L  ++                   LE + I     LE I       
Sbjct: 28   LPRNAIELRFVLTKLRVIQ----------KGAFSGFGDLEKIEISQNDVLEVIEADVFSN 77

Query: 1056 LHKLRSIYIKKCPSLVSLAE---KGLPNTISHVTISYCEKLDALPNGMH-KLQSLQYLKI 1111
            L KL  I I+K  +L+ +     + LPN + ++ IS    +  LP+           L I
Sbjct: 78   LPKLHEIRIEKANNLLYINPEAFQNLPN-LQYLLISNT-GIKHLPDVHKIHSLQKVLLDI 135

Query: 1112 KECPSILSFSEEGF---PTNLKLIRIGG-GVDAKMYKAVIQWGLHRLTSLIGLSIEECHD 1167
            ++  +I +     F        ++ +   G+      A     L  L      ++EE   
Sbjct: 136  QDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELP- 194

Query: 1168 AESFPDEEMRMMLPASLTFLILRRLS--KLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPE 1225
             + F             +  ++  +S  ++  L S G ++L  L         NL   P 
Sbjct: 195  NDVF----------HGASGPVILDISRTRIHSLPSYGLENLKKLRAR---STYNLKKLPT 241

Query: 1226 VGLPSSLLSLEIKN 1239
            +    +L+   +  
Sbjct: 242  LEKLVALMEASLTY 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 = 44.0 bits (104), Expect = 2e-04
 Identities = 24/106 (22%), Positives = 44/106 (41%), Gaps = 4/106 (3%)

Query: 554 KLRLLSLQG-YYIGELPI-PFEDLR-LLRYLNLADTDIRSLPESSCSLLNLEILILRNCS 610
           +  LL +Q    I  +    F  L      L L    I+ +  S+ +   L+ L L + +
Sbjct: 129 QKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNN 188

Query: 611 SLIKLPSKI-RRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNF 655
           +L +LP+ +         LDI    +     +G++ LK L+  S +
Sbjct: 189 NLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTY 234

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 49.0 bits (117), Expect = 7e-06
 Identities = 30/111 (27%), Positives = 49/111 (44%), Gaps = 5/111 (4%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELPIP-FEDLRLLRYLNLADTDIRSLPESS-CSLLNLEIL 604
           +     + L +L L   +I  + I  F  L  L  L L D  + ++P  +   L  L+ L
Sbjct: 82  NSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKEL 141

Query: 605 ILRNCSSLIKLPSKI-RRLINLCHLDIRGAILLKEMPFGM-KELKNLQTLS 653
            LRN   +  +PS    R+ +L  LD+     L  +  G  + L NL+ L+
Sbjct: 142 WLRNN-PIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLN 191

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 44.0 bits (104), Expect = 3e-04
 Identities = 56/277 (20%), Positives = 98/277 (35%), Gaps = 58/277 (20%)

Query: 952  FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIEN 1011
               N R L + E + ++ +      +   LE L +     ++ +  G   + L +L    
Sbjct: 62   ISTNTRLLNLHE-NQIQIIKVNSFKHLRHLEILQLSRNH-IRTIEIGAF-NGLANLNT-- 116

Query: 1012 LTLESLKIRDCPQLTCLSSGI-HLLEALEDLHIRNCPKLESIP----KGLHKLRSIYIKK 1066
            L L         +LT + +G    L  L++L +RN   +ESIP      +  LR + + +
Sbjct: 117  LELFD------NRLTTIPNGAFVYLSKLKELWLRNN-PIESIPSYAFNRIPSLRRLDLGE 169

Query: 1067 CPSLVSLAE---KGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEE 1123
               L  ++E   +GL N + ++ ++ C  L  +PN    L  L  L +     + +    
Sbjct: 170  LKRLSYISEGAFEGLSN-LRYLNLAMC-NLREIPNLTP-LIKLDELDLSGNH-LSAIRPG 225

Query: 1124 GFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLI--GLSIEECHDAESFPDEEMRMMLP 1181
             F                        GL  L  L      I+      +F +      L 
Sbjct: 226  SF-----------------------QGLMHLQKLWMIQSQIQVIE-RNAFDN------LQ 255

Query: 1182 ASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCP 1218
             SL  + L   + L  L    F  L  LE + +   P
Sbjct: 256  -SLVEINLAH-NNLTLLPHDLFTPLHHLERIHLHHNP 290

>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 = 48.6 bits (116), Expect = 8e-06
 Identities = 48/301 (15%), Positives = 96/301 (31%), Gaps = 62/301 (20%)

Query: 952  FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQI-- 1009
                ++ L +S  + +  +    +     L++L +   G +  + +    SSL SL+   
Sbjct: 50   LTEAVKSLDLSN-NRITYISNSDLQRCVNLQALVLTSNG-INTIEED-SFSSLGSLEHLD 106

Query: 1010 --------------ENLT-LESLKIRDCPQLTCLSSGI--HLLEALEDLHIRNCPKLESI 1052
                          + L+ L  L +        L        L  L+ L + N      I
Sbjct: 107  LSYNYLSNLSSSWFKPLSSLTFLNLLGN-PYKTLGETSLFSHLTKLQILRVGNMDTFTKI 165

Query: 1053 PKG----LHKLRSIYIKKCP--SLVSLAEKGLPNTISHVTISYCEKLDALPNGM-HKLQS 1105
             +     L  L  + I      S    + K + N +SH+ +    +   L         S
Sbjct: 166  QRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQN-VSHLILHMK-QHILLLEIFVDVTSS 223

Query: 1106 LQYLKIKECPSILSFSEEGFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEEC 1165
            ++ L++++   + +F      T                       L +  +   + I   
Sbjct: 224  VECLELRD-TDLDTFHFSELSTGETN------------------SLIKKFTFRNVKI--- 261

Query: 1166 HDAESFPDEEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIE------DCPN 1219
             D   F   ++   +   L  L   R ++LK +    F  LTSL+ + +        CP 
Sbjct: 262  TDESLFQVMKLLNQIS-GLLELEFSR-NQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPR 319

Query: 1220 L 1220
            +
Sbjct: 320  I 320

>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 = 43.6 bits (103), Expect = 3e-04
 Identities = 30/104 (28%), Positives = 46/104 (44%), Gaps = 4/104 (3%)

Query: 554 KLRLLSLQGYYIGELPI-PFEDLRLLRYLNLADTDIRSLPESSC--SLLNLEILILRNCS 610
            L  L L   Y+  L    F+ L  L +LNL     ++L E+S    L  L+IL + N  
Sbjct: 101 SLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMD 160

Query: 611 SLIKLPSKI-RRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
           +  K+  K    L  L  L+I  + L    P  +K ++N+  L 
Sbjct: 161 TFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLI 204

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 48.9 bits (116), Expect = 9e-06
 Identities = 35/132 (26%), Positives = 47/132 (35%), Gaps = 14/132 (10%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           L   K L  L L    I +L    +DL+ L+ L+L    I  +      L  LE L L N
Sbjct: 83  LTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSLSLEHNGISDI-NGLVHLPQLESLYLGN 140

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS---NFVVGKGGETAS 665
               I   + + RL  L  L +    +   +P     L  LQ L    N +         
Sbjct: 141 NK--ITDITVLSRLTKLDTLSLEDNQISDIVPL--AGLTKLQNLYLSKNHI-----SDLR 191

Query: 666 GLEDLKILKFLS 677
            L  LK L  L 
Sbjct: 192 ALAGLKNLDVLE 203

>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 = 47.7 bits (114), Expect = 1e-05
 Identities = 24/113 (21%), Positives = 44/113 (38%), Gaps = 8/113 (7%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELPIP---FEDLRLLRYLNLADTDIRSLPESSCSLLNLEI 603
            +  K  +L  LSL    +               L+YL+L+   + ++  +   L  LE 
Sbjct: 46  GVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEH 105

Query: 604 LILRNCSSLIKLPSK--IRRLINLCHLDIRGAILLKEMPFGM-KELKNLQTLS 653
           L  ++  +L ++        L NL +LDI      +    G+   L +L+ L 
Sbjct: 106 LDFQHS-NLKQMSEFSVFLSLRNLIYLDISH-THTRVAFNGIFNGLSSLEVLK 156

>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 = 42.3 bits (100), Expect = 7e-04
 Identities = 40/212 (18%), Positives = 80/212 (37%), Gaps = 39/212 (18%)

Query: 1033 HLLEALEDLHIRNCPKLESIPKG----LHKLRSIYIKKCP----SLVSLAEKGLPNTISH 1084
             +  +   L + +  KL+S+P G    L +L  + +           S ++ G  + + +
Sbjct: 25   GIPSSATRLELESN-KLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTS-LKY 82

Query: 1085 VTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEEGFPTNL-----------KLIR 1133
            + +S+   +  + +    L+ L++L  +    +   SE     +L               
Sbjct: 83   LDLSFN-GVITMSSNFLGLEQLEHLDFQHSN-LKQMSEFSVFLSLRNLIYLDISHTHTRV 140

Query: 1134 IGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPDEEMRMMLPASLTFLILRRLS 1193
               G+             + L+SL  L +      E+F  +    +   +LTFL L +  
Sbjct: 141  AFNGI------------FNGLSSLEVLKMAGNSFQENFLPDIFTEL--RNLTFLDLSQ-C 185

Query: 1194 KLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPE 1225
            +L+ LS   F SL+SL+ L +    N  S   
Sbjct: 186  QLEQLSPTAFNSLSSLQVLNMSHN-NFFSLDT 216

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 48.2 bits (115), Expect = 1e-05
 Identities = 30/111 (27%), Positives = 47/111 (42%), Gaps = 5/111 (4%)

Query: 547 DLLPKFKKLRLLSLQGYYIGELPI-PFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEIL 604
           D       L +L L    I ++ +  F  L  L  L L D  +  +P  +   L  L  L
Sbjct: 93  DTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLREL 152

Query: 605 ILRNCSSLIKLPSKI-RRLINLCHLDIRGAILLKEMPFGM-KELKNLQTLS 653
            LRN   +  +PS    R+ +L  LD+     L+ +  G  + L NL+ L+
Sbjct: 153 WLRNN-PIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLN 202

>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 = 44.7 bits (106), Expect = 2e-04
 Identities = 32/185 (17%), Positives = 66/185 (35%), Gaps = 22/185 (11%)

Query: 954  RNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLT 1013
             +L  L +   +++R +     +  + L +L +     L  +  G     L  L+     
Sbjct: 99   HHLEVLQLGR-NSIRQIEVGAFNGLASLNTLELFDN-WLTVIPSG-AFEYLSKLR----- 150

Query: 1014 LESLKIRDCPQLTCLSSGI-HLLEALEDLHIRNCPKLESIP----KGLHKLRSIYIKKCP 1068
               L +R+   +  + S   + + +L  L +    KLE I     +GL  L+ + +  C 
Sbjct: 151  --ELWLRNN-PIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMC- 206

Query: 1069 SLVSLAE-KGLPNTISHVTISYCEKLDALPNGM-HKLQSLQYLKIKECPSILSFSEEGFP 1126
            ++  +     L   +  + +S       +  G  H L SL+ L +     +       F 
Sbjct: 207  NIKDMPNLTPLVG-LEELEMSGN-HFPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNAFD 263

Query: 1127 TNLKL 1131
                L
Sbjct: 264  GLASL 268

>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 = 44.4 bits (105), Expect = 2e-04
 Identities = 62/279 (22%), Positives = 99/279 (35%), Gaps = 62/279 (22%)

Query: 952  FPRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIEN 1011
             P N RYL + E + ++ +  +   +   LE L +G    ++ +  G   + L SL    
Sbjct: 73   IPSNTRYLNLME-NNIQMIQADTFRHLHHLEVLQLGRNS-IRQIEVGAF-NGLASLNT-- 127

Query: 1012 LTLESLKIRDCPQLTCLSSGI-HLLEALEDLHIRNCPKLESIP----KGLHKLRSIYIKK 1066
            L L          LT + SG    L  L +L +RN   +ESIP      +  L  + + +
Sbjct: 128  LELFD------NWLTVIPSGAFEYLSKLRELWLRNN-PIESIPSYAFNRVPSLMRLDLGE 180

Query: 1067 CPSLVSLAE---KGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSILSFSEE 1123
               L  ++E   +GL N + ++ +  C  +  +PN    L  L+ L        +S    
Sbjct: 181  LKKLEYISEGAFEGLFN-LKYLNLGMC-NIKDMPNLTP-LVGLEEL-------EMS---- 226

Query: 1124 GFPTNLKLIRIGGGVDAKMYKAVIQWGLHRLTSLIGLSIEECH----DAESFPDEEMRMM 1179
                      I  G              H L+SL  L +        +  +F        
Sbjct: 227  ----GNHFPEIRPGS------------FHGLSSLKKLWVMNSQVSLIERNAFDG------ 264

Query: 1180 LPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCP 1218
            L  SL  L L   + L  L    F  L  L  L +   P
Sbjct: 265  LA-SLVELNLAH-NNLSSLPHDLFTPLRYLVELHLHHNP 301

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 48.0 bits (115), Expect = 2e-05
 Identities = 17/105 (16%), Positives = 33/105 (31%), Gaps = 6/105 (5%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
                +     L    + +  +   DL  +  L      I+S+      L NL  +   N
Sbjct: 20  DTALAEKMKTVLGKTNVTDT-VSQTDLDQVTTLQADRLGIKSIDGVE-YLNNLTQINFSN 77

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
               +   + ++ L  L  + +    +    P     L NL  L+
Sbjct: 78  NQ--LTDITPLKNLTKLVDILMNNNQIADITPLA--NLTNLTGLT 118

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 47.3 bits (113), Expect = 3e-05
 Identities = 17/108 (15%), Positives = 38/108 (35%), Gaps = 4/108 (3%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           L     +  LS     I +L  P  +L  +  L L D    + P +  + +++   +  N
Sbjct: 349 LANLTNINWLSAGHNQISDLT-PLANLTRITQLGLNDQAWTNAPVNYKANVSIPNTVK-N 406

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAIL--LKEMPFGMKELKNLQTLSN 654
            +  +  P+ I    +    DI   +     E+ +   +   +   + 
Sbjct: 407 VTGALIAPATISDGGSYTEPDITWNLPSYTNEVSYTFSQPVTIGKGTT 454

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 47.3 bits (113), Expect = 3e-05
 Identities = 24/105 (22%), Positives = 38/105 (36%), Gaps = 7/105 (6%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           L    KL  + +    I ++  P  +L  L  L L +  I  +     +L NL  L L +
Sbjct: 86  LKNLTKLVDILMNNNQIADIT-PLANLTNLTGLTLFNNQITDIDPLK-NLTNLNRLELSS 143

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
            +  I   S +  L +L  L     +     P     L  L+ L 
Sbjct: 144 NT--ISDISALSGLTSLQQLSFGNQV-TDLKPLA--NLTTLERLD 183

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 45.7 bits (109), Expect = 8e-05
 Identities = 50/308 (16%), Positives = 100/308 (32%), Gaps = 55/308 (17%)

Query: 955  NLRYLI-----ISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQI 1009
            NL  L      I++I  L++L        + L  L +             L S L+ L  
Sbjct: 113  NLTGLTLFNNQITDIDPLKNL--------TNLNRLELSSNTISDISALSGLTS-LQQLSF 163

Query: 1010 ENLTLESLKIRDCPQLTCLS---------SGIHLLEALEDLHIRNCPKLESIP--KGLHK 1058
             N   +   + +   L  L          S +  L  LE L   N  ++  I     L  
Sbjct: 164  GNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNN-QISDITPLGILTN 222

Query: 1059 LRSIYIKKCPSLVSLAE-KGLPNTISHVTISYCEKLDALPNGMHKLQSLQYLKIKECPSI 1117
            L  + +     L  +     L N ++ + ++   ++  L   +  L  L  LK+     I
Sbjct: 223  LDELSLNGN-QLKDIGTLASLTN-LTDLDLANN-QISNLAP-LSGLTKLTELKLGANQ-I 277

Query: 1118 LSFSEEGFPTNLKLIRIGG----GVDAKMYKAVIQWGLHRLTSLIGLSIEECHDAESFPD 1173
             + S     T L  + +       +            +  L +L  L++   + ++  P 
Sbjct: 278  SNISPLAGLTALTNLELNENQLEDIS----------PISNLKNLTYLTLYFNNISDISPV 327

Query: 1174 EEMRMMLPASLTFLILRRLSKLKYLSSMGFQSLTSLEHLLIEDCPNLTSFPEVGLPSSLL 1233
              +       L  L     +K+  +SS    +LT++  L       ++    +   + + 
Sbjct: 328  SSLT-----KLQRLFFYN-NKVSDVSS--LANLTNINWLSAGHN-QISDLTPLANLTRIT 378

Query: 1234 SLEIKNCP 1241
             L + +  
Sbjct: 379  QLGLNDQA 386

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 44.6 bits (106), Expect = 2e-04
 Identities = 27/105 (25%), Positives = 35/105 (33%), Gaps = 6/105 (5%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           L     L  L L    I  L  P   L  L  L L    I ++   +  L  L  L L  
Sbjct: 239 LASLTNLTDLDLANNQISNLA-PLSGLTKLTELKLGANQISNISPLA-GLTALTNLELNE 296

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
               ++  S I  L NL +L +    +    P     L  LQ L 
Sbjct: 297 NQ--LEDISPISNLKNLTYLTLYFNNISDISPVS--SLTKLQRLF 337

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 44.6 bits (106), Expect = 2e-04
 Identities = 27/135 (20%), Positives = 45/135 (33%), Gaps = 9/135 (6%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           L     L  L L    + ++  P  +L+ L YL L   +I  +   S SL  L+ L   N
Sbjct: 283 LAGLTALTNLELNENQLEDIS-PISNLKNLTYLTLYFNNISDISPVS-SLTKLQRLFFYN 340

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL---SNFVVGKGGETAS 665
               +   S +  L N+  L      +    P     L  +  L               +
Sbjct: 341 N--KVSDVSSLANLTNINWLSAGHNQISDLTPLA--NLTRITQLGLNDQAWTNAPVNYKA 396

Query: 666 GLEDLKILKFLSGEL 680
            +     +K ++G L
Sbjct: 397 NVSIPNTVKNVTGAL 411

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 43.8 bits (104), Expect = 3e-04
 Identities = 55/349 (15%), Positives = 105/349 (30%), Gaps = 74/349 (21%)

Query: 552 FKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSS 611
             ++  L      I  +    E L  L  +N ++  +  +     +L  L  +++ N   
Sbjct: 45  LDQVTTLQADRLGIKSID-GVEYLNNLTQINFSNNQLTDITPLK-NLTKLVDILMNNN-- 100

Query: 612 LIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL---SNFVVGKGGETASGLE 668
            I   + +  L NL  L +    +    P     L NL  L   SN +        S L 
Sbjct: 101 QIADITPLANLTNLTGLTLFNNQITDIDPLK--NLTNLNRLELSSNTI-----SDISALS 153

Query: 669 DLKILKFLSGELCISGLQNVNDSKNARE-----------AALCEKLNLEALSLEWGSQFD 717
            L  L+ LS    ++ L+ + +                 + L +  NLE+L        +
Sbjct: 154 GLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIAT-----N 208

Query: 718 NSRDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGD------PLFSKMNVLELDDC 771
           N          +  + P   +  L           L +           + +  L   D 
Sbjct: 209 NQ---------ISDITPLGILTNLDE---------LSLNGNQLKDIGTLASLTNLTDLDL 250

Query: 772 WNC--TSLPSLGLLSSLRDLTIKRMTNLKSIGCEFFGKCFSEPFQSLEILSFEYLPEWER 829
            N   ++L  L  L+ L +L +     + +I              +L  L          
Sbjct: 251 ANNQISNLAPLSGLTKLTELKLGA-NQISNI--SPLAGL-----TALTNLELN------- 295

Query: 830 WDTNVDRNEHVEIFPRLQKLSIVECPELSGKVP-ELLPSLKTLVVSKCQ 877
            +  ++    +     L  L++     +S   P   L  L+ L     +
Sbjct: 296 -ENQLEDISPISNLKNLTYLTLYFN-NISDISPVSSLTKLQRLFFYNNK 342

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 46.2 bits (110), Expect = 3e-05
 Identities = 32/132 (24%), Positives = 52/132 (39%), Gaps = 15/132 (11%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           +  F  L+ L L    I +L  P +DL  L  L++    +++L  +      L  L L N
Sbjct: 59  MQFFTNLKELHLSHNQISDLS-PLKDLTKLEELSVNRNRLKNL--NGIPSACLSRLFLDN 115

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS---NFVVGKGGETAS 665
               ++    +  L NL  L IR    LK +   +  L  L+ L    N +         
Sbjct: 116 NE--LRDTDSLIHLKNLEILSIRNN-KLKSIV-MLGFLSKLEVLDLHGNEI-----TNTG 166

Query: 666 GLEDLKILKFLS 677
           GL  LK + ++ 
Sbjct: 167 GLTRLKKVNWID 178

>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 = 46.8 bits (111), Expect = 4e-05
 Identities = 89/523 (17%), Positives = 158/523 (30%), Gaps = 87/523 (16%)

Query: 555  LRLLSLQGYYIGELPIP-FEDLRLLRYLNLADTDIRSLPESSC-SLLNLEILILRNCSSL 612
             + LSL    I EL +P    L  LR L L+   IRSL         +LE L + + + L
Sbjct: 54   TKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSH-NRL 112

Query: 613  IKLPSKIRRLINLCHLDIRGAILLKEMPFGM--KELKNLQTLSNFVVGKGGETASGLEDL 670
              +      + +L HLD+        +P       L  L  L           A+    L
Sbjct: 113  QNISCC--PMASLRHLDLSFN-DFDVLPVCKEFGNLTKLTFLGLS--------AAKFRQL 161

Query: 671  KILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNSRDEVAEEQVLG 730
             +L      L    L  V+      E    +  N   L L +      S         LG
Sbjct: 162  DLLPVAHLHLSCILLDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALG 221

Query: 731  VLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNC-TSLPSLGLLSSLRDL 789
             LQ           +            P    + +  ++  W C   L        +  L
Sbjct: 222  HLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYL 281

Query: 790  TIKRMTNLKSIGCEFFGKCFSE----PFQSLEILSFEYLPEW-ERWDTNVDRNEHVEIFP 844
             I  +T  + I  E F    +       + ++   F +  E        ++         
Sbjct: 282  NIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMN--------- 332

Query: 845  RLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADECKELLCRT 904
             ++ LSI + P +    P    S   L  ++                     C  L    
Sbjct: 333  -IKMLSISDTPFIHMVCPPSPSSFTFLNFTQNV-----------FTDSVFQGCSTL---- 376

Query: 905  PIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLRYLIISEI 964
                       +    L  NG +     +  + ++   ET+  +L+    +         
Sbjct: 377  ---------KRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSH-------AY 420

Query: 965  STLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENLTLESLKIRDCPQ 1024
                +  E        +  L +        V +  LP  +K L + N            +
Sbjct: 421  DRTCAWAE-------SILVLNLSSNMLTGSVFR-CLPPKVKVLDLHN-----------NR 461

Query: 1025 LTCLSSGIHLLEALEDLHIRNCPKLESIPKG----LHKLRSIY 1063
            +  +   +  L+AL++L++ +  +L+S+P G    L  L+ I+
Sbjct: 462  IMSIPKDVTHLQALQELNVAS-NQLKSVPDGVFDRLTSLQYIW 503

>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 = 46.4 bits (110), Expect = 5e-05
 Identities = 59/450 (13%), Positives = 131/450 (29%), Gaps = 76/450 (16%)

Query: 551 KFKKLRLLSLQGYYIGELPIP--FEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
               LR L L       LP+   F +L  L +L L+    R L     + L+L  ++L  
Sbjct: 119 PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDL 178

Query: 609 CS---------SLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSNFVVGK 659
            S         SL    + +  L+   +      + +     G  +L N++         
Sbjct: 179 VSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRL 238

Query: 660 GGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNS 719
               +       +L      +  +   +V   +      + E LN+  L++      +  
Sbjct: 239 MTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPV-EYLNIYNLTITERIDREEF 297

Query: 720 RDEVAEEQVLGVLQPYKFVKELTIKRYGGARFPLWIGDPLFSKMNVLELDDCWNCTSLPS 779
                  + L +         +  + +        +   +F++MN+  L    + T    
Sbjct: 298 TYSETALKSLMIEH-------VKNQVF--LFSKEALYS-VFAEMNIKMLSI--SDTPFIH 345

Query: 780 LGLLSSLRDLTIKRMTN--LKSIGCEFFGKCFSEPFQSLEILSFEYLPEWERWDTNVDRN 837
           +    S    T    T         +          + L+ L              + RN
Sbjct: 346 MVCPPSPSSFTFLNFTQNVFTDSVFQGCST-----LKRLQTL-------------ILQRN 387

Query: 838 EHVEIFPRLQKLSIVECPELSGKVPELLPSLKTLVVSKCQKLKFSLSSYPMLCRLEADEC 897
                   L+            KV  +  ++ +L          +  +Y   C       
Sbjct: 388 -------GLKNFF---------KVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESIL 431

Query: 898 KELLCRTPIDSKLIKSMTISNSSLDINGCEGMLHASRTSSSLLQTETISNALDFFPRNLR 957
              L    +   + + +      LD++                +  +I   +      L+
Sbjct: 432 VLNLSSNMLTGSVFRCLPPKVKVLDLHNN--------------RIMSIPKDVTHLQ-ALQ 476

Query: 958 YLIISEISTLRSLPEEIMDNNSRLESLYIG 987
            L ++    L+S+P+ + D  + L+ +++ 
Sbjct: 477 ELNVASNQ-LKSVPDGVFDRLTSLQYIWLH 505

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 43.5 bits (103), Expect = 6e-05
 Identities = 21/97 (21%), Positives = 35/97 (36%), Gaps = 3/97 (3%)

Query: 538 CYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPES-SC 596
                  L  L  +F++L  LS     +  +      L  L+ L L+D  +    E  + 
Sbjct: 27  SRSNEGKLEGLTDEFEELEFLSTINVGLTSIAN-LPKLNKLKKLELSDNRVSGGLEVLAE 85

Query: 597 SLLNLEILILRNCS-SLIKLPSKIRRLINLCHLDIRG 632
              NL  L L       +     +++L NL  LD+  
Sbjct: 86  KCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFN 122

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 44.7 bits (106), Expect = 1e-04
 Identities = 28/132 (21%), Positives = 50/132 (37%), Gaps = 14/132 (10%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           +     +  L L G  + ++  P  +L+ L +L L +  ++ L  S   L  L+ L L +
Sbjct: 64  IQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDENKVKDL-SSLKDLKKLKSLSLEH 121

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS---NFVVGKGGETAS 665
               I   + +  L  L  L +     + ++   +  L  L TLS   N +         
Sbjct: 122 NG--ISDINGLVHLPQLESLYLGN-NKITDIT-VLSRLTKLDTLSLEDNQI-----SDIV 172

Query: 666 GLEDLKILKFLS 677
            L  L  L+ L 
Sbjct: 173 PLAGLTKLQNLY 184

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 24/106 (22%), Positives = 36/106 (33%), Gaps = 4/106 (3%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           L    +L  L L    I ++      L  L  L+L D  I  +   +  L  L+ L L  
Sbjct: 130 LVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDNQISDIVPLA-GLTKLQNLYLSK 187

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSN 654
               I     +  L NL  L++     L +       L    T+ N
Sbjct: 188 NH--ISDLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKN 231

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 34/132 (25%), Positives = 47/132 (35%), Gaps = 14/132 (10%)

Query: 549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRN 608
           L   K L  L L    + +L    +DL+ L+ L+L    I  +      L  LE L L N
Sbjct: 86  LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLEHNGISDINGLV-HLPQLESLYLGN 143

Query: 609 CSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS---NFVVGKGGETAS 665
               I   + + RL  L  L +    +   +P     L  LQ L    N +         
Sbjct: 144 NK--ITDITVLSRLTKLDTLSLEDNQISDIVPL--AGLTKLQNLYLSKNHI-----SDLR 194

Query: 666 GLEDLKILKFLS 677
            L  LK L  L 
Sbjct: 195 ALAGLKNLDVLE 206

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A Length = 176

 Score = 42.9 bits (101), Expect = 2e-04
 Identities = 17/132 (12%), Positives = 51/132 (38%), Gaps = 19/132 (14%)

Query: 990  GSLKFVTKGKLPS---SLKSLQIENLTLESLKIRDCPQLTCLSSGIHLLEALEDLHIRNC 1046
              +++  + +       L +  ++   ++++   D   ++     +  L+ +E + +  C
Sbjct: 36   AMVRYHGQQRWQKDYNHLPTGPLDKYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKC 95

Query: 1047 PKLESIPKGLHKLRSIYIKKCPSLVSLAEKGLPNTISHVTISYCEKL-DALPNGMHKLQS 1105
              +E     L +L  +             + L  ++  + I  C  + D     +H  ++
Sbjct: 96   HYIED--GCLERLSQL-------------ENLQKSMLEMEIISCGNVTDKGIIALHHFRN 140

Query: 1106 LQYLKIKECPSI 1117
            L+YL + + P +
Sbjct: 141  LKYLFLSDLPGV 152

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 29/147 (19%), Positives = 57/147 (38%), Gaps = 17/147 (11%)

Query: 534 YIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPE 593
                 +T++   + +     L  L L+   I +L  P ++L  +  L L+   ++++  
Sbjct: 47  SAFGTGVTTI---EGVQYLNNLIGLELKDNQITDLA-PLKNLTKITELELSGNPLKNVSA 102

Query: 594 SSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLS 653
            +  L +++ L L +    I   + +  L NL  L +     +  +   +  L NLQ LS
Sbjct: 103 IA-GLQSIKTLDLTSTQ--ITDVTPLAGLSNLQVLYLDLN-QITNIS-PLAGLTNLQYLS 157

Query: 654 ---NFVVGKGGETASGLEDLKILKFLS 677
                V        + L +L  L  L 
Sbjct: 158 IGNAQV-----SDLTPLANLSKLTTLK 179

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 43.5 bits (103), Expect = 3e-04
 Identities = 36/195 (18%), Positives = 77/195 (39%), Gaps = 38/195 (19%)

Query: 953  PRNLRYLIISEISTLRSLPEEIMDNNSRLESLYIGYCGSLKFVTKGKLPSSLKSLQIENL 1012
            P+ L+ L + E + +  + + + +  +++  + +G                LKS  IEN 
Sbjct: 120  PKTLQELRVHE-NEITKVRKSVFNGLNQMIVVELGTN-------------PLKSSGIENG 165

Query: 1013 T------LESLKIRDCPQLTCLSSGIHLLEALEDLHIRNCPKLESIP----KGLHKLRSI 1062
                   L  ++I D   +T +  G  L  +L +LH+    K+  +     KGL+ L  +
Sbjct: 166  AFQGMKKLSYIRIADT-NITTIPQG--LPPSLTELHLDGN-KITKVDAASLKGLNNLAKL 221

Query: 1063 YIKKCP--SLVSLAEKGLPNTISHVTISYCEKLDALPNGMHKLQSLQYL-----KIKECP 1115
             +      ++ + +    P+ +  + ++   KL  +P G+   + +Q +      I    
Sbjct: 222  GLSFNSISAVDNGSLANTPH-LRELHLNNN-KLVKVPGGLADHKYIQVVYLHNNNISAIG 279

Query: 1116 SILSFSEEGFPTNLK 1130
            S   F   G+ T   
Sbjct: 280  S-NDFCPPGYNTKKA 293

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 23/125 (18%), Positives = 48/125 (38%), Gaps = 28/125 (22%)

Query: 554 KLRLLSLQGYYIGELPIP---FEDLRLLRYLNLADTDIRSLPESSCS------------- 597
           ++ ++ L    +    I    F+ ++ L Y+ +ADT+I ++P+                 
Sbjct: 146 QMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKIT 205

Query: 598 ---------LLNLEILILRNCSSLIKLPSKI-RRLINLCHLDIRGAILLKEMPFGMKELK 647
                    L NL  L L    S+  + +       +L  L +     L ++P G+ + K
Sbjct: 206 KVDAASLKGLNNLAKLGLSFN-SISAVDNGSLANTPHLRELHLNNN-KLVKVPGGLADHK 263

Query: 648 NLQTL 652
            +Q +
Sbjct: 264 YIQVV 268

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 43.4 bits (103), Expect = 5e-04
 Identities = 27/146 (18%), Positives = 46/146 (31%), Gaps = 14/146 (9%)

Query: 555 LRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIK 614
           L    L       +      L  L  L L+++ I           +L  L L   S    
Sbjct: 57  LSSKPLNVG-FSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGP 115

Query: 615 LPSK--IRRLINLCHLDIRGAILLKEMPF-GMKELKNLQTL---SNFVVGKGGETASGLE 668
           + +   +     L  L++    L       G  +L +L+ L   +N + G         +
Sbjct: 116 VTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSD 175

Query: 669 DLKILKFL-------SGELCISGLQN 687
               LK L       SG++ +S   N
Sbjct: 176 GCGELKHLAISGNKISGDVDVSRCVN 201

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	1277
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	9e-57
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.001
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.002
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	0.003

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score =  195 bits (497), Expect = 9e-57
 Identities = 41/290 (14%), Positives = 90/290 (31%), Gaps = 27/290 (9%)

Query: 125 STAAAQRRPPSSSVPTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTT 184
           S     R+    +VP +   + RE    ++++ +         +   + + G  G GK+ 
Sbjct: 3   SRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKL---DEMCDLDSFFLFLHGRAGSGKSV 59

Query: 185 LAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCD----------LK 234
           +A +  +         +D   W+  S      +        +   + D          + 
Sbjct: 60  IASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVT 119

Query: 235 TVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHVAS 294
           +V   ++     +D    L V DDV  E+   W              + ++TTR+  +++
Sbjct: 120 SVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELR--------LRCLVTTRDVEISN 171

Query: 295 TM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL 353
                 +   +  L  D+C+   + +             E    K +    G P      
Sbjct: 172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEK---EEDVLNKTIELSSGNPATLMMF 228

Query: 354 GGLLRTTTYDMWDDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAY 403
                  T++    + +    +      +  +   SY  L   L+RC   
Sbjct: 229 FKSCEPKTFEKMAQLNNK--LESRGLVGVECITPYSYKSLAMALQRCVEV 276

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 39.8 bits (91), Expect = 0.001
 Identities = 19/126 (15%), Positives = 37/126 (29%), Gaps = 7/126 (5%)

Query: 500 HSSYACGELDGRNKFKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLS 559
                  +L    +   F ++              +     +S  +  L      L  L+
Sbjct: 231 VRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELN 290

Query: 560 LQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKI 619
           +    + ELP        L  L  +   +  +PE      NL+ L +     L + P   
Sbjct: 291 VSNNKLIELP---ALPPRLERLIASFNHLAEVPE---LPQNLKQLHVEYN-PLREFPDIP 343

Query: 620 RRLINL 625
             + +L
Sbjct: 344 ESVEDL 349

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 39.8 bits (91), Expect = 0.002
 Identities = 18/79 (22%), Positives = 33/79 (41%), Gaps = 8/79 (10%)

Query: 572 FEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIR 631
            +    L  LN+++  +  LP        LE LI      L ++P   +   NL  L + 
Sbjct: 280 CDLPPSLEELNVSNNKLIELPA---LPPRLERLIASFN-HLAEVPELPQ---NLKQLHVE 332

Query: 632 GAILLKEMPFGMKELKNLQ 650
               L+E P   + +++L+
Sbjct: 333 YN-PLREFPDIPESVEDLR 350

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 242

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.4 bits (87), Expect = 0.003
 Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 2/46 (4%)

Query: 572 FEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPS 617
           F        L+++ T I SLP       NL+ L  R+  +L KLP+
Sbjct: 197 FHGASGPVILDISRTRIHSLPSYGLE--NLKKLRARSTYNLKKLPT 240

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	1277
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.91
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.87
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.85
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.83
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.82
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.81
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.8
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.8
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.76
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.74
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.69
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.66
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.61
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.57
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.54
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.53
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.5
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.5
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.5
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.47
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.43
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.39
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.37
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.37
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.35
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.31
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.2
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.17
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.16
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.13
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.12
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.12
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.1
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.06
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.05
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.04
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.02
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.01
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.99
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.94
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.92
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.87
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.79
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.76
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.76
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.71
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.7
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.68
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.56
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.53
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.49
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.47
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.44
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.19
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.19
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.16
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.08
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.82
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.71
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.57
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.5
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.17
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	97.05
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	97.02
d1xpua3	289	Transcription termination factor Rho, ATPase domai	97.01
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.0
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.99
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.98
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.93
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.92
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.9
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.89
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.83
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.83
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.83
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.78
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.76
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.75
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.75
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.68
d1okkd2	207	GTPase domain of the signal recognition particle r	96.67
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.66
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.61
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.56
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.54
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.5
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.5
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.49
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.49
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.49
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.42
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.4
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.38
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.38
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.34
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.32
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.29
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.28
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.27
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.24
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.18
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.14
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.14
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.14
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.12
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.11
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.08
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.05
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.02
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.01
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.0
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.9
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.82
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.8
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.79
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.78
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.77
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.76
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	95.71
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.69
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.68
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.67
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.63
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.57
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.55
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.48
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.47
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.47
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.4
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.32
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	95.27
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.24
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.22
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.13
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.11
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.08
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.05
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.99
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.97
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	94.91
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	94.88
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	94.87
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.87
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.86
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	94.86
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.85
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.79
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	94.76
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.68
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.68
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	94.55
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.54
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.52
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.44
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	94.39
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.32
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	94.29
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.18
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.06
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.06
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.03
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.03
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.01
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	93.98
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.97
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.85
d2awna2	232	Maltose transport protein MalK, N-terminal domain	93.83
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	93.8
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	93.61
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.47
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.45
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.29
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.25
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.24
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.19
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.09
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.08
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.06
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.0
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.88
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	92.87
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.85
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.8
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	92.76
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	92.76
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.71
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.7
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	92.67
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.67
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	92.62
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.59
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	92.58
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	92.55
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.54
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	92.51
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.5
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.5
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.48
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	92.42
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	92.39
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.38
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.36
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.3
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.29
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.27
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.26
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.22
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.17
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.14
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.1
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.08
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.06
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.06
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	92.05
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.0
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	91.96
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	91.95
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	91.93
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	91.93
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	91.87
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.83
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	91.83
d1nrjb_	209	Signal recognition particle receptor beta-subunit	91.82
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.75
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.67
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	91.67
d2fh5b1	207	Signal recognition particle receptor beta-subunit	91.63
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.59
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	91.57
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.51
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	91.45
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.38
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	91.26
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	91.25
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	91.2
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.2
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.16
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.14
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.13
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.09
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.08
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.02
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	90.97
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	90.85
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.52
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	90.51
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.4
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.13
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	89.98
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	89.91
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	89.91
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	89.9
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	89.74
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	89.74
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	89.64
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	89.58
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	89.3
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	89.29
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	89.02
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	88.84
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	88.51
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	87.96
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.96
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	87.95
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	87.3
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	86.29
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	86.22
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	86.21
d1tuea_	205	Replication protein E1 helicase domain {Human papi	85.94
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	85.44
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	84.24
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	83.92
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	83.79
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	82.97
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	81.92
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	81.75
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	80.17

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=0  Score=295.74  Aligned_cols=252  Identities=15%  Similarity=0.178  Sum_probs=194.4

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHH
Q ss_conf             99998721350456999999971143258998089999926999099999999625244345885338999937876889
Q 000803          137 SVPTEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVL  216 (1277)
Q Consensus       137 ~~~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  216 (1277)
                      ..|.++.+|||+.++++|+++|....+   .+.++++|+||||+||||||+++|++.......+|++++|+++++.++..
T Consensus        15 ~~p~~~~~~gR~~~~~~i~~~L~~~~~---~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~   91 (277)
T d2a5yb3          15 NVPKQMTCYIREYHVDRVIKKLDEMCD---LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKS   91 (277)
T ss_dssp             TCBCCCCSCCCHHHHHHHHHHHHHHTT---SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTH
T ss_pred             CCCCCCCEECCHHHHHHHHHHHHHCCC---CCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCHH
T ss_conf             899988623739999999999873468---78408999779978889999999985565540127648999936877777


Q ss_pred             HHHHHHHHHH---CCCCC-------CCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEEE
Q ss_conf             9999999982---07899-------9886899999999830596399996375530678687621134449999589998
Q 000803          217 SISKALLESI---TSATC-------DLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIIT  286 (1277)
Q Consensus       217 ~~~~~il~~l---~~~~~-------~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l~~~~~~~~iivT  286 (1277)
                      .+...+...+   +....       ...........+.+.+.++|+|+||||+|+.  ..|..+.      ..||+||||
T Consensus        92 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~--~~~~~~~------~~~srilvT  163 (277)
T d2a5yb3          92 TFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE--ETIRWAQ------ELRLRCLVT  163 (277)
T ss_dssp             HHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH--HHHHHHH------HTTCEEEEE
T ss_pred             HHHHHHHHHHHHHCCHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCHHHHH--HHHHHHC------CCCCEEEEE
T ss_conf             89999999998722022027863212336999999999984468816752506677--6655520------457559999


Q ss_pred             CCCCCCCCCCCCC-CEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHH
Q ss_conf             0554332445888-605268999787999999966189999940368999999985309956899999764118994269
Q 000803          287 TRNSHVASTMGPI-DHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTLGGLLRTTTYDMW  365 (1277)
Q Consensus       287 tr~~~~~~~~~~~-~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~~w  365 (1277)
                      ||+..++..+... +.|++++|+.+|||+||..+++...   ..+..++++++|+++|+|+|||++++|+.++.++.+.|
T Consensus       164 TR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~---~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~  240 (277)
T d2a5yb3         164 TRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMP---VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKM  240 (277)
T ss_dssp             ESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHH
T ss_pred             EEHHHHHHHCCCCCCEEECCCCCHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHH
T ss_conf             644899986378871687788997999999999847766---74256799999999958998999999998655989999


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             999821035899989937999985403973456797573
Q 000803          366 DDILDSKIWDLPRQSSILPVLRLSYHHLPSHLKRCFAYC  404 (1277)
Q Consensus       366 ~~~l~~~~~~~~~~~~i~~~l~~s~~~L~~~~~~~~~~~  404 (1277)
                      .+..+.....  ....+..++.+||++||+++|+||.++
T Consensus       241 ~~~~~~L~~~--~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         241 AQLNNKLESR--GLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHHHHHHHH--CSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHHHHHHHCC--CHHHHHHHHHHHHHCCCHHHHHHHHHC
T ss_conf             9999997348--678899999998851269999999739

>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=99.91  E-value=2.7e-22  Score=145.63  Aligned_cols=79  Identities=16%  Similarity=0.233  Sum_probs=54.0

Q ss_pred             CCEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEEC
Q ss_conf             98015995189777878967799886655431687663234221256667399705776765454351056676756424
Q 000803          552 FKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIR  631 (1277)
Q Consensus       552 l~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~  631 (1277)
                      +..|+.|+++++.+..+ ++++.+++|++|++++|.|+.+|. ++++++|++|++++| .+..++. +..+++|+.|++.
T Consensus        43 l~~l~~L~l~~~~I~~l-~gl~~L~nL~~L~Ls~N~l~~l~~-l~~L~~L~~L~L~~n-~i~~i~~-l~~l~~L~~L~~~  118 (384)
T d2omza2          43 LDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNN-QIADITP-LANLTNLTGLTLF  118 (384)
T ss_dssp             HTTCCEEECCSSCCCCC-TTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECC
T ss_pred             HCCCCEEECCCCCCCCC-CCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCCCCCCC-CCCCCCC-CCCCCCCCCCCCC
T ss_conf             57878998999898776-242458999989681881798863-347711010301343-3322221-1123343334433


Q ss_pred             CCC
Q ss_conf             963
Q 000803          632 GAI  634 (1277)
Q Consensus       632 ~~~  634 (1277)
                      ++.
T Consensus       119 ~~~  121 (384)
T d2omza2         119 NNQ  121 (384)
T ss_dssp             SSC
T ss_pred             CCC
T ss_conf             222

>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=99.87  E-value=1.6e-19  Score=129.13  Aligned_cols=84  Identities=20%  Similarity=0.272  Sum_probs=69.0

Q ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             99886655431687663234221256667399705776765454351056676756424963334188778888888622
Q 000803          573 EDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL  652 (1277)
Q Consensus       573 ~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~L~~L~~L  652 (1277)
                      ..+.+|++|+++++.|+.+ +.+..+++|++|++++| .++.+|. ++++++|++|++++|. +..++. ++.+++|+.|
T Consensus        41 ~~l~~l~~L~l~~~~I~~l-~gl~~L~nL~~L~Ls~N-~l~~l~~-l~~L~~L~~L~L~~n~-i~~i~~-l~~l~~L~~L  115 (384)
T d2omza2          41 TDLDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNNQ-IADITP-LANLTNLTGL  115 (384)
T ss_dssp             HHHTTCCEEECCSSCCCCC-TTGGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSC-CCCCGG-GTTCTTCCEE
T ss_pred             HHHCCCCEEECCCCCCCCC-CCCCCCCCCCEEECCCC-CCCCCCC-CCCCCCCCCCCCCCCC-CCCCCC-CCCCCCCCCC
T ss_conf             8957878998999898776-24245899998968188-1798863-3477110103013433-322221-1123343334


Q ss_pred             CCEEECCCC
Q ss_conf             833527888
Q 000803          653 SNFVVGKGG  661 (1277)
Q Consensus       653 ~~~~~~~~~  661 (1277)
                      ....+....
T Consensus       116 ~~~~~~~~~  124 (384)
T d2omza2         116 TLFNNQITD  124 (384)
T ss_dssp             ECCSSCCCC
T ss_pred             CCCCCCCCC
T ss_conf             433222222

>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=99.85  E-value=9.6e-20  Score=130.41  Aligned_cols=99  Identities=26%  Similarity=0.285  Sum_probs=76.6

Q ss_pred             EEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEECC
Q ss_conf             0159951897778789677998866554316876632342-212566673997057767654543510566767564249
Q 000803          554 KLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPE-SSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRG  632 (1277)
Q Consensus       554 ~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~-~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~~  632 (1277)
                      ..+.++.++..++.+|..+.  .++++|+|++|.|+.+|+ +|.++.+|++|++++|......|..|.++++|++|++++
T Consensus        11 ~~~~~~C~~~~L~~lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~   88 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK   88 (305)
T ss_dssp             ETTEEECTTSCCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CCCEEEECCCCCCCCCCCCC--CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCEECCCC
T ss_conf             59999855999885198889--9979897849918986965760465652311234434452356652798557831568


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf             6333418877888888862283352
Q 000803          633 AILLKEMPFGMKELKNLQTLSNFVV  657 (1277)
Q Consensus       633 ~~~~~~~p~~i~~L~~L~~L~~~~~  657 (1277)
                      |. +..+|..+  ...+..|....+
T Consensus        89 n~-l~~l~~~~--~~~l~~L~~~~n  110 (305)
T d1xkua_          89 NQ-LKELPEKM--PKTLQELRVHEN  110 (305)
T ss_dssp             SC-CSBCCSSC--CTTCCEEECCSS
T ss_pred             CC-CCCCCCCH--HHHHHHHHCCCC
T ss_conf             75-67676400--111323210246

>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=99.83  E-value=4.5e-18  Score=120.45  Aligned_cols=96  Identities=20%  Similarity=0.196  Sum_probs=74.3

Q ss_pred             CEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEECC
Q ss_conf             80159951897778789677998866554316876632342212566673997057767654543510566767564249
Q 000803          553 KKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRG  632 (1277)
Q Consensus       553 ~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~~  632 (1277)
                      ..+++|+|+++.++.+|+.   ..+|++|++++|.|+.+|..+   .+|+.|++++| .+..++. +  .+.|++|++++
T Consensus        38 ~~l~~LdLs~~~L~~lp~~---~~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n-~l~~l~~-l--p~~L~~L~L~~  107 (353)
T d1jl5a_          38 RQAHELELNNLGLSSLPEL---PPHLESLVASCNSLTELPELP---QSLKSLLVDNN-NLKALSD-L--PPLLEYLGVSN  107 (353)
T ss_dssp             HTCSEEECTTSCCSCCCSC---CTTCSEEECCSSCCSSCCCCC---TTCCEEECCSS-CCSCCCS-C--CTTCCEEECCS
T ss_pred             CCCCEEEECCCCCCCCCCC---CCCCCEEECCCCCCCCCCCCH---HHHHHHHHHHC-CCCHHHH-H--CCCCCCCCCCC
T ss_conf             6998999379998878898---789888989999796336203---32033266551-4320321-0--22111113345


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCEEECCC
Q ss_conf             6333418877888888862283352788
Q 000803          633 AILLKEMPFGMKELKNLQTLSNFVVGKG  660 (1277)
Q Consensus       633 ~~~~~~~p~~i~~L~~L~~L~~~~~~~~  660 (1277)
                      |. +..+|. ++.+++|++|++..+...
T Consensus       108 n~-l~~lp~-~~~l~~L~~L~l~~~~~~  133 (353)
T d1jl5a_         108 NQ-LEKLPE-LQNSSFLKIIDVDNNSLK  133 (353)
T ss_dssp             SC-CSSCCC-CTTCTTCCEEECCSSCCS
T ss_pred             CC-CCCCCC-HHHHCCCEEECCCCCCCC
T ss_conf             54-322210-011013123113565100

>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=99.82  E-value=5.6e-21  Score=137.75  Aligned_cols=109  Identities=19%  Similarity=0.312  Sum_probs=81.6

Q ss_pred             CEEEEEECCCCCCC---CCCCCCCCCCCCCEEECCC-CCCC-CCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCE
Q ss_conf             80159951897778---7896779988665543168-7663-23422125666739970577676545435105667675
Q 000803          553 KKLRLLSLQGYYIG---ELPIPFEDLRLLRYLNLAD-TDIR-SLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCH  627 (1277)
Q Consensus       553 ~~Lr~L~L~~~~l~---~lp~~~~~l~~Lr~L~L~~-~~i~-~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~  627 (1277)
                      .+++.|+|+++.+.   .+|..++++++|++|+|++ |.+. .+|.+|++|.+|++|++++|......|..+..+.+|++
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~  129 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEEECCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHHCC
T ss_conf             79889989899888888798478467533520202654333002431145420011020356434433222220111001


Q ss_pred             EEECCCCCCCCCCCCCCCCCCCCCCCCEEECCCC
Q ss_conf             6424963334188778888888622833527888
Q 000803          628 LDIRGAILLKEMPFGMKELKNLQTLSNFVVGKGG  661 (1277)
Q Consensus       628 L~l~~~~~~~~~p~~i~~L~~L~~L~~~~~~~~~  661 (1277)
                      +++++|.....+|..++++++|+++.+..+....
T Consensus       130 l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~  163 (313)
T d1ogqa_         130 LDFSYNALSGTLPPSISSLPNLVGITFDGNRISG  163 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCEEECCSSCCEE
T ss_pred             CCCCCCCCCCCCCHHHCCCCCCCEEECCCCCCCC
T ss_conf             1112245555685122067400000023553356

>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=99.81  E-value=1.1e-16  Score=112.13  Aligned_cols=83  Identities=25%  Similarity=0.235  Sum_probs=61.8

Q ss_pred             CCEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEEC
Q ss_conf             98015995189777878967799886655431687663234221256667399705776765454351056676756424
Q 000803          552 FKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIR  631 (1277)
Q Consensus       552 l~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~  631 (1277)
                      .++|++|++++|.++.+|..+   .+|+.|+++++.++.++. +  ...|++|++++| .+..+|. ++.+++|++|+++
T Consensus        57 ~~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n~l~~l~~-l--p~~L~~L~L~~n-~l~~lp~-~~~l~~L~~L~l~  128 (353)
T d1jl5a_          57 PPHLESLVASCNSLTELPELP---QSLKSLLVDNNNLKALSD-L--PPLLEYLGVSNN-QLEKLPE-LQNSSFLKIIDVD  128 (353)
T ss_dssp             CTTCSEEECCSSCCSSCCCCC---TTCCEEECCSSCCSCCCS-C--CTTCCEEECCSS-CCSSCCC-CTTCTTCCEEECC
T ss_pred             CCCCCEEECCCCCCCCCCCCH---HHHHHHHHHHCCCCHHHH-H--CCCCCCCCCCCC-CCCCCCC-HHHHCCCEEECCC
T ss_conf             789888989999796336203---320332665514320321-0--221111133455-4322210-0110131231135


Q ss_pred             CCCCCCCCCCCC
Q ss_conf             963334188778
Q 000803          632 GAILLKEMPFGM  643 (1277)
Q Consensus       632 ~~~~~~~~p~~i  643 (1277)
                      ++. +...+...
T Consensus       129 ~~~-~~~~~~~~  139 (353)
T d1jl5a_         129 NNS-LKKLPDLP  139 (353)
T ss_dssp             SSC-CSCCCCCC
T ss_pred             CCC-CCCCCCCC
T ss_conf             651-00132233

>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=99.80  E-value=1.4e-19  Score=129.44  Aligned_cols=108  Identities=21%  Similarity=0.335  Sum_probs=70.8

Q ss_pred             HHCCCCCEEEEEECCC-CCC-CCCCCCCCCCCCCCEEECCCCCCCCC-CCCCCCCCCCCEEEECCCCCCCCCCHHHCCCC
Q ss_conf             1028998015995189-777-87896779988665543168766323-42212566673997057767654543510566
Q 000803          547 DLLPKFKKLRLLSLQG-YYI-GELPIPFEDLRLLRYLNLADTDIRSL-PESSCSLLNLEILILRNCSSLIKLPSKIRRLI  623 (1277)
Q Consensus       547 ~~~~~l~~Lr~L~L~~-~~l-~~lp~~~~~l~~Lr~L~L~~~~i~~l-p~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~  623 (1277)
                      ..+..++.|++|+|++ |.+ +.+|..|+++.+|++|+|++|.+..+ |..+..+.+|+++++++|.....+|..+.+++
T Consensus        70 ~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~  149 (313)
T d1ogqa_          70 SSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLP  149 (313)
T ss_dssp             GGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCT
T ss_pred             HHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHCCCC
T ss_conf             47846753352020265433300243114542001102035643443322222011100111122455556851220674


Q ss_pred             CCCEEEECCCCCCCCCCCCCCCCCCC-CCCCC
Q ss_conf             76756424963334188778888888-62283
Q 000803          624 NLCHLDIRGAILLKEMPFGMKELKNL-QTLSN  654 (1277)
Q Consensus       624 ~L~~L~l~~~~~~~~~p~~i~~L~~L-~~L~~  654 (1277)
                      +|+++++++|.....+|..+..+.++ +.+..
T Consensus       150 ~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~  181 (313)
T d1ogqa_         150 NLVGITFDGNRISGAIPDSYGSFSKLFTSMTI  181 (313)
T ss_dssp             TCCEEECCSSCCEEECCGGGGCCCTTCCEEEC
T ss_pred             CCCEEECCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             00000023553356203121443112323102

>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=99.80  E-value=8.3e-18  Score=118.87  Aligned_cols=85  Identities=28%  Similarity=0.367  Sum_probs=64.9

Q ss_pred             CEEEEEECCCCCCCCCCC-CCCCCCCCCEEECCCCCCCCC-CCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEE
Q ss_conf             801599518977787896-779988665543168766323-422125666739970577676545435105667675642
Q 000803          553 KKLRLLSLQGYYIGELPI-PFEDLRLLRYLNLADTDIRSL-PESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDI  630 (1277)
Q Consensus       553 ~~Lr~L~L~~~~l~~lp~-~~~~l~~Lr~L~L~~~~i~~l-p~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l  630 (1277)
                      +.+++|++++|.++.+|+ .|.++.+|++|+++++.+..+ |..|.++.+|++|++++| .++.+|..+  ...+..|++
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n-~l~~l~~~~--~~~l~~L~~  107 (305)
T d1xkua_          31 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKN-QLKELPEKM--PKTLQELRV  107 (305)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS-CCSBCCSSC--CTTCCEEEC
T ss_pred             CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCEECCCCC-CCCCCCCCH--HHHHHHHHC
T ss_conf             99798978499189869657604656523112344344523566527985578315687-567676400--111323210


Q ss_pred             CCCCCCCCCCC
Q ss_conf             49633341887
Q 000803          631 RGAILLKEMPF  641 (1277)
Q Consensus       631 ~~~~~~~~~p~  641 (1277)
                      .++. +..++.
T Consensus       108 ~~n~-l~~l~~  117 (305)
T d1xkua_         108 HENE-ITKVRK  117 (305)
T ss_dssp             CSSC-CCBBCH
T ss_pred             CCCC-HHHHHH
T ss_conf             2461-023444

>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=99.76  E-value=3e-17  Score=115.57  Aligned_cols=107  Identities=19%  Similarity=0.151  Sum_probs=81.7

Q ss_pred             CCCCEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCC-CCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEE
Q ss_conf             8998015995189777878967799886655431687663234-221256667399705776765454351056676756
Q 000803          550 PKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLP-ESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHL  628 (1277)
Q Consensus       550 ~~l~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp-~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L  628 (1277)
                      +....+..++.+++.++.+|..+.  ++|++|+|++|.|..+| .+|.++.+|++|++++| .++.+|. ++.+++|++|
T Consensus         7 ~~~~~~~~v~C~~~~L~~iP~~lp--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N-~l~~l~~-~~~l~~L~~L   82 (266)
T d1p9ag_           7 SKVASHLEVNCDKRNLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQV-DGTLPVLGTL   82 (266)
T ss_dssp             ECSTTCCEEECTTSCCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTS-CCCEEEC-CSCCTTCCEE
T ss_pred             CCCCCCEEEECCCCCCCEECCCCC--CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCC-CCCCCCC-CCCCCCCCCC
T ss_conf             426898699806999886196757--68898988499289859778634565522135665-4444311-1112232111


Q ss_pred             EECCCCCCCCCCCCCCCCCCCCCCCCEEECCCC
Q ss_conf             424963334188778888888622833527888
Q 000803          629 DIRGAILLKEMPFGMKELKNLQTLSNFVVGKGG  661 (1277)
Q Consensus       629 ~l~~~~~~~~~p~~i~~L~~L~~L~~~~~~~~~  661 (1277)
                      ++++|. +...+..+..+++|+.|++..+....
T Consensus        83 ~Ls~N~-l~~~~~~~~~l~~L~~L~l~~~~~~~  114 (266)
T d1p9ag_          83 DLSHNQ-LQSLPLLGQTLPALTVLDVSFNRLTS  114 (266)
T ss_dssp             ECCSSC-CSSCCCCTTTCTTCCEEECCSSCCCC
T ss_pred             CCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCE
T ss_conf             112222-21111121222222222222231101

>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=99.74  E-value=1.4e-17  Score=117.54  Aligned_cols=103  Identities=25%  Similarity=0.246  Sum_probs=73.7

Q ss_pred             CEEEEEECCCCCCCCCC-CCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEEC
Q ss_conf             80159951897778789-67799886655431687663234221256667399705776765454351056676756424
Q 000803          553 KKLRLLSLQGYYIGELP-IPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIR  631 (1277)
Q Consensus       553 ~~Lr~L~L~~~~l~~lp-~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~  631 (1277)
                      +.+++|+|++|.++.+| ..|.++++|++|+|++|.++.+|. ++.+.+|++|++++| .+...|..+..+++|+.|+++
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~Ls~N-~l~~~~~~~~~l~~L~~L~l~  108 (266)
T d1p9ag_          31 KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLDLSHN-QLQSLPLLGQTLPALTVLDVS  108 (266)
T ss_dssp             TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEECCSS-CCSSCCCCTTTCTTCCEEECC
T ss_pred             CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCC
T ss_conf             688989884992898597786345655221356654444311-111223211111222-221111121222222222222


Q ss_pred             CCCCCCCCCCC-CCCCCCCCCCCCEEEC
Q ss_conf             96333418877-8888888622833527
Q 000803          632 GAILLKEMPFG-MKELKNLQTLSNFVVG  658 (1277)
Q Consensus       632 ~~~~~~~~p~~-i~~L~~L~~L~~~~~~  658 (1277)
                      ++. ...++.. +..+.++++|.+..+.
T Consensus       109 ~~~-~~~~~~~~~~~l~~l~~L~l~~n~  135 (266)
T d1p9ag_         109 FNR-LTSLPLGALRGLGELQELYLKGNE  135 (266)
T ss_dssp             SSC-CCCCCSSTTTTCTTCCEEECTTSC
T ss_pred             CCC-CCEEECCCCCCCCCCCCCCCCCCC
T ss_conf             231-101100112222111122124342

>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=99.69  E-value=1.8e-16  Score=110.97  Aligned_cols=95  Identities=22%  Similarity=0.212  Sum_probs=47.8

Q ss_pred             EECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCEEEECCCCCCCCCCH-HHCCCCCCCEEEECCCCC
Q ss_conf             951897778789677998866554316876632342-212566673997057767654543-510566767564249633
Q 000803          558 LSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPE-SSCSLLNLEILILRNCSSLIKLPS-KIRRLINLCHLDIRGAIL  635 (1277)
Q Consensus       558 L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~-~~~~L~~L~~L~l~~~~~~~~lp~-~i~~L~~L~~L~l~~~~~  635 (1277)
                      ++.++..++.+|..+.  ..+++|+|++|.|+.+|. +|.++.+|++|+++++ .+..++. .+..+..++++....+..
T Consensus        16 v~c~~~~L~~iP~~ip--~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n-~l~~i~~~~~~~~~~~~~l~~~~~~~   92 (284)
T d1ozna_          16 TSCPQQGLQAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNAQ   92 (284)
T ss_dssp             EECCSSCCSSCCTTCC--TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCTT
T ss_pred             EECCCCCCCCCCCCCC--CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             9847999894497889--99888977488179879778641421300001344-54332111212222222222221022


Q ss_pred             CCCCCC-CCCCCCCCCCCCCE
Q ss_conf             341887-78888888622833
Q 000803          636 LKEMPF-GMKELKNLQTLSNF  655 (1277)
Q Consensus       636 ~~~~p~-~i~~L~~L~~L~~~  655 (1277)
                      +..++. .+..+++|++|++.
T Consensus        93 ~~~l~~~~~~~l~~L~~L~l~  113 (284)
T d1ozna_          93 LRSVDPATFHGLGRLHTLHLD  113 (284)
T ss_dssp             CCCCCTTTTTTCTTCCEEECT
T ss_pred             CCCCCCHHHCCCCCCCEEECC
T ss_conf             354462010101027787568

>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=99.66  E-value=3.7e-15  Score=103.09  Aligned_cols=106  Identities=23%  Similarity=0.180  Sum_probs=66.7

Q ss_pred             CEEEEEECCCCCCCCCCC-CCCCCCCCCEEECCCCCCCCCC-CCCCCCCCCCEEEECCCCCCCCCC-HHHCCCCCCCEEE
Q ss_conf             801599518977787896-7799886655431687663234-221256667399705776765454-3510566767564
Q 000803          553 KKLRLLSLQGYYIGELPI-PFEDLRLLRYLNLADTDIRSLP-ESSCSLLNLEILILRNCSSLIKLP-SKIRRLINLCHLD  629 (1277)
Q Consensus       553 ~~Lr~L~L~~~~l~~lp~-~~~~l~~Lr~L~L~~~~i~~lp-~~~~~L~~L~~L~l~~~~~~~~lp-~~i~~L~~L~~L~  629 (1277)
                      ..+++|+|++|.++.+|. .|.++.+|++|+++++.+..++ ..+..+..++.++...+..+..++ ..+.++++|++|+
T Consensus        32 ~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~  111 (284)
T d1ozna_          32 AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLH  111 (284)
T ss_dssp             TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCEEE
T ss_conf             99888977488179879778641421300001344543321112122222222222210223544620101010277875


Q ss_pred             ECCCCCCCCCCC-CCCCCCCCCCCCCEEECC
Q ss_conf             249633341887-788888886228335278
Q 000803          630 IRGAILLKEMPF-GMKELKNLQTLSNFVVGK  659 (1277)
Q Consensus       630 l~~~~~~~~~p~-~i~~L~~L~~L~~~~~~~  659 (1277)
                      +++|. ...++. .+....+|+.+.+..+.+
T Consensus       112 l~~n~-~~~~~~~~~~~~~~L~~l~l~~N~l  141 (284)
T d1ozna_         112 LDRCG-LQELGPGLFRGLAALQYLYLQDNAL  141 (284)
T ss_dssp             CTTSC-CCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CCCCC-CCCCCCCCCCHHCCCCHHHHCCCCC
T ss_conf             68854-4320135332000121102001431

>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=99.61  E-value=1.4e-14  Score=99.58  Aligned_cols=102  Identities=22%  Similarity=0.182  Sum_probs=46.7

Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCEEEECCCCCCCCCCH-HHCCCCCCCEEEECCC
Q ss_conf             59951897778789677998866554316876632342-212566673997057767654543-5105667675642496
Q 000803          556 RLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPE-SSCSLLNLEILILRNCSSLIKLPS-KIRRLINLCHLDIRGA  633 (1277)
Q Consensus       556 r~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~-~~~~L~~L~~L~l~~~~~~~~lp~-~i~~L~~L~~L~l~~~  633 (1277)
                      ++++.++..++.+|..+.  .++++|++++|.|..+|. .|.++.+|++|++++|.....+|. .+..+++++++.+..+
T Consensus        11 ~~i~c~~~~l~~iP~~l~--~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~   88 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   88 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECC
T ss_pred             CEEEEECCCCCCCCCCCC--CCCCEEECCCCCCCCCCHHHHHCCCHHHHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCC
T ss_conf             999981899887688889--988999876991896496686146432321102211242010011222222222111112


Q ss_pred             CCCCCCCCC-CCCCCCCCCCCCEEECC
Q ss_conf             333418877-88888886228335278
Q 000803          634 ILLKEMPFG-MKELKNLQTLSNFVVGK  659 (1277)
Q Consensus       634 ~~~~~~p~~-i~~L~~L~~L~~~~~~~  659 (1277)
                      ..+...+.. +..+++|+++.+..+.+
T Consensus        89 n~l~~~~~~~~~~l~~L~~l~l~~~~l  115 (242)
T d1xwdc1          89 NNLLYINPEAFQNLPNLQYLLISNTGI  115 (242)
T ss_dssp             TTCCEECTTSEECCTTCCEEEEESCCC
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf             343222222122222222223421111

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=1e-13  Score=94.54  Aligned_cols=98  Identities=16%  Similarity=0.246  Sum_probs=52.5

Q ss_pred             CEEEEEECCCCCCCCCCC-CCCCCCCCCEEECCCCCCCC-C-CCCCCCCCCCCEEEECCCCCCCCCC-HHHCCCCCCCEE
Q ss_conf             801599518977787896-77998866554316876632-3-4221256667399705776765454-351056676756
Q 000803          553 KKLRLLSLQGYYIGELPI-PFEDLRLLRYLNLADTDIRS-L-PESSCSLLNLEILILRNCSSLIKLP-SKIRRLINLCHL  628 (1277)
Q Consensus       553 ~~Lr~L~L~~~~l~~lp~-~~~~l~~Lr~L~L~~~~i~~-l-p~~~~~L~~L~~L~l~~~~~~~~lp-~~i~~L~~L~~L  628 (1277)
                      +.++.|++++|.+..+|. .|.++.+|++|++++|.+.. + +..|..+.+++.+.+..++.+...+ ..+..+++|++|
T Consensus        29 ~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l  108 (242)
T d1xwdc1          29 RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYL  108 (242)
T ss_dssp             SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEE
T ss_pred             CCCCEEECCCCCCCCCCHHHHHCCCHHHHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             98899987699189649668614643232110221124201001122222222211111234322222212222222222


Q ss_pred             EECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             424963334188778888888622
Q 000803          629 DIRGAILLKEMPFGMKELKNLQTL  652 (1277)
Q Consensus       629 ~l~~~~~~~~~p~~i~~L~~L~~L  652 (1277)
                      ++.++. +...+. ...+.+++.+
T Consensus       109 ~l~~~~-l~~~~~-~~~~~~l~~l  130 (242)
T d1xwdc1         109 LISNTG-IKHLPD-VHKIHSLQKV  130 (242)
T ss_dssp             EEESCC-CCSCCC-CTTTCBSSCE
T ss_pred             CCCHHH-HCCCCC-CCCCCCCCCC
T ss_conf             342111-125543-3322211112

>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=99.54  E-value=7.1e-14  Score=95.44  Aligned_cols=79  Identities=23%  Similarity=0.214  Sum_probs=43.0

Q ss_pred             CCEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEEC
Q ss_conf             98015995189777878967799886655431687663234221256667399705776765454351056676756424
Q 000803          552 FKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIR  631 (1277)
Q Consensus       552 l~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~  631 (1277)
                      +..|+.|++.++.+..+ .++.++++|++|++++|.+..++. +..+.+|+++++++| .++.++ .+.++++|+.++++
T Consensus        40 l~~L~~L~l~~~~i~~l-~~l~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~~~~n-~~~~i~-~l~~l~~L~~l~l~  115 (227)
T d1h6ua2          40 LDGITTLSAFGTGVTTI-EGVQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGN-PLKNVS-AIAGLQSIKTLDLT  115 (227)
T ss_dssp             HHTCCEEECTTSCCCCC-TTGGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSC-CCSCCG-GGTTCTTCCEEECT
T ss_pred             CCCCCEEECCCCCCCCC-HHHHCCCCCCEEECCCCEEECCCC-CCCCCCCCCCCCCCC-CCCCCC-CCCCCCCCCCCCCC
T ss_conf             48868997779999766-457448888376357853202543-112334320121112-222222-22222222122122


Q ss_pred             CCC
Q ss_conf             963
Q 000803          632 GAI  634 (1277)
Q Consensus       632 ~~~  634 (1277)
                      ++.
T Consensus       116 ~~~  118 (227)
T d1h6ua2         116 STQ  118 (227)
T ss_dssp             TSC
T ss_pred             CCC
T ss_conf             244

>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=99.53  E-value=3.1e-14  Score=97.55  Aligned_cols=98  Identities=18%  Similarity=0.226  Sum_probs=63.4

Q ss_pred             CCEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEEC
Q ss_conf             98015995189777878967799886655431687663234221256667399705776765454351056676756424
Q 000803          552 FKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIR  631 (1277)
Q Consensus       552 l~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~  631 (1277)
                      +..|+.|+++++.+..++ ++..+++|++|++++|.++.++ .++.+++|++|++++| .+..+|. +..+++|+.|++.
T Consensus        45 L~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~L~~n~i~~l~-~~~~l~~L~~L~l~~n-~i~~l~~-l~~l~~L~~L~l~  120 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDEN-KVKDLSS-LKDLKKLKSLSLE  120 (210)
T ss_dssp             HHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSS-CCCCGGG-GTTCTTCCEEECT
T ss_pred             HCCCCEEECCCCCCCCCH-HHHHCCCCCEEECCCCCCCCCC-CCCCCCCCCCCCCCCC-CCCCCCC-CCCCCCCCCCCCC
T ss_conf             548458978279888744-4764899898769896025860-1135862120143333-3212221-2122211122345


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCE
Q ss_conf             963334188778888888622833
Q 000803          632 GAILLKEMPFGMKELKNLQTLSNF  655 (1277)
Q Consensus       632 ~~~~~~~~p~~i~~L~~L~~L~~~  655 (1277)
                      +|. ...++ .+..+++++.+...
T Consensus       121 ~~~-~~~~~-~l~~l~~l~~l~~~  142 (210)
T d1h6ta2         121 HNG-ISDIN-GLVHLPQLESLYLG  142 (210)
T ss_dssp             TSC-CCCCG-GGGGCTTCCEEECC
T ss_pred             CCC-CCCCC-CCCCCCCCCCCCCC
T ss_conf             653-22112-20111112221122

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.50  E-value=4.1e-14  Score=96.85  Aligned_cols=197  Identities=13%  Similarity=0.145  Sum_probs=108.7

Q ss_pred             CCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECC-----CCC
Q ss_conf             987213504569999999711432589980899999269990999999996252443458853389999378-----768
Q 000803          140 TEPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-----DFD  214 (1277)
Q Consensus       140 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~-----~~~  214 (1277)
                      ....||||+++++++.+.          ..+++.|+|++|+|||+|++++.+....       ...|+.+..     ...
T Consensus        10 ~~~~f~GR~~el~~l~~~----------~~~~i~i~G~~G~GKTsLl~~~~~~~~~-------~~~~i~~~~~~~~~~~~   72 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL----------RAPITLVLGLRRTGKSSIIKIGINELNL-------PYIYLDLRKFEERNYIS   72 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT----------CSSEEEEEESTTSSHHHHHHHHHHHHTC-------CEEEEEGGGGTTCSCCC
T ss_pred             CHHHCCCHHHHHHHHHHC----------CCCEEEEECCCCCCHHHHHHHHHHHCCC-------CEEEEEECCCCCCCCCC
T ss_conf             722078969999999840----------5987999869998299999999997799-------86999721453333243


Q ss_pred             HHHHHHHHHHHHC--------------CC---------------CCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHH
Q ss_conf             8999999999820--------------78---------------999886899999999830596399996375530678
Q 000803          215 VLSISKALLESIT--------------SA---------------TCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYS  265 (1277)
Q Consensus       215 ~~~~~~~il~~l~--------------~~---------------~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~  265 (1277)
                      ...+...+.....              ..               .............+.+ ..+++.++++|++......
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~~~~i~id~~~~~~~~  151 (283)
T d2fnaa2          73 YKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQ-ASKDNVIIVLDEAQELVKL  151 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHH-TCSSCEEEEEETGGGGGGC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH-HCCCCCCCCCCHHHHHCCC
T ss_conf             999999999975445555577777777530334344322234100134589999999876-3155554566405541333


Q ss_pred             H---HHHHHCCCCCCCCCCEEEEECCCCCC----CCCC--------CCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             6---87621134449999589998055433----2445--------8886052689997879999999661899999403
Q 000803          266 L---WVDLKAPFLAAAPNSKMIITTRNSHV----ASTM--------GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALE  330 (1277)
Q Consensus       266 ~---~~~l~~~l~~~~~~~~iivTtr~~~~----~~~~--------~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~  330 (1277)
                      .   +................+++.+....    ....        .....+.+.+++.+++.+++.+..... ....  
T Consensus       152 ~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~-~~~~--  228 (283)
T d2fnaa2         152 RGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEA-DIDF--  228 (283)
T ss_dssp             TTCCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHH-TCCC--
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCHHCCCCEEEEEECCCCHHHHHHHHHHHHHHC-CCCH--
T ss_conf             2699999999998753113442035650678999975421000103410588628878899999999665456-9999--


Q ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHCCC
Q ss_conf             689999999853099568999997641189
Q 000803          331 ISESFRKKVVGKCGGLPLAAKTLGGLLRTT  360 (1277)
Q Consensus       331 ~~~~~~~~i~~~~~G~PLai~~~~~~l~~~  360 (1277)
                         +..++|++.++|+|.++..++..+...
T Consensus       229 ---~~~~~i~~~~~G~P~~L~~~~~~~~~~  255 (283)
T d2fnaa2         229 ---KDYEVVYEKIGGIPGWLTYFGFIYLDN  255 (283)
T ss_dssp             ---CCHHHHHHHHCSCHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHCCCHHHHHHHHHHHHHC
T ss_conf             ---999999999699799999999999805

>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=99.50  E-value=2e-13  Score=92.69  Aligned_cols=98  Identities=18%  Similarity=0.266  Sum_probs=54.8

Q ss_pred             CCEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEEC
Q ss_conf             98015995189777878967799886655431687663234221256667399705776765454351056676756424
Q 000803          552 FKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIR  631 (1277)
Q Consensus       552 l~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~  631 (1277)
                      +..++.|+++++.+..+. +++.+++|++|++++|.+..++. ++.+++|++|++++| .+..+|. +.++++|+.|+++
T Consensus        39 l~~l~~L~l~~~~i~~l~-~l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n-~~~~~~~-l~~l~~L~~L~l~  114 (199)
T d2omxa2          39 LDQVTTLQADRLGIKSID-GVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNN-QIADITP-LANLTNLTGLTLF  114 (199)
T ss_dssp             HTTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCSEEECC
T ss_pred             HCCCCEEECCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCC-CCCCCCC-CCCCCCCCCCCCC
T ss_conf             468789989999997752-02137886757545655667640-167752231111222-2222211-1112232221112


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCE
Q ss_conf             963334188778888888622833
Q 000803          632 GAILLKEMPFGMKELKNLQTLSNF  655 (1277)
Q Consensus       632 ~~~~~~~~p~~i~~L~~L~~L~~~  655 (1277)
                      ++. ...+ ..+..+++|+.|++.
T Consensus       115 ~~~-~~~~-~~~~~l~~L~~L~l~  136 (199)
T d2omxa2         115 NNQ-ITDI-DPLKNLTNLNRLELS  136 (199)
T ss_dssp             SSC-CCCC-GGGTTCTTCSEEECC
T ss_pred             CCC-CCCC-CCCCHHHHHHHHHHH
T ss_conf             222-2232-100012236776431

>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=99.50  E-value=1.1e-14  Score=100.29  Aligned_cols=11  Identities=18%  Similarity=0.238  Sum_probs=3.6

Q ss_pred             CCCCCCCCCCC
Q ss_conf             68755100153
Q 000803         1154 LTSLIGLSIEE 1164 (1277)
Q Consensus      1154 l~~L~~L~l~~ 1164 (1277)
                      +++|+.|++.+
T Consensus       224 ~~~L~~L~l~~  234 (284)
T d2astb2         224 IPTLKTLQVFG  234 (284)
T ss_dssp             CTTCCEEECTT
T ss_pred             CCCCCEEEEEC
T ss_conf             99989896448

>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=99.47  E-value=1.4e-12  Score=87.70  Aligned_cols=92  Identities=20%  Similarity=0.290  Sum_probs=57.4

Q ss_pred             EECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEECCCCCCC
Q ss_conf             95189777878967799886655431687663234221256667399705776765454351056676756424963334
Q 000803          558 LSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLK  637 (1277)
Q Consensus       558 L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~~~~~~~  637 (1277)
                      ++++.+.+..+ ..+..+.+|++|++.+|.|+.++ .+..+++|++|++++| .+..++. +..+.+|+++++++|. ..
T Consensus        24 ~~l~~~~~~d~-~~~~~l~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~ls~n-~i~~~~~-l~~l~~l~~l~~~~n~-~~   98 (227)
T d1h6ua2          24 IAAGKSNVTDT-VTQADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDN-QITDLAP-LKNLTKITELELSGNP-LK   98 (227)
T ss_dssp             HHTTCSSTTSE-ECHHHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCCSCCEEECCSCC-CS
T ss_pred             HHHCCCCCCCC-CCHHHCCCCCEEECCCCCCCCCH-HHHCCCCCCEEECCCC-EEECCCC-CCCCCCCCCCCCCCCC-CC
T ss_conf             98488876775-79878488689977799997664-5744888837635785-3202543-1123343201211122-22


Q ss_pred             CCCCCCCCCCCCCCCCCE
Q ss_conf             188778888888622833
Q 000803          638 EMPFGMKELKNLQTLSNF  655 (1277)
Q Consensus       638 ~~p~~i~~L~~L~~L~~~  655 (1277)
                      .++ .+.++++|+.+.+.
T Consensus        99 ~i~-~l~~l~~L~~l~l~  115 (227)
T d1h6ua2          99 NVS-AIAGLQSIKTLDLT  115 (227)
T ss_dssp             CCG-GGTTCTTCCEEECT
T ss_pred             CCC-CCCCCCCCCCCCCC
T ss_conf             222-22222222122122

>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=99.43  E-value=1.6e-12  Score=87.38  Aligned_cols=78  Identities=26%  Similarity=0.312  Sum_probs=40.9

Q ss_pred             CCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             88665543168766323422125666739970577676545435105667675642496333418877888888862283
Q 000803          575 LRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTLSN  654 (1277)
Q Consensus       575 l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~L~~L~~L~~  654 (1277)
                      +..|++|+++++.++.++ .+..+++|+.|++++| .+..++. ++.+++|++|++++|. +..+| .+..+++|+.|.+
T Consensus        45 L~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~L~~n-~i~~l~~-~~~l~~L~~L~l~~n~-i~~l~-~l~~l~~L~~L~l  119 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGN-KLTDIKP-LANLKNLGWLFLDENK-VKDLS-SLKDLKKLKSLSL  119 (210)
T ss_dssp             HHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSC-CCCGG-GGTTCTTCCEEEC
T ss_pred             HCCCCEEECCCCCCCCCH-HHHHCCCCCEEECCCC-CCCCCCC-CCCCCCCCCCCCCCCC-CCCCC-CCCCCCCCCCCCC
T ss_conf             548458978279888744-4764899898769896-0258601-1358621201433333-21222-1212221112234


Q ss_pred             EEE
Q ss_conf             352
Q 000803          655 FVV  657 (1277)
Q Consensus       655 ~~~  657 (1277)
                      ..+
T Consensus       120 ~~~  122 (210)
T d1h6ta2         120 EHN  122 (210)
T ss_dssp             TTS
T ss_pred             CCC
T ss_conf             565

>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=99.39  E-value=3.6e-12  Score=85.30  Aligned_cols=79  Identities=22%  Similarity=0.311  Sum_probs=48.2

Q ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             99886655431687663234221256667399705776765454351056676756424963334188778888888622
Q 000803          573 EDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMKELKNLQTL  652 (1277)
Q Consensus       573 ~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~L~~L~~L  652 (1277)
                      ..+.++++|+++++.+..++ .+..+++|++|++++| .+..++. ++++++|++|++++|. ...++ .++.+.+|++|
T Consensus        37 ~~l~~l~~L~l~~~~i~~l~-~l~~l~nL~~L~Ls~N-~l~~~~~-l~~l~~L~~L~l~~n~-~~~~~-~l~~l~~L~~L  111 (199)
T d2omxa2          37 TDLDQVTTLQADRLGIKSID-GVEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNNQ-IADIT-PLANLTNLTGL  111 (199)
T ss_dssp             HHHTTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSC-CCCCG-GGTTCTTCSEE
T ss_pred             HHHCCCCEEECCCCCCCCCC-CCCCCCCCCCCCCCCC-CCCCCCC-CCCCCCCCCCCCCCCC-CCCCC-CCCCCCCCCCC
T ss_conf             79468789989999997752-0213788675754565-5667640-1677522311112222-22221-11112232221


Q ss_pred             CCEE
Q ss_conf             8335
Q 000803          653 SNFV  656 (1277)
Q Consensus       653 ~~~~  656 (1277)
                      .+..
T Consensus       112 ~l~~  115 (199)
T d2omxa2         112 TLFN  115 (199)
T ss_dssp             ECCS
T ss_pred             CCCC
T ss_conf             1122

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=7e-13  Score=89.50  Aligned_cols=126  Identities=20%  Similarity=0.201  Sum_probs=97.5

Q ss_pred             CCCCCEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHH-HCCCCCCCE
Q ss_conf             2899801599518977787896779988665543168766323422125666739970577676545435-105667675
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSK-IRRLINLCH  627 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~-i~~L~~L~~  627 (1277)
                      |.....+|.|+|++|.++.++..+..+.+|++|++++|.|..++ .+..+++|++|++++| .+..+|.. +..+++|++
T Consensus        14 ~~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N-~i~~l~~~~~~~l~~L~~   91 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNN-RICRIGEGLDQALPDLTE   91 (162)
T ss_dssp             EECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSS-CCCEECSCHHHHCTTCCE
T ss_pred             CCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCC-CCCCCCCHHHHHCCCC-CCCCCCCCCCCCCCCCCC
T ss_conf             16857484897889978865762004145998989799787647-7445761306431021-345777632233453443


Q ss_pred             EEECCCCCCCCCCC--CCCCCCCCCCCCCEEECCCCCCC---CCHHCCCCCCCCC
Q ss_conf             64249633341887--78888888622833527888877---8911000111358
Q 000803          628 LDIRGAILLKEMPF--GMKELKNLQTLSNFVVGKGGETA---SGLEDLKILKFLS  677 (1277)
Q Consensus       628 L~l~~~~~~~~~p~--~i~~L~~L~~L~~~~~~~~~~~~---~~l~~l~~L~~L~  677 (1277)
                      |++++|. +..++.  .+..+++|++|.+.++.......   ..+..++.|+.|+
T Consensus        92 L~L~~N~-i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          92 LILTNNS-LVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             EECCSCC-CCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             CEECCCC-CCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCHHHHHHHHCCCCCEEC
T ss_conf             4203000-16654211001365320664079963456106999998789958337

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.37  E-value=9.7e-13  Score=88.66  Aligned_cols=102  Identities=23%  Similarity=0.213  Sum_probs=85.5

Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEECCCCC
Q ss_conf             59951897778789677998866554316876632342212566673997057767654543510566767564249633
Q 000803          556 RLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAIL  635 (1277)
Q Consensus       556 r~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~~~~~  635 (1277)
                      |+|++++|.++.++ .+..+.+|++|++++|.++.+|..++.+.+|++|++++| .+..+|. +..+++|++|++++|. 
T Consensus         1 R~L~Ls~n~l~~l~-~l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N-~i~~l~~-~~~l~~L~~L~l~~N~-   76 (124)
T d1dcea3           1 RVLHLAHKDLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDN-ALENVDG-VANLPRLQELLLCNNR-   76 (124)
T ss_dssp             SEEECTTSCCSSCC-CGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS-CCCCCGG-GTTCSSCCEEECCSSC-
T ss_pred             CEEECCCCCCCCCC-CCCCCCCCCEEECCCCCCCCCHHHHHHHHCCCCCCCCCC-CCCCCCC-CCCCCCCCEEECCCCC-
T ss_conf             98986899898871-010589889897978716865215655431354532432-1123574-1233555768888986-


Q ss_pred             CCCCCC--CCCCCCCCCCCCCEEECCCC
Q ss_conf             341887--78888888622833527888
Q 000803          636 LKEMPF--GMKELKNLQTLSNFVVGKGG  661 (1277)
Q Consensus       636 ~~~~p~--~i~~L~~L~~L~~~~~~~~~  661 (1277)
                      +..+|.  .++.+++|++|++.+|....
T Consensus        77 i~~~~~~~~l~~~~~L~~L~l~~N~i~~  104 (124)
T d1dcea3          77 LQQSAAIQPLVSCPRLVLLNLQGNSLCQ  104 (124)
T ss_dssp             CCSSSTTGGGGGCTTCCEEECTTSGGGG
T ss_pred             CCCCCCCHHHCCCCCCCEEECCCCCCCC
T ss_conf             5888882565379999999897996886

>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=99.35  E-value=1.7e-09  Score=69.41  Aligned_cols=178  Identities=15%  Similarity=0.089  Sum_probs=109.0

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHH
Q ss_conf             87213504569999999711432589980899999269990999999996252443458853389999378768899999
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  220 (1277)
                      +..++||+.+++.+.++|...-...+...+.+.|+|++|+|||++|+.+++......  .+ ..+++.............
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~--~~-~~~~~~~~~~~~~~~~~~   91 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT--TA-RFVYINGFIYRNFTAIIG   91 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC--CC-EEEEEETTTCCSHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCC--CC-CEEEECCHHHHHHHHHHH
T ss_conf             887887799999999999999857898888168889899989999999999975446--88-578732300112466654


Q ss_pred             HHHHHHCCCCCC-CCCHHHHHHHHHHHH--CCCEEEEEECCCCCCCHHHHHH---HHCCCCC-CCCCCEEEEECCCCCCC
Q ss_conf             999982078999-886899999999830--5963999963755306786876---2113444-99995899980554332
Q 000803          221 ALLESITSATCD-LKTVDEVQVQLKKAV--DGKRFLLVLDDVWNEDYSLWVD---LKAPFLA-AAPNSKMIITTRNSHVA  293 (1277)
Q Consensus       221 ~il~~l~~~~~~-~~~~~~~~~~l~~~l--~~kr~LlvlDdv~~~~~~~~~~---l~~~l~~-~~~~~~iivTtr~~~~~  293 (1277)
                      .+....+..... ..........+.+..  .......++|+++.........   +...... ......+|.++......
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  171 (276)
T d1fnna2          92 EIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  171 (276)
T ss_dssp             HHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHH
T ss_conf             56776433455532543578999999875206543320368887535431068888740443356524886258764544


Q ss_pred             CCC-------CCCCEEECCCCCHHHHHHHHHHHHC
Q ss_conf             445-------8886052689997879999999661
Q 000803          294 STM-------GPIDHYNLEHLLDDDCWSIFKTHAF  321 (1277)
Q Consensus       294 ~~~-------~~~~~~~l~~l~~~e~~~l~~~~~~  321 (1277)
                      ...       .....+.+.+++.++.++++..++-
T Consensus       172 ~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~  206 (276)
T d1fnna2         172 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAK  206 (276)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHH
T ss_pred             HHCCHHHHHHHCCHHCCCCCHHHHHHHHHHHHHHH
T ss_conf             31130366551101103441238889999999999

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.31  E-value=5.5e-12  Score=84.15  Aligned_cols=106  Identities=17%  Similarity=0.152  Sum_probs=58.3

Q ss_pred             CEEEEEECCCCCCCC-CC-CCCCCCCCCCEEECCCCCCCCC-CCCCCCCCCCCEEEECCCCCCCCCCH-HHCCCCCCCEE
Q ss_conf             801599518977787-89-6779988665543168766323-42212566673997057767654543-51056676756
Q 000803          553 KKLRLLSLQGYYIGE-LP-IPFEDLRLLRYLNLADTDIRSL-PESSCSLLNLEILILRNCSSLIKLPS-KIRRLINLCHL  628 (1277)
Q Consensus       553 ~~Lr~L~L~~~~l~~-lp-~~~~~l~~Lr~L~L~~~~i~~l-p~~~~~L~~L~~L~l~~~~~~~~lp~-~i~~L~~L~~L  628 (1277)
                      ..+++|+|++|.++. ++ ..|.++.+|+.|+|++|.+..+ +..+..+.+|++|++++| .+..+|. .|.++++|++|
T Consensus        29 ~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N-~l~~l~~~~F~~l~~L~~L  107 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN-KIKEISNKMFLGLHQLKTL  107 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC-CCCEECSSSSTTCTTCCEE
T ss_pred             CCCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCC-CCCCCCHHHHHCCCCCCCC
T ss_conf             787889848987755302002578762721301363221212122211222210100355-3443497998079746552


Q ss_pred             EECCCCCCCCCCCC-CCCCCCCCCCCCEEECCC
Q ss_conf             42496333418877-888888862283352788
Q 000803          629 DIRGAILLKEMPFG-MKELKNLQTLSNFVVGKG  660 (1277)
Q Consensus       629 ~l~~~~~~~~~p~~-i~~L~~L~~L~~~~~~~~  660 (1277)
                      ++++|. +..+|.+ +..+.+|++|++..+...
T Consensus       108 ~L~~N~-l~~i~~~~f~~l~~L~~l~L~~N~~~  139 (192)
T d1w8aa_         108 NLYDNQ-ISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             ECCSSC-CCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             CCCCCC-CCCCCHHHHCCCCCCCCCCCCCCCCC
T ss_conf             457745-35359778568753342000364434

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=1.6e-11  Score=81.40  Aligned_cols=108  Identities=23%  Similarity=0.241  Sum_probs=78.7

Q ss_pred             HHCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCC-CCCCCCCEEEECCCCCCCCCCH--HHCCCC
Q ss_conf             1028998015995189777878967799886655431687663234221-2566673997057767654543--510566
Q 000803          547 DLLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESS-CSLLNLEILILRNCSSLIKLPS--KIRRLI  623 (1277)
Q Consensus       547 ~~~~~l~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~-~~L~~L~~L~l~~~~~~~~lp~--~i~~L~  623 (1277)
                      +.+..+++|++|++++|.+..++ .+..+++|++|++++|.+..+|..+ ..+++|+.|++++| .+..++.  .+..++
T Consensus        35 ~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~~N-~i~~~~~l~~l~~l~  112 (162)
T d1a9na_          35 NLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNN-SLVELGDLDPLASLK  112 (162)
T ss_dssp             CGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSC-CCCCGGGGGGGGGCT
T ss_pred             CCCCCCCCCCEEECCCCCCCCCC-CCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCEECCC-CCCCCCCCCCCCCCC
T ss_conf             62004145998989799787647-7445761306431021345777632233453443420300-016654211001365


Q ss_pred             CCCEEEECCCCCCCCCCC----CCCCCCCCCCCCCEEE
Q ss_conf             767564249633341887----7888888862283352
Q 000803          624 NLCHLDIRGAILLKEMPF----GMKELKNLQTLSNFVV  657 (1277)
Q Consensus       624 ~L~~L~l~~~~~~~~~p~----~i~~L~~L~~L~~~~~  657 (1277)
                      +|++|++++|. +...|.    .+..+++|+.|+...+
T Consensus       113 ~L~~L~l~~N~-i~~~~~~r~~~i~~lp~L~~LD~~~i  149 (162)
T d1a9na_         113 SLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDFQKV  149 (162)
T ss_dssp             TCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETTEEC
T ss_pred             CCCHHHCCCCC-CCCCCCHHHHHHHHCCCCCEECCCCC
T ss_conf             32066407996-34561069999987899583379799

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.17  E-value=3.6e-11  Score=79.28  Aligned_cols=118  Identities=19%  Similarity=0.134  Sum_probs=85.1

Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCC-C-CCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEECCC
Q ss_conf             59951897778789677998866554316876632-3-422125666739970577676545435105667675642496
Q 000803          556 RLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRS-L-PESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGA  633 (1277)
Q Consensus       556 r~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~-l-p~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~~~  633 (1277)
                      ++++++++.++.+|..+.  .++++|+|++|.|.. + +..|..+.+|+.|++++|......+..+..+++|++|++++|
T Consensus        11 ~~v~Cs~~~L~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N   88 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CEEEEECCCCCCCCCCCC--CCCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCC
T ss_conf             999970899670298989--787889848987755302002578762721301363221212122211222210100355


Q ss_pred             CCCCCCCCC-CCCCCCCCCCCCEEECCCCCCCCCHHCCCCCCCC
Q ss_conf             333418877-8888888622833527888877891100011135
Q 000803          634 ILLKEMPFG-MKELKNLQTLSNFVVGKGGETASGLEDLKILKFL  676 (1277)
Q Consensus       634 ~~~~~~p~~-i~~L~~L~~L~~~~~~~~~~~~~~l~~l~~L~~L  676 (1277)
                      . +..+|.+ |..+++|++|++..+.+....+..+..+.+|+.+
T Consensus        89 ~-l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l  131 (192)
T d1w8aa_          89 K-IKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSL  131 (192)
T ss_dssp             C-CCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEE
T ss_pred             C-CCCCCHHHHHCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCC
T ss_conf             3-443497998079746552457745353597785687533420

>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=99.16  E-value=8.5e-10  Score=71.11  Aligned_cols=184  Identities=15%  Similarity=0.105  Sum_probs=114.8

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHH
Q ss_conf             87213504569999999711432589980899999269990999999996252443458853389999378768899999
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  220 (1277)
                      -..++|.++.++.+..++...      ....+.++|+.|+||||+|+.+++....+.  .-..+..++.+.......+..
T Consensus        14 ~~d~ig~~~~~~~L~~~~~~~------~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~--~~~~~~~~n~~~~~~~~~i~~   85 (224)
T d1sxjb2          14 LSDIVGNKETIDRLQQIAKDG------NMPHMIISGMPGIGKTTSVHCLAHELLGRS--YADGVLELNASDDRGIDVVRN   85 (224)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSC------CCCCEEEECSTTSSHHHHHHHHHHHHHGGG--HHHHEEEECTTSCCSHHHHHT
T ss_pred             HHHHCCCHHHHHHHHHHHHCC------CCCEEEEECCCCCCCHHHHHHHHHHHHCCC--CCCCCCCCCCCCCCCCEEHHH
T ss_conf             999029799999999999869------987499988999870546999999972566--432211111345578521166


Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEEECCCC-CCCCC-CCC
Q ss_conf             9999820789998868999999998305963999963755306786876211344499995899980554-33244-588
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVAST-MGP  298 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l~~~~~~~~iivTtr~~-~~~~~-~~~  298 (1277)
                      .+..........              ..++.-++|+|+++.........++..+......+++++++... .+... ...
T Consensus        86 ~~~~~~~~~~~~--------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr  151 (224)
T d1sxjb2          86 QIKHFAQKKLHL--------------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQ  151 (224)
T ss_dssp             HHHHHHHBCCCC--------------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             HHHHHHHHHCCC--------------CCCCEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEEECCCCHHHHHHHHHHH
T ss_conf             788788762247--------------776359999824432321577877520112333336653147430210678877


Q ss_pred             CCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHHHH
Q ss_conf             8605268999787999999966189999940368999999985309956899
Q 000803          299 IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAA  350 (1277)
Q Consensus       299 ~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai  350 (1277)
                      ...+.+.+.+.++...++...+....-    ....+....|++.|+|.+-.+
T Consensus       152 ~~~i~~~~~~~~~i~~~l~~i~~~e~~----~i~~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         152 CAILRYSKLSDEDVLKRLLQIIKLEDV----KYTNDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHTC----CBCHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHHCCC----CCCHHHHHHHHHHCCCCHHHH
T ss_conf             777653133224567888777774046----789999999999869969999

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=3.7e-15  Score=103.07  Aligned_cols=102  Identities=16%  Similarity=0.144  Sum_probs=41.8

Q ss_pred             EEEEEECCCCCCCCC--CCCCCCCCCCCEEECCCCCCC-----CCCCCCCCCCCCCEEEECCCCCCCC-----CCHHHC-
Q ss_conf             015995189777878--967799886655431687663-----2342212566673997057767654-----543510-
Q 000803          554 KLRLLSLQGYYIGEL--PIPFEDLRLLRYLNLADTDIR-----SLPESSCSLLNLEILILRNCSSLIK-----LPSKIR-  620 (1277)
Q Consensus       554 ~Lr~L~L~~~~l~~l--p~~~~~l~~Lr~L~L~~~~i~-----~lp~~~~~L~~L~~L~l~~~~~~~~-----lp~~i~-  620 (1277)
                      .|+.||++++.++..  ..-+..+++|+.|+|++|.++     .++..+..+++|+.||+++| .++.     +...+. 
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N-~i~~~~~~~l~~~l~~   81 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCEEECCCC-CCCHHHHHHHHHHHHC
T ss_conf             877798208958868999999767799999828999988999999999853999888979598-5972899999999843


Q ss_pred             CCCCCCEEEECCCCCCCC-----CCCCCCCCCCCCCCCCEEE
Q ss_conf             566767564249633341-----8877888888862283352
Q 000803          621 RLINLCHLDIRGAILLKE-----MPFGMKELKNLQTLSNFVV  657 (1277)
Q Consensus       621 ~L~~L~~L~l~~~~~~~~-----~p~~i~~L~~L~~L~~~~~  657 (1277)
                      ...+|++|++++|. +..     ++..+..+++|++|++..+
T Consensus        82 ~~~~L~~L~L~~n~-it~~~~~~l~~~l~~~~~L~~L~L~~N  122 (460)
T d1z7xw1          82 PSCKIQKLSLQNCC-LTGAGCGVLSSTLRTLPTLQELHLSDN  122 (460)
T ss_dssp             TTCCCCEEECTTSC-CBGGGHHHHHHHTTSCTTCCEEECCSS
T ss_pred             CCCCCCEEECCCCC-CCCCCCCCCCCHHHCCCCCCCCCCCCC
T ss_conf             78877887788877-543221012110000343200244433

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.12  E-value=7.9e-11  Score=77.27  Aligned_cols=89  Identities=22%  Similarity=0.288  Sum_probs=65.5

Q ss_pred             CCCCCEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCC--HHHCCCCCCC
Q ss_conf             28998015995189777878967799886655431687663234221256667399705776765454--3510566767
Q 000803          549 LPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLP--SKIRRLINLC  626 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp--~~i~~L~~L~  626 (1277)
                      +..+..|++|++++|.+..+|..++.+.+|++|++++|.++.+| .+..+++|+.|++++| .+..+|  ..+..+++|+
T Consensus        16 l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~~N-~i~~~~~~~~l~~~~~L~   93 (124)
T d1dcea3          16 LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNN-RLQQSAAIQPLVSCPRLV   93 (124)
T ss_dssp             GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSS-CCCSSSTTGGGGGCTTCC
T ss_pred             CCCCCCCCEEECCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCC-CCCCCCCCCEEECCCC-CCCCCCCCHHHCCCCCCC
T ss_conf             10589889897978716865215655431354532432112357-4123355576888898-658888825653799999


Q ss_pred             EEEECCCCCCCCCC
Q ss_conf             56424963334188
Q 000803          627 HLDIRGAILLKEMP  640 (1277)
Q Consensus       627 ~L~l~~~~~~~~~p  640 (1277)
                      +|++++|. +...+
T Consensus        94 ~L~l~~N~-i~~~~  106 (124)
T d1dcea3          94 LLNLQGNS-LCQEE  106 (124)
T ss_dssp             EEECTTSG-GGGSS
T ss_pred             EEECCCCC-CCCCC
T ss_conf             99897996-88682

>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=99.12  E-value=2.2e-09  Score=68.68  Aligned_cols=181  Identities=13%  Similarity=0.132  Sum_probs=110.9

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHH
Q ss_conf             87213504569999999711432589980899999269990999999996252443458853389999378768899999
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  220 (1277)
                      -..++|.++.++.+.+++...      ....+-++|+.|+||||+|+.+++......  ....+.-.+.+..........
T Consensus        13 ~~divg~~~~~~~L~~~i~~~------~~~~lLl~Gp~G~GKttl~~~la~~l~~~~--~~~~~~e~~~~~~~~~~~~~~   84 (227)
T d1sxjc2          13 LDEVYGQNEVITTVRKFVDEG------KLPHLLFYGPPGTGKTSTIVALAREIYGKN--YSNMVLELNASDDRGIDVVRN   84 (227)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTT------CCCCEEEECSSSSSHHHHHHHHHHHHHTTS--HHHHEEEECTTSCCSHHHHHT
T ss_pred             HHHCCCCHHHHHHHHHHHHCC------CCCEEEEECCCCCCHHHHHHHHHHHHHCCC--CCCEEEEECCCCCCCEEEEEC
T ss_conf             998359699999999999769------998599988998775589999999851677--764157731555687543210


Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEEECCCCC-CCCC-CCC
Q ss_conf             99998207899988689999999983059639999637553067868762113444999958999805543-3244-588
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSH-VAST-MGP  298 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l~~~~~~~~iivTtr~~~-~~~~-~~~  298 (1277)
                      .........               ....+++-.+|+|+++.........++..+......+.+++++.... +... ...
T Consensus        85 ~~~~~~~~~---------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr  149 (227)
T d1sxjc2          85 QIKDFASTR---------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQ  149 (227)
T ss_dssp             HHHHHHHBC---------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             CHHHCCCCC---------------CCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHHHH
T ss_conf             001011100---------------02577718999966320002378999988631120023201267087759999988


Q ss_pred             CCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHH
Q ss_conf             86052689997879999999661899999403689999999853099568
Q 000803          299 IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL  348 (1277)
Q Consensus       299 ~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  348 (1277)
                      ...+.+.+++.++...++.+.+....-    ....+..+.|++.++|..-
T Consensus       150 ~~~i~~~~~~~~~i~~~l~~I~~~e~i----~i~~~~l~~i~~~s~Gd~R  195 (227)
T d1sxjc2         150 CTRFRFQPLPQEAIERRIANVLVHEKL----KLSPNAEKALIELSNGDMR  195 (227)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHTTTC----CBCHHHHHHHHHHHTTCHH
T ss_pred             HHHHCCCCCCCCCCCCCCCCCCCCCCC----CCCHHHHHHHHHHCCCCHH
T ss_conf             754012356520001102122111124----5898999999998499699

>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=99.10  E-value=9.2e-09  Score=64.95  Aligned_cols=194  Identities=14%  Similarity=0.126  Sum_probs=110.3

Q ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHH
Q ss_conf             72135045699999997114325899808999992699909999999962524434588533899993787688999999
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  221 (1277)
                      ..++|.++.++.+..++...     .-.+.+-++|+.|+|||++|+.+++..-...  ..+       ............
T Consensus        12 ~dlig~~~~~~~L~~~i~~~-----~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~--~~~-------~~~~~~~~~~~~   77 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLG-----RIHHAYLFSGTRGVGKTSIARLLAKGLNCET--GIT-------ATPCGVCDNCRE   77 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTT-----CCCSEEEEECSTTSSHHHHHHHHHHHHHCTT--CSC-------SSCCSCSHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHCC-----CCCEEEEEECCCCCCHHHHHHHHHHHHCCCC--CCC-------CCCCCCCHHHHH
T ss_conf             88159599999999999859-----9870598888998758999999999846855--666-------675554247999


Q ss_pred             HHHHHCC-----CCCCCCCHHHHHHHHHHH----HCCCEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEEECCCCC-
Q ss_conf             9998207-----899988689999999983----059639999637553067868762113444999958999805543-
Q 000803          222 LLESITS-----ATCDLKTVDEVQVQLKKA----VDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSH-  291 (1277)
Q Consensus       222 il~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlvlDdv~~~~~~~~~~l~~~l~~~~~~~~iivTtr~~~-  291 (1277)
                      +...-..     ........+.....+...    ..+++-++|+|+++.........++..+-....++++|++|.+.. 
T Consensus        78 i~~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~  157 (239)
T d1njfa_          78 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  157 (239)
T ss_dssp             HHHTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGG
T ss_pred             HHCCCCCEEEEECCHHCCCHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCC
T ss_conf             97479870799611200789999999999974652599879999781108999999999998568988699997388563


Q ss_pred             CCCCC-CCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHH-HHHHH
Q ss_conf             32445-8886052689997879999999661899999403689999999853099568-99999
Q 000803          292 VASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL-AAKTL  353 (1277)
Q Consensus       292 ~~~~~-~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-ai~~~  353 (1277)
                      +.... .....+.+.+++.++..+.+...+.....    ....+..+.|++.++|.+- |+..+
T Consensus       158 i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~----~~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         158 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI----AHEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC----CBCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             CCHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCC----CCCHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             67657612102222467678766688787764314----7899999999997699799999999

>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=99.06  E-value=1.1e-09  Score=70.50  Aligned_cols=195  Identities=9%  Similarity=0.070  Sum_probs=113.5

Q ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHH
Q ss_conf             72135045699999997114325899808999992699909999999962524434588533899993787688999999
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  221 (1277)
                      ..++|.++.++.+..++...      ....+.++|+.|+||||+|+.+++....... ........+.+...........
T Consensus        12 ~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~   84 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSA------NLPHMLFYGPPGTGKTSTILALTKELYGPDL-MKSRILELNASDERGISIVREK   84 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCT------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHH-HTTSEEEECSSSCCCHHHHTTH
T ss_pred             HHCCCCHHHHHHHHHHHHCC------CCCEEEEECCCCCCHHHHHHHHHHHHCCCCC-CCCCHHHEECCCCCCCHHHHHH
T ss_conf             87269399999999999869------9885999899999849999999999709763-3432122002113560678999


Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEEECCCC-CCCCCC-CCC
Q ss_conf             999820789998868999999998305963999963755306786876211344499995899980554-332445-888
Q 000803          222 LLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-GPI  299 (1277)
Q Consensus       222 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l~~~~~~~~iivTtr~~-~~~~~~-~~~  299 (1277)
                      +- ............    ..+......+.-++|+|+++......+..+...+.......++++|+... ...... ...
T Consensus        85 ~~-~~~~~~~~~~~~----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~  159 (237)
T d1sxjd2          85 VK-NFARLTVSKPSK----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQC  159 (237)
T ss_dssp             HH-HHHHSCCCCCCT----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHS
T ss_pred             HH-HHHHHHHHHHHH----HHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHH
T ss_conf             98-876544432467----8776135667369999551336777788876301222233332122466422233111000


Q ss_pred             CEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCH-HHHHH
Q ss_conf             605268999787999999966189999940368999999985309956-89999
Q 000803          300 DHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP-LAAKT  352 (1277)
Q Consensus       300 ~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-Lai~~  352 (1277)
                      ..+.+.+++.++..+++...+.... .   ....+..+.|++.++|.+ -|+..
T Consensus       160 ~~i~f~~~~~~~~~~~L~~i~~~e~-i---~i~~~~l~~ia~~s~gd~R~ai~~  209 (237)
T d1sxjd2         160 SKFRFKALDASNAIDRLRFISEQEN-V---KCDDGVLERILDISAGDLRRGITL  209 (237)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTT-C---CCCHHHHHHHHHHTSSCHHHHHHH
T ss_pred             HHHCCCCCCCCCCCHHHHHHHHHHC-C---CCCHHHHHHHHHHCCCCHHHHHHH
T ss_conf             1102333333211001011455526-7---578999999999859989999999

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.05  E-value=4e-13  Score=90.95  Aligned_cols=108  Identities=20%  Similarity=0.213  Sum_probs=80.2

Q ss_pred             HCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCE
Q ss_conf             02899801599518977787896779988665543168766323422125666739970577676545435105667675
Q 000803          548 LLPKFKKLRLLSLQGYYIGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCH  627 (1277)
Q Consensus       548 ~~~~l~~Lr~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~  627 (1277)
                      .+..+++|+.|++++|.+..++ .+..+++|++|++++|.|+.+|..+..+.+|+.|++++| .+..++ .+..+++|++
T Consensus        43 sl~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N-~i~~l~-~~~~l~~L~~  119 (198)
T d1m9la_          43 TLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYN-QIASLS-GIEKLVNLRV  119 (198)
T ss_dssp             HHHHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEE-ECCCHH-HHHHHHHSSE
T ss_pred             HHHCCCCCCEEECCCCCCCCCC-CCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCC-CCCCCCCCCC
T ss_conf             7762604615199446899864-424782535734135343210000332212333333332-222222-2222223411


Q ss_pred             EEECCCCCCCCCCC--CCCCCCCCCCCCCEEECC
Q ss_conf             64249633341887--788888886228335278
Q 000803          628 LDIRGAILLKEMPF--GMKELKNLQTLSNFVVGK  659 (1277)
Q Consensus       628 L~l~~~~~~~~~p~--~i~~L~~L~~L~~~~~~~  659 (1277)
                      |++++|. +..++.  .+..+++|++|.+.+|..
T Consensus       120 L~L~~N~-i~~~~~~~~l~~l~~L~~L~L~~N~l  152 (198)
T d1m9la_         120 LYMSNNK-ITNWGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             EEESEEE-CCCHHHHHHHTTTTTCSEEEECSSHH
T ss_pred             CCCCCCH-HCCCCCCCCCCCCCCCCEEECCCCCC
T ss_conf             1234102-12554221236777630234279843

>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=99.04  E-value=3.8e-09  Score=67.27  Aligned_cols=180  Identities=17%  Similarity=0.128  Sum_probs=108.2

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCC-EEEEEEECCCCCHHHHH
Q ss_conf             87213504569999999711432589980899999269990999999996252443458853-38999937876889999
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFD-VKAWVCVSDDFDVLSIS  219 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~  219 (1277)
                      -..++|.++.++.+..++...      ..+.+.++|+.|+||||+|+.+++.....   .++ ..+-++.+.......+.
T Consensus        23 ~~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtla~~iak~l~~~---~~~~~~~e~n~s~~~~~~~~~   93 (231)
T d1iqpa2          23 LDDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARELFGE---NWRHNFLELNASDERGINVIR   93 (231)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHHHHGG---GHHHHEEEEETTCHHHHHTTH
T ss_pred             HHHCCCCHHHHHHHHHHHHCC------CCCEEEEECCCCCCHHHHHHHHHHHHHHC---CCCCCEEEEECCCCCCHHHHH
T ss_conf             999139399999999999859------99769997899974879999999998731---467771587567666634888


Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEEECCCC-CCCCCC-C
Q ss_conf             99999820789998868999999998305963999963755306786876211344499995899980554-332445-8
Q 000803          220 KALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-G  297 (1277)
Q Consensus       220 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l~~~~~~~~iivTtr~~-~~~~~~-~  297 (1277)
                      ..+......               ......++.++++|+++......+..+...+........+|.|+... .+.... .
T Consensus        94 ~~~~~~~~~---------------~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~s  158 (231)
T d1iqpa2          94 EKVKEFART---------------KPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQS  158 (231)
T ss_dssp             HHHHHHHHS---------------CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH
T ss_pred             HHHHHHHHH---------------HHCCCCCCEEEEEHHHHHCCHHHHHHHHHHCCCCCCCEEEEECCCCHHHCHHHHHC
T ss_conf             888888751---------------00157872288614344312147898764112477644788614876656576847


Q ss_pred             CCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHH
Q ss_conf             886052689997879999999661899999403689999999853099568
Q 000803          298 PIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL  348 (1277)
Q Consensus       298 ~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  348 (1277)
                      ....+.+.+.+.++....+...+....-    ....+..+.|++.++|..-
T Consensus       159 R~~~i~~~~~~~~~~~~~l~~~~~~e~i----~i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         159 RCAIFRFRPLRDEDIAKRLRYIAENEGL----ELTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             TEEEEECCCCCHHHHHHHHHHHHHTTTC----EECHHHHHHHHHHHTTCHH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHCC----CCCHHHHHHHHHHCCCCHH
T ss_conf             3121012334304677899888998399----9899999999998399799

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.02  E-value=1.8e-10  Score=75.12  Aligned_cols=103  Identities=14%  Similarity=0.001  Sum_probs=61.6

Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCCEEECCCC-CCCCCC-CCCCCCCCCCEEEECCCCCCCCCC-HHHCCCCCCCEEEECC
Q ss_conf             5995189777878967799886655431687-663234-221256667399705776765454-3510566767564249
Q 000803          556 RLLSLQGYYIGELPIPFEDLRLLRYLNLADT-DIRSLP-ESSCSLLNLEILILRNCSSLIKLP-SKIRRLINLCHLDIRG  632 (1277)
Q Consensus       556 r~L~L~~~~l~~lp~~~~~l~~Lr~L~L~~~-~i~~lp-~~~~~L~~L~~L~l~~~~~~~~lp-~~i~~L~~L~~L~l~~  632 (1277)
                      ..++++++.+...|..+..+.+|+.|++.++ .++.++ .+|.++.+|+.|++++| .+..++ ..|..+++|++|++++
T Consensus        11 ~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N-~l~~i~~~~f~~l~~L~~L~Ls~   89 (156)
T d2ifga3          11 SGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSF   89 (156)
T ss_dssp             SCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEECCS
T ss_pred             CEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCEEECC-CCCCCCCCCCCCCCCCCCEECCC
T ss_conf             96985289976586002576565743168986644369212256666672162021-24774201112455433332267


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCEEECCC
Q ss_conf             6333418877888888862283352788
Q 000803          633 AILLKEMPFGMKELKNLQTLSNFVVGKG  660 (1277)
Q Consensus       633 ~~~~~~~p~~i~~L~~L~~L~~~~~~~~  660 (1277)
                      |. +..+|.++....+|++|++..|...
T Consensus        90 N~-l~~l~~~~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          90 NA-LESLSWKTVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             SC-CSCCCSTTTCSCCCCEEECCSSCCC
T ss_pred             CC-CCCCCHHHHCCCCCCCCCCCCCCCC
T ss_conf             87-8515745633532124335798633

>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=99.01  E-value=1.2e-08  Score=64.22  Aligned_cols=157  Identities=15%  Similarity=0.184  Sum_probs=95.6

Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCC--CCCCCEEEEE-EECCCCCHHHHH
Q ss_conf             2135045699999997114325899808999992699909999999962524434--5885338999-937876889999
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWV-CVSDDFDVLSIS  219 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~--~~~f~~~~wv-~~~~~~~~~~~~  219 (1277)
                      .++||+++++++...|....      -.-+.++|++|+|||+++..++.......  ....+..+|. +.+.        
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~------k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~--------   84 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS--------   84 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---------
T ss_pred             CCCCHHHHHHHHHHHHHCCC------CCCCEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEECH--------
T ss_conf             66380999999999995476------6896798889886779999999999817845000354127864056--------


Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHHHHHH-CCCEEEEEECCCCCC--------CHHHHHHHHCCCCCCCCCCEEEEECCCC
Q ss_conf             9999982078999886899999999830-596399996375530--------6786876211344499995899980554
Q 000803          220 KALLESITSATCDLKTVDEVQVQLKKAV-DGKRFLLVLDDVWNE--------DYSLWVDLKAPFLAAAPNSKMIITTRNS  290 (1277)
Q Consensus       220 ~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~--------~~~~~~~l~~~l~~~~~~~~iivTtr~~  290 (1277)
                            +-.........+.....+...+ +....++++|++...        ...+...++.|+... ..-++|.+|...
T Consensus        85 ------liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~r-g~i~vIgatT~e  157 (268)
T d1r6bx2          85 ------LLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTYQ  157 (268)
T ss_dssp             --------CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS-CCCEEEEEECHH
T ss_pred             ------HHCCCCCCHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHC-CCCEEEEECCHH
T ss_conf             ------7506763005899999999986126784688433698862777788641179876488747-987599957999


Q ss_pred             CCCCCC-------CCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             332445-------888605268999787999999966
Q 000803          291 HVASTM-------GPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       291 ~~~~~~-------~~~~~~~l~~l~~~e~~~l~~~~~  320 (1277)
                      +.....       ...+.+.+++.+.+++.+++....
T Consensus       158 ey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         158 EFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             HHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCHHHHHHHCCCCCCCCCHHHHHHHHHHHH
T ss_conf             9999986167888652100368989999999999866

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.99  E-value=5.1e-09  Score=66.47  Aligned_cols=195  Identities=13%  Similarity=0.100  Sum_probs=103.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCC--CCCCEEEEEEECCC------
Q ss_conf             8721350456999999971143258998089999926999099999999625244345--88533899993787------
Q 000803          141 EPVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS--GKFDVKAWVCVSDD------  212 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~--~~f~~~~wv~~~~~------  212 (1277)
                      -..++|+++..+.+..++...     ....-+.++|++|+||||+|+.+++.......  ...+...+...+..      
T Consensus        10 ~~diig~~~~~~~L~~~~~~~-----~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (252)
T d1sxje2          10 LNALSHNEELTNFLKSLSDQP-----RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNV   84 (252)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCT-----TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CC
T ss_pred             HHHCCCCHHHHHHHHHHHHCC-----CCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             988358399999999999769-----987859988999998899999999762276422222123444346663112211


Q ss_pred             ---------------CCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCCCCC
Q ss_conf             ---------------68899999999982078999886899999999830596399996375530678687621134449
Q 000803          213 ---------------FDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAA  277 (1277)
Q Consensus       213 ---------------~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l~~~  277 (1277)
                                     ...................    ....  .-......+.-++|+|+++......+..+...+...
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~--~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~  158 (252)
T d1sxje2          85 VSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQ----VDFQ--DSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKY  158 (252)
T ss_dssp             EECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHS
T ss_pred             CCCCCCCEEEECCCCCCCCCEEEEHHHHHHHHHH----HHHH--HCCCCCCCCCEEEEECCCCCCCCCCCHHHHCCCCCC
T ss_conf             0477631000010445775224310223434331----0012--114666787249994243334543111221002213


Q ss_pred             CCCCEEEEECCCCC-CCCC-CCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHHH
Q ss_conf             99958999805543-3244-588860526899978799999996618999994036899999998530995689
Q 000803          278 APNSKMIITTRNSH-VAST-MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLA  349 (1277)
Q Consensus       278 ~~~~~iivTtr~~~-~~~~-~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  349 (1277)
                      ...+++|+||.+.+ +... ......+.+.+++.++..+++...+.... ..  ....+..+.|++.+.|.+-.
T Consensus       159 ~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~-~~--~~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         159 SKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNER-IQ--LETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHT-CE--ECCSHHHHHHHHHHTTCHHH
T ss_pred             CCCCCCEEEECCCCCHHHHHHCCHHEEEECCCCHHHHHHHHHHHHHHCC-CC--CCCHHHHHHHHHHCCCCHHH
T ss_conf             5664300010211100254421000243035330468999999999839-99--89699999999986994999

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.94  E-value=4e-07  Score=55.21  Aligned_cols=182  Identities=13%  Similarity=0.123  Sum_probs=103.0

Q ss_pred             CCCCCCCCHHHHHHHHHHHHCCCCCC---CCCEEEEEEECCCCCCHHHHHHHHHCCCCCCC--CCCCCEEEEEEECCCCC
Q ss_conf             98721350456999999971143258---99808999992699909999999962524434--58853389999378768
Q 000803          140 TEPVVFGREEDKTKILEMVLTDTAAD---HANFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       140 ~~~~~vGr~~~~~~l~~~L~~~~~~~---~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~--~~~f~~~~wv~~~~~~~  214 (1277)
                      .+..++||+.+++.+.+.+......+   .....++.++|++|+|||++++.+++......  ........++.+.....
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCC
T ss_conf             89988878999999999999999749988885348996789998999999999999875415556784166303333465


Q ss_pred             HHHHHHHHHHHHCCCCC-CCCCHHHHHHHHHHHH--CCCEEEEEECCCCCC------CHHH---HHHHHCCCCCC--CCC
Q ss_conf             89999999998207899-9886899999999830--596399996375530------6786---87621134449--999
Q 000803          215 VLSISKALLESITSATC-DLKTVDEVQVQLKKAV--DGKRFLLVLDDVWNE------DYSL---WVDLKAPFLAA--APN  280 (1277)
Q Consensus       215 ~~~~~~~il~~l~~~~~-~~~~~~~~~~~l~~~l--~~kr~LlvlDdv~~~------~~~~---~~~l~~~l~~~--~~~  280 (1277)
                      ............+.... ...........+....  .+...++++|.++..      ....   +..+...+...  ...
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~  173 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  173 (287)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             HHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCHHHCCCC
T ss_conf             04678887653043233345127889999999998546766541257888515665542678988999874320104565


Q ss_pred             CEEE-EECCCCCCC-------C-CCCCCCEEECCCCCHHHHHHHHHHHHC
Q ss_conf             5899-980554332-------4-458886052689997879999999661
Q 000803          281 SKMI-ITTRNSHVA-------S-TMGPIDHYNLEHLLDDDCWSIFKTHAF  321 (1277)
Q Consensus       281 ~~ii-vTtr~~~~~-------~-~~~~~~~~~l~~l~~~e~~~l~~~~~~  321 (1277)
                      ..++ +++......       . .......+..++++.++..+++...+-
T Consensus       174 ~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~  223 (287)
T d1w5sa2         174 IGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAE  223 (287)
T ss_dssp             EEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHCCCHHCCCCEEEECCCCCHHHHHHHHHHHHH
T ss_conf             14776243089999998625201123220652257759999998766677

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=3.8e-09  Score=67.23  Aligned_cols=86  Identities=23%  Similarity=0.230  Sum_probs=71.5

Q ss_pred             HCCCCCEEEEEECCCCC-CCCCC-CCCCCCCCCCEEECCCCCCCCC-CCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCC
Q ss_conf             02899801599518977-78789-6779988665543168766323-422125666739970577676545435105667
Q 000803          548 LLPKFKKLRLLSLQGYY-IGELP-IPFEDLRLLRYLNLADTDIRSL-PESSCSLLNLEILILRNCSSLIKLPSKIRRLIN  624 (1277)
Q Consensus       548 ~~~~l~~Lr~L~L~~~~-l~~lp-~~~~~l~~Lr~L~L~~~~i~~l-p~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~  624 (1277)
                      .+..++.|+.|++.++. ++.++ ..|..+.+|+.|++++|.|..+ |..|..+++|++|++++| .+..+|..+.....
T Consensus        26 ~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N-~l~~l~~~~~~~~~  104 (156)
T d2ifga3          26 HLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN-ALESLSWKTVQGLS  104 (156)
T ss_dssp             TSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS-CCSCCCSTTTCSCC
T ss_pred             CCCCCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEECCCC-CCCCCCHHHHCCCC
T ss_conf             02576565743168986644369212256666672162021247742011124554333322678-78515745633532


Q ss_pred             CCEEEECCCC
Q ss_conf             6756424963
Q 000803          625 LCHLDIRGAI  634 (1277)
Q Consensus       625 L~~L~l~~~~  634 (1277)
                      |++|++++|.
T Consensus       105 l~~L~L~~Np  114 (156)
T d2ifga3         105 LQELVLSGNP  114 (156)
T ss_dssp             CCEEECCSSC
T ss_pred             CCCCCCCCCC
T ss_conf             1243357986

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.87  E-value=1.1e-07  Score=58.47  Aligned_cols=181  Identities=12%  Similarity=0.061  Sum_probs=104.5

Q ss_pred             CHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             04569999999711432589980899999269990999999996252443458853389999378768899999999982
Q 000803          147 REEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESI  226 (1277)
Q Consensus       147 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l  226 (1277)
                      -+...+++.+.+...     .-.+.+-++|+.|+||||+|+.+++..-.........     ....    .-...+....
T Consensus         7 ~~~~~~~l~~~~~~~-----~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~-----~~~~----~~~~~i~~~~   72 (207)
T d1a5ta2           7 LRPDFEKLVASYQAG-----RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKS-----CGHC----RGCQLMQAGT   72 (207)
T ss_dssp             GHHHHHHHHHHHHTT-----CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBC-----CSCS----HHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHCC-----CCCEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCC-----CCCC----CHHHHHHHCC
T ss_conf             199999999999859-----9673798889998759999999998210101232122-----3342----0155654303


Q ss_pred             CC--------CCCCCCCHHHHHHHHHHHH-----CCCEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEEECCCCC-C
Q ss_conf             07--------8999886899999999830-----59639999637553067868762113444999958999805543-3
Q 000803          227 TS--------ATCDLKTVDEVQVQLKKAV-----DGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSH-V  292 (1277)
Q Consensus       227 ~~--------~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~~~~~~~~l~~~l~~~~~~~~iivTtr~~~-~  292 (1277)
                      ..        .....-..+++.. +.+.+     .+++-++|+|+++.........++..+-....+..+|+||++.. +
T Consensus        73 ~~~~~~~~~~~~~~~i~~~~ir~-l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~l  151 (207)
T d1a5ta2          73 HPDYYTLAPEKGKNTLGVDAVRE-VTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERL  151 (207)
T ss_dssp             CTTEEEECCCTTCSSBCHHHHHH-HHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGS
T ss_pred             CCCCCHHHHHHCCCCCCCCHHHH-HHHHHHHCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHH
T ss_conf             43110123431345333211467-76532110035764047731344200001499999998501111045530686551


Q ss_pred             CCCC-CCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHH
Q ss_conf             2445-8886052689997879999999661899999403689999999853099568999
Q 000803          293 ASTM-GPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAK  351 (1277)
Q Consensus       293 ~~~~-~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~  351 (1277)
                      .... .....+.+.+++.++....+.....         ...+.+..+++.++|.|-.+-
T Consensus       152 l~tI~SRc~~i~~~~~~~~~~~~~L~~~~~---------~~~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         152 LATLRSRCRLHYLAPPPEQYAVTWLSREVT---------MSQDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             CHHHHTTSEEEECCCCCHHHHHHHHHHHCC---------CCHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHCCEEEEEECCCCCHHHHHHHHHHCCC---------CCHHHHHHHHHHCCCCHHHHH
T ss_conf             032002157882689999999999997489---------999999999997699999999

>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=98.79  E-value=2e-11  Score=80.89  Aligned_cols=88  Identities=23%  Similarity=0.351  Sum_probs=46.9

Q ss_pred             HHHCCCCCEEEEEECCCCCCCC-----CCCCCCCCCCCCEEECCCCCCCC-----CCCCCC-CCCCCCEEEECCCCCCCC
Q ss_conf             3102899801599518977787-----89677998866554316876632-----342212-566673997057767654
Q 000803          546 YDLLPKFKKLRLLSLQGYYIGE-----LPIPFEDLRLLRYLNLADTDIRS-----LPESSC-SLLNLEILILRNCSSLIK  614 (1277)
Q Consensus       546 ~~~~~~l~~Lr~L~L~~~~l~~-----lp~~~~~l~~Lr~L~L~~~~i~~-----lp~~~~-~L~~L~~L~l~~~~~~~~  614 (1277)
                      ...++.++++++|+|++|.++.     +...+..+++|++|+|++|.|..     +...+. ...+|+.|++++| .++.
T Consensus        20 ~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~it~   98 (460)
T d1z7xw1          20 AELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNC-CLTG   98 (460)
T ss_dssp             HHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTS-CCBG
T ss_pred             HHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHHCCCCCCCEEECCCC-CCCC
T ss_conf             999976779999982899998899999999985399988897959859728999999998437887788778887-7543


Q ss_pred             -----CCHHHCCCCCCCEEEECCCC
Q ss_conf             -----54351056676756424963
Q 000803          615 -----LPSKIRRLINLCHLDIRGAI  634 (1277)
Q Consensus       615 -----lp~~i~~L~~L~~L~l~~~~  634 (1277)
                           ++..+..+++|++|++++|.
T Consensus        99 ~~~~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          99 AGCGVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             GGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             CCCCCCCCHHHCCCCCCCCCCCCCC
T ss_conf             2210121100003432002444332

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.76  E-value=1e-07  Score=58.74  Aligned_cols=196  Identities=14%  Similarity=0.055  Sum_probs=104.1

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCC-----------CCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEE
Q ss_conf             8721350456999999971143-----------25899808999992699909999999962524434588533899993
Q 000803          141 EPVVFGREEDKTKILEMVLTDT-----------AADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCV  209 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~~-----------~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~  209 (1277)
                      -..++|.++.++++.+++....           ..+.+..+.+.++|+.|+||||+|+.+++...      + ...++..
T Consensus        13 ~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~------~-~~~~~~~   85 (253)
T d1sxja2          13 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG------Y-DILEQNA   85 (253)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT------C-EEEEECT
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHCCHHHHHHHCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHH------H-HHHCCCC
T ss_conf             99966989999999999996253002343232025788874499987999988899999999987------5-1201344


Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHH---HHHHHHCCCCCCCCCCEEEEE
Q ss_conf             78768899999999982078999886899999999830596399996375530678---687621134449999589998
Q 000803          210 SDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYS---LWVDLKAPFLAAAPNSKMIIT  286 (1277)
Q Consensus       210 ~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~---~~~~l~~~l~~~~~~~~iivT  286 (1277)
                      +...+...+-. .................  ........++..++++|++......   .+..+....... .. .+++|
T Consensus        86 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~-~~-~ii~i  160 (253)
T d1sxja2          86 SDVRSKTLLNA-GVKNALDNMSVVGYFKH--NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT-ST-PLILI  160 (253)
T ss_dssp             TSCCCHHHHHH-TGGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC-SS-CEEEE
T ss_pred             CCCHHHHHHHH-HHHHHHHCCHHHHHHHH--HHHCCCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHCCC-CC-CCCCC
T ss_conf             32211688999-99887631212101334--3201455665137776301111100013467776540123-42-22111


Q ss_pred             CC--CCCC-CCCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCH-HHHHH
Q ss_conf             05--5433-2445888605268999787999999966189999940368999999985309956-89999
Q 000803          287 TR--NSHV-ASTMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLP-LAAKT  352 (1277)
Q Consensus       287 tr--~~~~-~~~~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-Lai~~  352 (1277)
                      +.  .... .........+.+.+.+.++....+...+....- ..   ..+..+.|++.++|.. -|+..
T Consensus       161 ~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i-~i---~~~~l~~i~~~s~GDiR~ai~~  226 (253)
T d1sxja2         161 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKF-KL---DPNVIDRLIQTTRGDIRQVINL  226 (253)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTC-CC---CTTHHHHHHHHTTTCHHHHHHH
T ss_pred             CCCCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHCC-CC---CHHHHHHHHHHCCCCHHHHHHH
T ss_conf             355552113532440365311453146788999999998099-99---9999999999679709999999

>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=98.76  E-value=4.4e-11  Score=78.79  Aligned_cols=90  Identities=22%  Similarity=0.218  Sum_probs=42.6

Q ss_pred             CCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEECCCCCCCCCCCCCC
Q ss_conf             78789677998866554316876632342212566673997057767654543510566767564249633341887788
Q 000803          565 IGELPIPFEDLRLLRYLNLADTDIRSLPESSCSLLNLEILILRNCSSLIKLPSKIRRLINLCHLDIRGAILLKEMPFGMK  644 (1277)
Q Consensus       565 l~~lp~~~~~l~~Lr~L~L~~~~i~~lp~~~~~L~~L~~L~l~~~~~~~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~  644 (1277)
                      +..++.++..+.+|++|+|++|.|+.++ .+..+++|++|++++| .+..+|.....+.+|++|++++|. +..++ ++.
T Consensus        37 i~~l~~sl~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N-~i~~i~~~~~~~~~L~~L~l~~N~-i~~l~-~~~  112 (198)
T d1m9la_          37 IEKMDATLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYNQ-IASLS-GIE  112 (198)
T ss_dssp             CCCCHHHHHHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEE-EECSCSSHHHHHHHCCEEECSEEE-CCCHH-HHH
T ss_pred             HHHHHHHHHCCCCCCEEECCCCCCCCCC-CCCCCCCCCCHHHCCC-CCCCCCCCCCCCCCCCCCCCCCCC-CCCCC-CCC
T ss_conf             2002467762604615199446899864-4247825357341353-432100003322123333333322-22222-222


Q ss_pred             CCCCCCCCCCEEEC
Q ss_conf             88888622833527
Q 000803          645 ELKNLQTLSNFVVG  658 (1277)
Q Consensus       645 ~L~~L~~L~~~~~~  658 (1277)
                      .+++|++|++..|.
T Consensus       113 ~l~~L~~L~L~~N~  126 (198)
T d1m9la_         113 KLVNLRVLYMSNNK  126 (198)
T ss_dssp             HHHHSSEEEESEEE
T ss_pred             CCCCCCCCCCCCCH
T ss_conf             22234111234102

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.71  E-value=3.1e-07  Score=55.85  Aligned_cols=155  Identities=15%  Similarity=0.180  Sum_probs=88.0

Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCC----CCCCCCCCEEEEE-EECCCCCHHH
Q ss_conf             2135045699999997114325899808999992699909999999962524----4345885338999-9378768899
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKA----VEDSGKFDVKAWV-CVSDDFDVLS  217 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~----~~~~~~f~~~~wv-~~~~~~~~~~  217 (1277)
                      .++||+.++++++..|.....      .-+.++|++|+|||+++..++....    ...  ..+..+|. +++.-     
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~k------~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~--l~~~~i~~ld~~~l-----   89 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRTK------NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEG--LKGKRIVSLQMGSL-----   89 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSSC------CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTT--STTCEEEEECC--------
T ss_pred             CCCCCHHHHHHHHHHHHCCCC------CCCEEECCCCCCHHHHHHHHHHHHHHCCCCHH--HCCCEEEEEEHHHH-----
T ss_conf             874808999999999824889------99768799998899999999999980899978--86966899557666-----


Q ss_pred             HHHHHHHHHCCCCCCCCCHHHHHHH-HHHHHCC-CEEEEEECCCCCCC-------HHHHHHHHCCCCCCCCCCEEEEECC
Q ss_conf             9999999820789998868999999-9983059-63999963755306-------7868762113444999958999805
Q 000803          218 ISKALLESITSATCDLKTVDEVQVQ-LKKAVDG-KRFLLVLDDVWNED-------YSLWVDLKAPFLAAAPNSKMIITTR  288 (1277)
Q Consensus       218 ~~~~il~~l~~~~~~~~~~~~~~~~-l~~~l~~-kr~LlvlDdv~~~~-------~~~~~~l~~~l~~~~~~~~iivTtr  288 (1277)
                           +    ....-....+..... +.+.... .+.++++|++...-       ..+...++.|....+ .-++|.+|.
T Consensus        90 -----~----ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg-~~~~I~~tT  159 (387)
T d1qvra2          90 -----L----AGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG-ELRLIGATT  159 (387)
T ss_dssp             -----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT-CCCEEEEEC
T ss_pred             -----H----CCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHCCCCCCCCCCHHHHHHHHHHCC-CCCEEEECC
T ss_conf             -----5----266741368999999999850589966987240888842777877413899999997378-851666368


Q ss_pred             CCCCC------CCCCCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             54332------445888605268999787999999966
Q 000803          289 NSHVA------STMGPIDHYNLEHLLDDDCWSIFKTHA  320 (1277)
Q Consensus       289 ~~~~~------~~~~~~~~~~l~~l~~~e~~~l~~~~~  320 (1277)
                      ..+..      ......+.+.+++.+.+++..++....
T Consensus       160 ~~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         160 LDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             99998763367999824611279986788999999999

>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=98.70  E-value=9.3e-07  Score=53.00  Aligned_cols=177  Identities=17%  Similarity=0.083  Sum_probs=95.3

Q ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHH
Q ss_conf             72135045699999997114325899808999992699909999999962524434588533899993787688999999
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  221 (1277)
                      ..+||-+..++.+..++....... ...+-+.++|++|+||||+|+.+++....    .   ..+++.+......     
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~-~~~~~~Ll~GPpG~GKTtla~~la~~~~~----~---~~~~~~~~~~~~~-----   75 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARK-EPLEHLLLFGPPGLGKTTLAHVIAHELGV----N---LRVTSGPAIEKPG-----   75 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSS-SCCCCEEEECCTTSCHHHHHHHHHHHHTC----C---EEEEETTTCCSHH-----
T ss_pred             HHHCCHHHHHHHHHHHHHHHHHCC-CCCCEEEEECCCCCCHHHHHHHHHHHHCC----C---EEECCCCCCCCCH-----
T ss_conf             894898999999999999787358-88873898897998788899999998498----7---4754687534321-----


Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCC------------------CCCCCCCEE
Q ss_conf             99982078999886899999999830596399996375530678687621134------------------449999589
Q 000803          222 LLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPF------------------LAAAPNSKM  283 (1277)
Q Consensus       222 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l------------------~~~~~~~~i  283 (1277)
                                      .....+.+... .+..+++|.++......-+.+....                  ....+...+
T Consensus        76 ----------------~~~~~~~~~~~-~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (239)
T d1ixsb2          76 ----------------DLAAILANSLE-EGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  138 (239)
T ss_dssp             ----------------HHHHHHHTTCC-TTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEE
T ss_pred             ----------------HHHHHHHHHCC-CCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCEEE
T ss_conf             ----------------46899885103-8873443110011044787500124333212110465565433468997799


Q ss_pred             EEEC-CCCCCC--CCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             9980-554332--44588860526899978799999996618999994036899999998530995689999
Q 000803          284 IITT-RNSHVA--STMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKT  352 (1277)
Q Consensus       284 ivTt-r~~~~~--~~~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  352 (1277)
                      +.++ +.....  ........+.+.+.+.++...+....+.....    ....+....|++.++|.+-.+..
T Consensus       139 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i----~~~~~~l~~ia~~s~gd~R~a~~  206 (239)
T d1ixsb2         139 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV----RITEEAALEIGRRSRGTMRVAKR  206 (239)
T ss_dssp             EEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCC----CBCHHHHHHHHHHTTSSHHHHHH
T ss_pred             EEECCCCCCCCCHHHCCCCEEEEEECCCHHHHHHHHHHHHHHHCC----CCCHHHHHHHHHHCCCCHHHHHH
T ss_conf             963068333441010122145675205745555788999998487----65267899999976999999999

>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=98.68  E-value=5.3e-07  Score=54.47  Aligned_cols=177  Identities=16%  Similarity=0.099  Sum_probs=96.6

Q ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHH
Q ss_conf             72135045699999997114325899808999992699909999999962524434588533899993787688999999
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  221 (1277)
                      ..++|.+..++.+..++......+ ...+-+.++|++|+|||++|+.+++...      ++ .+.++.+.......+. .
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~-~~~~~~L~~GPpGtGKT~lA~~la~~~~------~~-~~~~~~~~~~~~~~~~-~   79 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRG-EVLDHVLLAGPPGLGKTTLAHIIASELQ------TN-IHVTSGPVLVKQGDMA-A   79 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHT-CCCCCEEEESSTTSSHHHHHHHHHHHHT------CC-EEEEETTTCCSHHHHH-H
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHCC-CCCCEEEEECCCCCCHHHHHHHHHHCCC------CC-CCCCCCCCCCCHHHHH-H
T ss_conf             990895999999999999788538-8777489879999738899999985038------88-5332574422488899-9


Q ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCCC------------------CCCCCCEE
Q ss_conf             999820789998868999999998305963999963755306786876211344------------------49999589
Q 000803          222 LLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFL------------------AAAPNSKM  283 (1277)
Q Consensus       222 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l~------------------~~~~~~~i  283 (1277)
                      ++                    ..  ..++..+++|.+.......-+.+....-                  .......+
T Consensus        80 ~~--------------------~~--~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (238)
T d1in4a2          80 IL--------------------TS--LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  137 (238)
T ss_dssp             HH--------------------HH--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             HH--------------------HH--HCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCCCCCCCCEEE
T ss_conf             98--------------------75--435882477789884067776421402441454454376002444457887699


Q ss_pred             EEECCC-CCCCCC--CCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             998055-433244--5888605268999787999999966189999940368999999985309956899999
Q 000803          284 IITTRN-SHVAST--MGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLAAKTL  353 (1277)
Q Consensus       284 ivTtr~-~~~~~~--~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  353 (1277)
                      |.+|.. ......  ......+.+++.+.++...++...+.....    ....+....+++.++|.+-.+..+
T Consensus       138 I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~----~~~~~~l~~i~~~s~gd~R~ai~~  206 (238)
T d1in4a2         138 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV----EIEDAAAEMIAKRSRGTPRIAIRL  206 (238)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC----CBCHHHHHHHHHTSTTCHHHHHHH
T ss_pred             EEECCCCCCCCCCCEEEEEEEEEECCCCHHHHHHHHHHHHHHCCC----HHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             995478755554311330079984478778777777776530110----025799999999679989999999

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.56  E-value=1e-07  Score=58.66  Aligned_cols=153  Identities=14%  Similarity=0.134  Sum_probs=84.0

Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCC--CCCCCEEEEE-EECCCCCHHHHH
Q ss_conf             2135045699999997114325899808999992699909999999962524434--5885338999-937876889999
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWV-CVSDDFDVLSIS  219 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~--~~~f~~~~wv-~~~~~~~~~~~~  219 (1277)
                      ..+||+++++++...|....      -.-+.++|.+|+|||+++..++.......  ....+..+|. +++      .  
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~------k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~------~--   88 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG------A--   88 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH------H--
T ss_pred             CCCCCHHHHHHHHHHHHCCC------CCCEEEEECCCCCCHHHHHHHHHHHHHCCCCHHHCCCEEEEEEHH------H--
T ss_conf             87280999999999995358------887399835875447999999999980899978818569996699------9--


Q ss_pred             HHHHHHHCCCCCCCCCHHHHH-HHHHHHHC-CCEEEEEECCCCCCCH-------HHHHHHHCCCCCCCCCCEEEEECCCC
Q ss_conf             999998207899988689999-99998305-9639999637553067-------86876211344499995899980554
Q 000803          220 KALLESITSATCDLKTVDEVQ-VQLKKAVD-GKRFLLVLDDVWNEDY-------SLWVDLKAPFLAAAPNSKMIITTRNS  290 (1277)
Q Consensus       220 ~~il~~l~~~~~~~~~~~~~~-~~l~~~l~-~kr~LlvlDdv~~~~~-------~~~~~l~~~l~~~~~~~~iivTtr~~  290 (1277)
                            +-.........++.. ..+.+..+ ..+.++++|++...-.       .+...++.|.... ..-++|.||...
T Consensus        89 ------LiAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r-g~l~~IgatT~e  161 (195)
T d1jbka_          89 ------LVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-GELHCVGATTLD  161 (195)
T ss_dssp             ------HHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT-TSCCEEEEECHH
T ss_pred             ------HHCCCCCCHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHCCCCCCCCCCHHHHHHHHHHC-CCCEEEECCCHH
T ss_conf             ------8645874077999999999987317980899726089984378777752389999999857-995498518999


Q ss_pred             CCCCCC-------CCCCEEECCCCCHHHHHHHH
Q ss_conf             332445-------88860526899978799999
Q 000803          291 HVASTM-------GPIDHYNLEHLLDDDCWSIF  316 (1277)
Q Consensus       291 ~~~~~~-------~~~~~~~l~~l~~~e~~~l~  316 (1277)
                      +.....       ...+.+.+++.+.+++..++
T Consensus       162 ey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         162 EYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHH
T ss_conf             999998738899963987545898989999985

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.53  E-value=1.5e-05  Score=45.81  Aligned_cols=181  Identities=15%  Similarity=0.078  Sum_probs=96.8

Q ss_pred             CCCCCCHHHHHHHHHH---HHCCCC---CCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCH
Q ss_conf             7213504569999999---711432---5899808999992699909999999962524434588533899993787688
Q 000803          142 PVVFGREEDKTKILEM---VLTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV  215 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~---L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~  215 (1277)
                      .+++|.++.++++.+.   +.....   -+....+.+.++|++|+|||++|+.+++....    +   .+.+..+.-.+ 
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~----~---~~~i~~~~l~~-   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV----P---FFTISGSDFVE-   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC----C---EEEECSCSSTT-
T ss_pred             HHHHCHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCCCHHHHHHHHHCCC----C---EEEEEHHHHHH-
T ss_conf             998163999999999999987999999869998886786689988822899999998299----8---79988699426-


Q ss_pred             HHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCC-----------HH---HHHHHHCCCC--CCCC
Q ss_conf             999999999820789998868999999998305963999963755306-----------78---6876211344--4999
Q 000803          216 LSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED-----------YS---LWVDLKAPFL--AAAP  279 (1277)
Q Consensus       216 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~-----------~~---~~~~l~~~l~--~~~~  279 (1277)
                                   . ........+...+...-+..+++|++||++..-           ..   ....++..+.  ....
T Consensus        84 -------------~-~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~  149 (256)
T d1lv7a_          84 -------------M-FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNE  149 (256)
T ss_dssp             -------------S-CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSS
T ss_pred             -------------C-CHHHHHHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCC
T ss_conf             -------------0-01078999999999999759989999775665756789888874899999999999953877779


Q ss_pred             CCEEEEECCCCCCC-CCC---CCC-CEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHHH
Q ss_conf             95899980554332-445---888-60526899978799999996618999994036899999998530995689
Q 000803          280 NSKMIITTRNSHVA-STM---GPI-DHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLA  349 (1277)
Q Consensus       280 ~~~iivTtr~~~~~-~~~---~~~-~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  349 (1277)
                      +..+|.||...+.. ..+   +.. ..+.+.+.+.++-.+++....... .......    ...+++.+.|+.-|
T Consensus       150 ~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~-~~~~~~~----~~~la~~t~G~s~a  219 (256)
T d1lv7a_         150 GIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV-PLAPDID----AAIIARGTPGFSGA  219 (256)
T ss_dssp             CEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS-CBCTTCC----HHHHHHTCTTCCHH
T ss_pred             CEEEEEECCCCCCCCHHHCCCCCCCEEEECCCCCHHHHHHHHHHHCCCC-CCCCCCC----HHHHHHHCCCCCHH
T ss_conf             9899980799310798576898787798779959999999999842599-8686569----99999868998999

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.49  E-value=1.6e-06  Score=51.57  Aligned_cols=174  Identities=16%  Similarity=0.153  Sum_probs=90.6

Q ss_pred             CCCCCCHHHH-HHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHH
Q ss_conf             7213504569-999999711432589980899999269990999999996252443458853389999378768899999
Q 000803          142 PVVFGREEDK-TKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISK  220 (1277)
Q Consensus       142 ~~~vGr~~~~-~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  220 (1277)
                      .-++|...+. ..+...+.....   .....+.|+|+.|+|||.|++.+++....+.    ..+++++..      +...
T Consensus        11 nF~vg~~N~~a~~~~~~~~~~~~---~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~----~~~~~~~~~------~~~~   77 (213)
T d1l8qa2          11 NFIVGEGNRLAYEVVKEALENLG---SLYNPIFIYGSVGTGKTHLLQAAGNEAKKRG----YRVIYSSAD------DFAQ   77 (213)
T ss_dssp             SCCCCTTTHHHHHHHHHHHHTTT---TSCSSEEEECSSSSSHHHHHHHHHHHHHHTT----CCEEEEEHH------HHHH
T ss_pred             HCCCCCCHHHHHHHHHHHHHCCC---CCCCCEEEECCCCCCHHHHHHHHHHHHCCCC----CCEEEECHH------HHHH
T ss_conf             31377749999999999986768---7788579988899839999999998744676----504884437------8799


Q ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCC-HHHHHHHHCCCCC--CCCCCEEEEECCCCCCC----
Q ss_conf             9999820789998868999999998305963999963755306-7868762113444--99995899980554332----
Q 000803          221 ALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNED-YSLWVDLKAPFLA--AAPNSKMIITTRNSHVA----  293 (1277)
Q Consensus       221 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~-~~~~~~l~~~l~~--~~~~~~iivTtr~~~~~----  293 (1277)
                      .+...+....     ...    +.+.++ .--++++||+.... ...|......+.+  ...|..||+|++.....    
T Consensus        78 ~~~~~~~~~~-----~~~----~~~~~~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~  147 (213)
T d1l8qa2          78 AMVEHLKKGT-----INE----FRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGV  147 (213)
T ss_dssp             HHHHHHHHTC-----HHH----HHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTS
T ss_pred             HHHHHHHCCC-----HHH----HHHHHH-HCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHCCCC
T ss_conf             9999987166-----266----789876-213010112655058657788999999987631663899548751001343


Q ss_pred             -----CCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf             -----44588860526899978799999996618999994036899999998530
Q 000803          294 -----STMGPIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKC  343 (1277)
Q Consensus       294 -----~~~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~  343 (1277)
                           ..+.....+.++ .++++-.+++.+.+.... ..   ...++.+-|++.+
T Consensus       148 ~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~rg-l~---l~~~v~~yl~~~~  197 (213)
T d1l8qa2         148 SDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKEFN-LE---LRKEVIDYLLENT  197 (213)
T ss_dssp             CHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHHTT-CC---CCHHHHHHHHHHC
T ss_pred             CHHHHHHHHCCEEEEEC-CCCHHHHHHHHHHHHHCC-CC---CCHHHHHHHHHHC
T ss_conf             26788886185689978-882799999999999829-99---9999999999856

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.47  E-value=8e-06  Score=47.43  Aligned_cols=179  Identities=15%  Similarity=0.074  Sum_probs=95.9

Q ss_pred             CCCCCHHHHHHHHHHH----HCCCC---CCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCH
Q ss_conf             2135045699999997----11432---5899808999992699909999999962524434588533899993787688
Q 000803          143 VVFGREEDKTKILEMV----LTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV  215 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L----~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~  215 (1277)
                      .+.|-+..++++.+.+    .....   .+....+-+-++|++|.|||++|+.+++....    +   .+.+..+.    
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~----~---~~~i~~~~----   73 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA----F---FFLINGPE----   73 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTC----E---EEEECHHH----
T ss_pred             HHCCHHHHHHHHHHHHHHHHCCHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHHHCC----E---EEEEECHH----
T ss_conf             631099999999999998831999998679998864687669988830899999987488----3---79997304----


Q ss_pred             HHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHH-----------HHHHHHCCCC--CCCCCCE
Q ss_conf             99999999982078999886899999999830596399996375530678-----------6876211344--4999958
Q 000803          216 LSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYS-----------LWVDLKAPFL--AAAPNSK  282 (1277)
Q Consensus       216 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~-----------~~~~l~~~l~--~~~~~~~  282 (1277)
                                +.... .......+...+...-..++++|++||++..-..           ....+.....  ....+..
T Consensus        74 ----------l~~~~-~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vl  142 (258)
T d1e32a2          74 ----------IMSKL-AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  142 (258)
T ss_dssp             ----------HTTSC-TTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEE
T ss_pred             ----------HCCCC-CCCHHHHHHHHHHHHHHCCCEEEEEHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             ----------30254-5617888899999998649949985211132257887777068999877500110123468811


Q ss_pred             EEEECCCCCCCC-CC---C-CCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHH
Q ss_conf             999805543324-45---8-886052689997879999999661899999403689999999853099568
Q 000803          283 MIITTRNSHVAS-TM---G-PIDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL  348 (1277)
Q Consensus       283 iivTtr~~~~~~-~~---~-~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  348 (1277)
                      ||.||...+... .+   + -...+.+...+.++-.+++....... .......    ..+|++.+.|+--
T Consensus       143 vi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~-~~~~~~~----~~~la~~t~G~s~  208 (258)
T d1e32a2         143 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM-KLADDVD----LEQVANETHGHVG  208 (258)
T ss_dssp             EEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTS-CBCTTCC----HHHHHHHCTTCCH
T ss_pred             EEEECCCCCCCCHHHHHCCCCCCEEECCCCCHHHHHHHHHHHCCCC-CCCCCCC----HHHHHHCCCCCCH
T ss_conf             7975799310252454246302323789999889998732204576-3345530----3444420667789

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.44  E-value=5.1e-06  Score=48.63  Aligned_cols=180  Identities=17%  Similarity=0.109  Sum_probs=92.2

Q ss_pred             CCCCCCHHHHHHHHHHH---HCCC---CCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCH
Q ss_conf             72135045699999997---1143---25899808999992699909999999962524434588533899993787688
Q 000803          142 PVVFGREEDKTKILEMV---LTDT---AADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV  215 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L---~~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~  215 (1277)
                      ..++|-++.++++.+.+   ....   ..+....+-+.++|+.|+|||++|+.+++....    +   .+.+..+     
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~----~---~~~i~~~-----   76 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV----P---FITASGS-----   76 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTC----C---EEEEEHH-----
T ss_pred             HHHCCHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCC----C---EEEEEHH-----
T ss_conf             997157999999999999987999999759998864887668988835999999987399----7---7997869-----


Q ss_pred             HHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCH----------H----HHHHHHCCCC--CCCC
Q ss_conf             9999999998207899988689999999983059639999637553067----------8----6876211344--4999
Q 000803          216 LSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDY----------S----LWVDLKAPFL--AAAP  279 (1277)
Q Consensus       216 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~----------~----~~~~l~~~l~--~~~~  279 (1277)
                       .+    ..    ... ......+...+...-...+++|++||++..-.          .    ....++..+-  ....
T Consensus        77 -~l----~~----~~~-g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~  146 (247)
T d1ixza_          77 -DF----VE----MFV-GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT  146 (247)
T ss_dssp             -HH----HH----SCT-THHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTC
T ss_pred             -HH----HH----CCC-CHHHHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCC
T ss_conf             -96----46----245-389999999999999769979999773664746789988875899999999999963877789


Q ss_pred             CCEEEEECCCCC-CCCCC---CCC-CEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHH
Q ss_conf             958999805543-32445---888-6052689997879999999661899999403689999999853099568
Q 000803          280 NSKMIITTRNSH-VASTM---GPI-DHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPL  348 (1277)
Q Consensus       280 ~~~iivTtr~~~-~~~~~---~~~-~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  348 (1277)
                      +..+|.||...+ +...+   +.. ..+.+.+.+.++..+++........ ......    ...+++.|.|+.-
T Consensus       147 ~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~-~~~~~~----~~~la~~t~g~s~  215 (247)
T d1ixza_         147 AIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKP-LAEDVD----LALLAKRTPGFVG  215 (247)
T ss_dssp             CEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSC-BCTTCC----HHHHHHTCTTCCH
T ss_pred             CEEEEEECCCCCCCCHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHCCCC-CCCCCC----HHHHHHHCCCCCH
T ss_conf             98999807994006996758987857999799699999999998750657-765468----9999977889889

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.19  E-value=2.3e-05  Score=44.70  Aligned_cols=180  Identities=14%  Similarity=0.084  Sum_probs=93.6

Q ss_pred             CCCCCHHHHHHHHHHHH----CCC---CCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCH
Q ss_conf             21350456999999971----143---25899808999992699909999999962524434588533899993787688
Q 000803          143 VVFGREEDKTKILEMVL----TDT---AADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV  215 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~----~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~  215 (1277)
                      .+.|-++.++++.+.+.    ...   ..+....+-+-++|+.|.|||+||+.++.....    +     ++.++    .
T Consensus         8 di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~----~-----~~~~~----~   74 (265)
T d1r7ra3           8 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA----N-----FISIK----G   74 (265)
T ss_dssp             SCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTC----E-----EEEEC----H
T ss_pred             HHCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHHHCC----C-----EEEEE----H
T ss_conf             966789999999999999963999998679998875788789987630477887877189----4-----79988----7


Q ss_pred             HHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCH----------HH----HHHHHCCCCC--CCC
Q ss_conf             9999999998207899988689999999983059639999637553067----------86----8762113444--999
Q 000803          216 LSISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDY----------SL----WVDLKAPFLA--AAP  279 (1277)
Q Consensus       216 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~----------~~----~~~l~~~l~~--~~~  279 (1277)
                      ..        +.... .......+...+...-...++++++||++..-.          ..    ...+...+..  ...
T Consensus        75 ~~--------l~~~~-~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  145 (265)
T d1r7ra3          75 PE--------LLTMW-FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK  145 (265)
T ss_dssp             HH--------HHTSC-TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------
T ss_pred             HH--------HHHCC-CCCHHHHHHHHHHHHHHCCCCCEEHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCC
T ss_conf             99--------52531-6515899999999998639843568754632455787678873799999999999962867779


Q ss_pred             CCEEEEECCCCCCC-CCC---CC-CCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCHHH
Q ss_conf             95899980554332-445---88-860526899978799999996618999994036899999998530995689
Q 000803          280 NSKMIITTRNSHVA-STM---GP-IDHYNLEHLLDDDCWSIFKTHAFEGRDHNALEISESFRKKVVGKCGGLPLA  349 (1277)
Q Consensus       280 ~~~iivTtr~~~~~-~~~---~~-~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  349 (1277)
                      +..+|.||...+.. ..+   +. ...+.+.+.+.++-.++|...... .......    ...++++++.|+.-+
T Consensus       146 ~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~-~~~~~~~----~l~~la~~t~g~s~~  215 (265)
T d1r7ra3         146 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK-SPVAKDV----DLEFLAKMTNGFSGA  215 (265)
T ss_dssp             CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTC-C----CC----CCHHHHHHHCSSCCH
T ss_pred             CEEEEEECCCCHHCCHHHHCCCCCCEEEEECCHHHHHHHHHHHHHHCC-CCCHHHH----HHHHHHHCCCCCCHH
T ss_conf             989999179922279978078776479995660788899999999605-7710243----689998258999999

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=98.19  E-value=4.9e-05  Score=42.74  Aligned_cols=100  Identities=16%  Similarity=0.210  Sum_probs=53.2

Q ss_pred             CCCCCCCHHHHHHHHHHHHCC----CCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHH
Q ss_conf             872135045699999997114----3258998089999926999099999999625244345885338999937876889
Q 000803          141 EPVVFGREEDKTKILEMVLTD----TAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVL  216 (1277)
Q Consensus       141 ~~~~vGr~~~~~~l~~~L~~~----~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~  216 (1277)
                      ...++|..+.++.+.+.....    ........+-+-++|++|+|||++|+.+++....    +|   +.++.+....  
T Consensus         8 ~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~----~~---~~i~~~~~~~--   78 (246)
T d1d2na_           8 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF----PF---IKICSPDKMI--   78 (246)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTC----SE---EEEECGGGCT--
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHCCCC----CC---CCCCCCCCCC--
T ss_conf             06984768799999999999999986368899807998896999889999998620100----23---3345652235--


Q ss_pred             HHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             999999998207899988689999999983059639999637553
Q 000803          217 SISKALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWN  261 (1277)
Q Consensus       217 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~  261 (1277)
                                  ..........+...+....+..+++|++|+++.
T Consensus        79 ------------g~~~~~~~~~i~~if~~A~~~~p~il~iDEid~  111 (246)
T d1d2na_          79 ------------GFSETAKCQAMKKIFDDAYKSQLSCVVVDDIER  111 (246)
T ss_dssp             ------------TCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHH
T ss_pred             ------------CCCCCCHHHHHHHHHHHHHHCCCCEEEHHHHHH
T ss_conf             ------------654211224444456555532422233102566

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.16  E-value=5.4e-07  Score=54.43  Aligned_cols=223  Identities=15%  Similarity=0.078  Sum_probs=0.0

Q ss_pred             CHHHCCCCCCCCCCCCCCCCCCEEEHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCC-----------CCCCCCCCEEE
Q ss_conf             0311024564422235676650100002446631028998015995189777878967-----------79988665543
Q 000803          514 FKVFYEIEHLRTFLPLHKTDYIITCYITSMVLYDLLPKFKKLRLLSLQGYYIGELPIP-----------FEDLRLLRYLN  582 (1277)
Q Consensus       514 ~~~~~~~~~lr~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~l~~lp~~-----------~~~l~~Lr~L~  582 (1277)
                      ...+.....++.+.+.++.    ........+...+...+.|+.++++++........           +...++|+.|+
T Consensus        24 ~~~L~~~~~l~~L~Ls~n~----i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~   99 (344)
T d2ca6a1          24 FAVLLEDDSVKEIVLSGNT----IGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVR   99 (344)
T ss_dssp             SHHHHHCSCCCEEECTTSE----ECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEE
T ss_pred             HHHHHHCCCCCEEECCCCC----CCHHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCC
T ss_conf             9999638997889784983----778999999999985899888888777543345421067879998875477756330


Q ss_pred             CCCCCCCC-----CCCCCCCCCCCCEEEECCCCCCCCCCHHH-------------CCCCCCCEEEECCCCCCC-----CC
Q ss_conf             16876632-----34221256667399705776765454351-------------056676756424963334-----18
Q 000803          583 LADTDIRS-----LPESSCSLLNLEILILRNCSSLIKLPSKI-------------RRLINLCHLDIRGAILLK-----EM  639 (1277)
Q Consensus       583 L~~~~i~~-----lp~~~~~L~~L~~L~l~~~~~~~~lp~~i-------------~~L~~L~~L~l~~~~~~~-----~~  639 (1277)
                      |++|.+..     +...+...++|+.|++++|..-..-...+             .....|+.+.++++. +.     .+
T Consensus       100 L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~-i~~~~~~~l  178 (344)
T d2ca6a1         100 LSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNR-LENGSMKEW  178 (344)
T ss_dssp             CCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSC-CTGGGHHHH
T ss_pred             CCCCCCCCCCCCCHHHHHCCCCCCHHEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCC-CCCCCCCCC
T ss_conf             0001345543331011100234321000002466665431111212222110001467642111013650-135543322


Q ss_pred             CCCCCCCCCCCCCCCEEECCCCCCCCCHHCCCCCCCCCCEEEECCCCCCCCHHHHHHHCCCCCCCCCCEEEEECCCCCCC
Q ss_conf             87788888886228335278888778911000111358604642745889912236611146887780489966899999
Q 000803          640 PFGMKELKNLQTLSNFVVGKGGETASGLEDLKILKFLSGELCISGLQNVNDSKNAREAALCEKLNLEALSLEWGSQFDNS  719 (1277)
Q Consensus       640 p~~i~~L~~L~~L~~~~~~~~~~~~~~l~~l~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~  719 (1277)
                      ...+.....|++|.+..+.+..                           ..........+....+|+.|+++++     .
T Consensus       179 ~~~l~~~~~L~~L~L~~n~i~~---------------------------~g~~~~l~~~l~~~~~L~~L~Ls~N-----~  226 (344)
T d2ca6a1         179 AKTFQSHRLLHTVKMVQNGIRP---------------------------EGIEHLLLEGLAYCQELKVLDLQDN-----T  226 (344)
T ss_dssp             HHHHHHCTTCCEEECCSSCCCH---------------------------HHHHHHHHTTGGGCTTCCEEECCSS-----C
T ss_pred             CCHHHHHHHHCCCCCCCCCCCC---------------------------CCCCCCHHHHHCCHHHHCCCCCCCC-----C
T ss_conf             1111233321335433322222---------------------------2232002433211012112223333-----2


Q ss_pred             CCHHHHHHHHHCCCCCCCCCEEEEEEECCCC-----CCCCCCCCCCCCCCEEEECCCCC
Q ss_conf             2247899761047895476489995408999-----99554888899800998808899
Q 000803          720 RDEVAEEQVLGVLQPYKFVKELTIKRYGGAR-----FPLWIGDPLFSKMNVLELDDCWN  773 (1277)
Q Consensus       720 ~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~-----~p~~~~~~~~~~L~~L~l~~~~~  773 (1277)
                      ............+...++|+.|.+.++....     +-..+.....+.|+.|++++|..
T Consensus       227 i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i  285 (344)
T d2ca6a1         227 FTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEI  285 (344)
T ss_dssp             CHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCC
T ss_pred             CCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCHHHHHHHHHHHHCCCCCCCEEECCCCCC
T ss_conf             22222223444332322111103004756715667888776315688889898989869

>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=98.08  E-value=4.9e-05  Score=42.74  Aligned_cols=135  Identities=8%  Similarity=-0.021  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEEC-CCCCHHHHHHHHHHHHCC
Q ss_conf             6999999971143258998089999926999099999999625244345885338999937-876889999999998207
Q 000803          150 DKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVS-DDFDVLSISKALLESITS  228 (1277)
Q Consensus       150 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~il~~l~~  228 (1277)
                      +++.+.+++..      +....+.++|+.|+|||++|..+.+........|.| +.++... ....+.++ +++.+.+..
T Consensus         2 ~~~~l~~~i~~------~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~I-R~i~~~~~~   73 (198)
T d2gnoa2           2 QLETLKRIIEK------SEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLNY   73 (198)
T ss_dssp             HHHHHHHHHHT------CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHTS
T ss_pred             HHHHHHHHHHC------CCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCC-EEEEECCCCCCCHHHH-HHHHHHHHH
T ss_conf             78999999966------998559988989988899999999998434567998-8998077678998999-999999961


Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEEECCCC-CCCCCC-CCCCEEECCC
Q ss_conf             89998868999999998305963999963755306786876211344499995899980554-332445-8886052689
Q 000803          229 ATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNS-HVASTM-GPIDHYNLEH  306 (1277)
Q Consensus       229 ~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l~~~~~~~~iivTtr~~-~~~~~~-~~~~~~~l~~  306 (1277)
                      ..                ..+++-++|+|+++.+....+..++..+-....++.++++|.+. .+.... .....+.+.+
T Consensus        74 ~~----------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~  137 (198)
T d2gnoa2          74 SP----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNV  137 (198)
T ss_dssp             CC----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             CC----------------CCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEECCCCHHHCHHHHHCCEEEEECCC
T ss_conf             75----------------45898799994731036666647888773789885222206995668788735227776799


Q ss_pred             CC
Q ss_conf             99
Q 000803          307 LL  308 (1277)
Q Consensus       307 l~  308 (1277)
                      ..
T Consensus       138 p~  139 (198)
T d2gnoa2         138 PK  139 (198)
T ss_dssp             CH
T ss_pred             CH
T ss_conf             36

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.82  E-value=2e-06  Score=51.08  Aligned_cols=65  Identities=25%  Similarity=0.211  Sum_probs=33.3

Q ss_pred             HHHHCCCCCEEEEEECCCCCCCCCC---CCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCEEEECCC
Q ss_conf             6310289980159951897778789---677998866554316876632342-2125666739970577
Q 000803          545 LYDLLPKFKKLRLLSLQGYYIGELP---IPFEDLRLLRYLNLADTDIRSLPE-SSCSLLNLEILILRNC  609 (1277)
Q Consensus       545 ~~~~~~~l~~Lr~L~L~~~~l~~lp---~~~~~l~~Lr~L~L~~~~i~~lp~-~~~~L~~L~~L~l~~~  609 (1277)
                      +...+..++.|++|++++|.++.++   ..+..+++|++|++++|.|+.++. ......+|+.|++.+|
T Consensus        57 l~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~N  125 (162)
T d1koha1          57 LRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGN  125 (162)
T ss_dssp             HHHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTS
T ss_pred             HHHHHHHCCCCCEEECCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCEEECCCC
T ss_conf             078897487878863777666677315889865885610004357213423442220331042664899

>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=97.71  E-value=7.4e-05  Score=41.66  Aligned_cols=134  Identities=16%  Similarity=0.167  Sum_probs=71.0

Q ss_pred             CCCCCCHHHHHHHHHHHHCCC---CCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHH
Q ss_conf             721350456999999971143---25899808999992699909999999962524434588533899993787688999
Q 000803          142 PVVFGREEDKTKILEMVLTDT---AADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~  218 (1277)
                      ..++|.++.++.+...+....   ...+....++..+|+.|+|||.||+.++.-.       +...+-++++.-.+... 
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l-------~~~~i~~d~s~~~~~~~-   93 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-------GIELLRFDMSEYMERHT-   93 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH-------TCEEEEEEGGGCSSSSC-
T ss_pred             CEECCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHC-------CCCEEEECCCCCCCHHH-
T ss_conf             8064859999999999999972678888876589997787500699999998633-------67706741544455446-


Q ss_pred             HHHHHHHHCCCCCCCCCHHH-HHHHHHHH-HCCCEEEEEECCCCCCCHHHHHHHHCCCCC-----------CCCCCEEEE
Q ss_conf             99999982078999886899-99999983-059639999637553067868762113444-----------999958999
Q 000803          219 SKALLESITSATCDLKTVDE-VQVQLKKA-VDGKRFLLVLDDVWNEDYSLWVDLKAPFLA-----------AAPNSKMII  285 (1277)
Q Consensus       219 ~~~il~~l~~~~~~~~~~~~-~~~~l~~~-l~~kr~LlvlDdv~~~~~~~~~~l~~~l~~-----------~~~~~~iiv  285 (1277)
                          ...+-+..  ...... ....+... .+....+++||+++......|..++..+-.           ...++-+|.
T Consensus        94 ----~~~l~g~~--~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~  167 (315)
T d1r6bx3          94 ----VSRLIGAP--PGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVM  167 (315)
T ss_dssp             ----CSSSCCCC--SCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEE
T ss_pred             ----HHHHCCCC--CCCCCCCCCCHHHHHHHHCCCCHHHHCCCCCCCCHHHHHHHHHHCCCEECCCCCCCCCCCCEEEEE
T ss_conf             ----66521467--875011468703377773854302212223016337665677621460258899726863258884


Q ss_pred             ECCC
Q ss_conf             8055
Q 000803          286 TTRN  289 (1277)
Q Consensus       286 Ttr~  289 (1277)
                      ||..
T Consensus       168 Tsni  171 (315)
T d1r6bx3         168 TTNA  171 (315)
T ss_dssp             EECS
T ss_pred             CCCH
T ss_conf             1440

>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=97.57  E-value=0.00016  Score=39.75  Aligned_cols=122  Identities=12%  Similarity=0.186  Sum_probs=63.9

Q ss_pred             CCCCCCHHHHHHHHHHHHCCCC---CCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHH
Q ss_conf             7213504569999999711432---5899808999992699909999999962524434588533899993787688999
Q 000803          142 PVVFGREEDKTKILEMVLTDTA---ADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSI  218 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~  218 (1277)
                      ..++|.++.++.+...+.....   .+.....++..+|+.|+|||.+|+.++...--    .-...+-++.+.-.+...+
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~----~~~~~~~~~~~~~~~~~~~   98 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD----TEEAMIRIDMTEYMEKHAV   98 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHS----SGGGEEEECTTTCCSSGGG
T ss_pred             CEEECHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHCC----CCCCEEEEECCCCCCCHHH
T ss_conf             827087999999999999986578998887669999788862489999999998358----8753488731554542156


Q ss_pred             HHHHHHHHCCCC--CCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCC
Q ss_conf             999999820789--99886899999999830596399996375530678687621134
Q 000803          219 SKALLESITSAT--CDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPF  274 (1277)
Q Consensus       219 ~~~il~~l~~~~--~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l  274 (1277)
                       ..+   ++...  ........+...++   +....+++||+++......+..+...+
T Consensus        99 -~~L---~g~~~gyvG~~~~~~l~~~~~---~~p~~Vvl~DEieK~~~~v~~~ll~~l  149 (315)
T d1qvra3          99 -SRL---IGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDEIEKAHPDVFNILLQIL  149 (315)
T ss_dssp             -GGC-----------------CHHHHHH---HCSSEEEEESSGGGSCHHHHHHHHHHH
T ss_pred             -HHH---CCCCCCCCCCCCCCHHHHHHH---HCCCCEEEEEHHHHCCHHHHHHHHHHH
T ss_conf             -651---489998767466784899998---499837997147540789998999986

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.50  E-value=1.5e-06  Score=51.80  Aligned_cols=60  Identities=23%  Similarity=0.189  Sum_probs=24.7

Q ss_pred             CCCCCCEEECCCCCCCCC---CCCCCCCCCCCEEEECCCCCCCCCCH-HHCCCCCCCEEEECCCC
Q ss_conf             988665543168766323---42212566673997057767654543-51056676756424963
Q 000803          574 DLRLLRYLNLADTDIRSL---PESSCSLLNLEILILRNCSSLIKLPS-KIRRLINLCHLDIRGAI  634 (1277)
Q Consensus       574 ~l~~Lr~L~L~~~~i~~l---p~~~~~L~~L~~L~l~~~~~~~~lp~-~i~~L~~L~~L~l~~~~  634 (1277)
                      .+.+|++|+|++|.|+.+   +..+..+++|+.|++++| .+..++. ......+|+.|++.+|.
T Consensus        63 ~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N-~i~~l~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          63 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTS-CCCCGGGHHHHTTCCCSSCCCTTST
T ss_pred             HCCCCCEEECCCCCCCCCCHHHHHHHHCCCCCCCCCCCC-CCCCCHHHHHHHCCCCCEEECCCCC
T ss_conf             487878863777666677315889865885610004357-2134234422203310426648997

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.17  E-value=0.0015  Score=33.81  Aligned_cols=85  Identities=21%  Similarity=0.177  Sum_probs=54.1

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCC-----CCCCHHHHHH
Q ss_conf             98089999926999099999999625244345885338999937876889999999998207899-----9886899999
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATC-----DLKTVDEVQV  241 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~  241 (1277)
                      +..+++-|+|+.|.|||++|.+++.......    ..++|++.-..++...     +++++....     .....++..+
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g----~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~  128 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVANAQAAG----GVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALE  128 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHHHHHTT----CEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHH
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHHHCCC----CEEEEEECCCCCCHHH-----HHHHCCCHHHEEEECCCCHHHHHH
T ss_conf             6633699964887488999999999875489----8899998976679999-----998099889958966998999999


Q ss_pred             HHHHHHC-CCEEEEEECCCC
Q ss_conf             9998305-963999963755
Q 000803          242 QLKKAVD-GKRFLLVLDDVW  260 (1277)
Q Consensus       242 ~l~~~l~-~kr~LlvlDdv~  260 (1277)
                      .+....+ ++.-|+|+|.+-
T Consensus       129 ~~~~l~~~~~~~liIiDSi~  148 (269)
T d1mo6a1         129 IADMLIRSGALDIVVIDSVA  148 (269)
T ss_dssp             HHHHHHHTTCEEEEEEECST
T ss_pred             HHHHHHHCCCCCEEEEECCC
T ss_conf             99999855998789993302

>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=97.05  E-value=0.0021  Score=33.05  Aligned_cols=81  Identities=12%  Similarity=0.042  Sum_probs=43.8

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHCC--CCCCCCCHHHHHHHHH
Q ss_conf             98089999926999099999999625244345885338999937876889999999998207--8999886899999999
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITS--ATCDLKTVDEVQVQLK  244 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~--~~~~~~~~~~~~~~l~  244 (1277)
                      ..+-+|+|.|..|+||||+|+.+........  .-..+.-++...-+-..+...+  +.+..  ...+.-+.+.+...+.
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~--~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~  153 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRWP--EHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVS  153 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTST--TCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCCCHHHHHHHHHHHHHC--CCCCEEEEEEEEEECCCHHHHH--HCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             9988999968999987689999999973046--8996599952156898458888--36876688167631999999999


Q ss_pred             HHHCCCE
Q ss_conf             8305963
Q 000803          245 KAVDGKR  251 (1277)
Q Consensus       245 ~~l~~kr  251 (1277)
                      ....+++
T Consensus       154 ~lk~g~~  160 (308)
T d1sq5a_         154 DLKSGVP  160 (308)
T ss_dssp             HHTTTCS
T ss_pred             HHHCCCC
T ss_conf             9975998

>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=97.02  E-value=0.0028  Score=32.25  Aligned_cols=101  Identities=19%  Similarity=0.283  Sum_probs=58.5

Q ss_pred             HHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCC-CHHHHHHHHHHHHCCC--
Q ss_conf             9999971143258998089999926999099999999625244345885338999937876-8899999999982078--
Q 000803          153 KILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDF-DVLSISKALLESITSA--  229 (1277)
Q Consensus       153 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~il~~l~~~--  229 (1277)
                      ++++.+..-     +..+-++|.|..|+|||+|+.++.++....   +-+.++++-+.+.. .+.++.+++.+.-...  
T Consensus        57 raID~l~pi-----gkGQr~~If~~~g~GKt~l~~~i~~~~~~~---~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~  128 (276)
T d2jdid3          57 KVVDLLAPY-----AKGGKIGLFGGAGVGKTVLIMELINNVAKA---HGGYSVFAGVGERTREGNDLYHEMIESGVINLK  128 (276)
T ss_dssp             HHHHHHSCE-----ETTCEEEEEECTTSSHHHHHHHHHHHHTTT---CSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSS
T ss_pred             EEEEEECCC-----CCCCEEEEECCCCCCHHHHHHHHHHHHHHH---CCCEEEEEEECCCHHHHHHHHHHHHHCCCCCCC
T ss_conf             203102563-----678877766799989899999999988761---799699999555759999999998861765456


Q ss_pred             -----------CCCCCCHHH-----HHHHHHHHH---CCCEEEEEECCCCC
Q ss_conf             -----------999886899-----999999830---59639999637553
Q 000803          230 -----------TCDLKTVDE-----VQVQLKKAV---DGKRFLLVLDDVWN  261 (1277)
Q Consensus       230 -----------~~~~~~~~~-----~~~~l~~~l---~~kr~LlvlDdv~~  261 (1277)
                                 ..+......     ....+-+++   +++.+|+++||+-.
T Consensus       129 ~~~~~tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr  179 (276)
T d2jdid3         129 DATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  179 (276)
T ss_dssp             SSCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             CCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHH
T ss_conf             664238999978999999999999999999999886379848999706068

>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=97.01  E-value=0.0018  Score=33.43  Aligned_cols=98  Identities=17%  Similarity=0.197  Sum_probs=51.4

Q ss_pred             HHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEE-EECCCCCHHHHHHHHHHHHCC---
Q ss_conf             9999971143258998089999926999099999999625244345885338999-937876889999999998207---
Q 000803          153 KILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWV-CVSDDFDVLSISKALLESITS---  228 (1277)
Q Consensus       153 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv-~~~~~~~~~~~~~~il~~l~~---  228 (1277)
                      ++++.+..-     +..+-++|.|..|+|||+|+.++.+.....   +-++++.+ .+.+.....   .++.+....   
T Consensus        32 r~ID~l~Pi-----grGQr~~I~g~~g~GKT~l~~~i~~~~~~~---~~~~v~~~~~iger~~ev---~~~~~~~~~~vv  100 (289)
T d1xpua3          32 RVLDLASPI-----GRGQRGLIVAPPKAGKTMLLQNIAQSIAYN---HPDCVLMVLLIDERPEEV---TEMQRLVKGEVV  100 (289)
T ss_dssp             HHHHHHSCC-----BTTCEEEEEECSSSSHHHHHHHHHHHHHHH---CTTSEEEEEEEEECHHHH---HHHHHHCSSEEE
T ss_pred             EEEEECCCC-----CCCCEEEEECCCCCCHHHHHHHHHHHHHHC---CCCEEEEEEEECEEHHHH---HHHHHHCCEEEE
T ss_conf             356412564-----578755686799988789999999977515---897699987611008788---767754050799


Q ss_pred             -CCCCCCCHH-----HHHHHHHHHH--CCCEEEEEECCCCC
Q ss_conf             -899988689-----9999999830--59639999637553
Q 000803          229 -ATCDLKTVD-----EVQVQLKKAV--DGKRFLLVLDDVWN  261 (1277)
Q Consensus       229 -~~~~~~~~~-----~~~~~l~~~l--~~kr~LlvlDdv~~  261 (1277)
                       ...+.....     .....+.+++  +++.+|+++||+-.
T Consensus       101 ~~t~d~~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr  141 (289)
T d1xpua3         101 ASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  141 (289)
T ss_dssp             EEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHH
T ss_pred             ECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCHHH
T ss_conf             60588835678999999999999999826575155176899

>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=97.00  E-value=0.00064  Score=36.08  Aligned_cols=64  Identities=20%  Similarity=0.074  Sum_probs=39.3

Q ss_pred             HHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHH
Q ss_conf             9999997114325899808999992699909999999962524434588533899993787688999999
Q 000803          152 TKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKA  221 (1277)
Q Consensus       152 ~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  221 (1277)
                      .++.+.+....    ++..+|+|+|.+|+|||||...+......+.  +--.++-++.+.+++--.++.+
T Consensus        41 ~~ll~~~~~~~----~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g--~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          41 TQLLDAIMPYC----GNTLRLGVTGTPGAGKSTFLEAFGMLLIREG--LKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             HHHHHHHGGGC----SCSEEEEEEECTTSCHHHHHHHHHHHHHHTT--CCEEEEEECCC-----------
T ss_pred             HHHHHHHHHCC----CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CCEEEECCCCCEEEECCCCCCC
T ss_conf             99999865316----9832897438999989999999999997569--8332203777610006515541

>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=96.99  E-value=0.00076  Score=35.64  Aligned_cols=58  Identities=19%  Similarity=0.147  Sum_probs=36.1

Q ss_pred             HHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCC
Q ss_conf             9999999711432589980899999269990999999996252443458853389999378768
Q 000803          151 KTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       151 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~  214 (1277)
                      ...+.+.+....    ++..+|+|.|++|+|||||..++........  +--.++-++.+.+++
T Consensus        37 ~~~~~~~~~~~~----~~~~~igitG~pGaGKSTli~~l~~~~~~~g--~~vaViavDpss~~~   94 (323)
T d2qm8a1          37 VRDLIDAVLPQT----GRAIRVGITGVPGVGKSTTIDALGSLLTAAG--HKVAVLAVDPSSTRT   94 (323)
T ss_dssp             HHHHHHHHGGGC----CCSEEEEEECCTTSCHHHHHHHHHHHHHHTT--CCEEEEEECGGGGSS
T ss_pred             HHHHHHHHHHCC----CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CCEEEEECCCCCHHH
T ss_conf             999999863306----9815986117998889999999999876368--751344346554787

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.98  E-value=0.00061  Score=36.21  Aligned_cols=43  Identities=26%  Similarity=0.243  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCC
Q ss_conf             6999999971143258998089999926999099999999625244
Q 000803          150 DKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAV  195 (1277)
Q Consensus       150 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  195 (1277)
                      -++.+.........   .+.-+|+|.|..|.||||||+.+......
T Consensus         6 ~~~~~~~~~~~~~~---~~~~iIgI~G~~GSGKSTla~~L~~~l~~   48 (198)
T d1rz3a_           6 RIDFLCKTILAIKT---AGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (198)
T ss_dssp             HHHHHHHHHHTSCC---SSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCC---CCCEEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             99999999985267---99889997898878999999999998363

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.93  E-value=0.00064  Score=36.08  Aligned_cols=45  Identities=22%  Similarity=0.324  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             4569999999711432589980899999269990999999996252
Q 000803          148 EEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       148 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      .+.+...+..+....... ..++.+.++|++|+|||++|+.++...
T Consensus        12 ~~~~~~~~~~~~~~~~~~-~~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          12 ENRLNDNLEELIQGKKAV-ESPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             HHHHHHHHHHHHTTCCCC-SSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHCCCCC-CCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             999999999998415278-999799988979988999999999986

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=96.92  E-value=0.0018  Score=33.38  Aligned_cols=84  Identities=19%  Similarity=0.179  Sum_probs=50.3

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCC-----CCCCHHHHHH
Q ss_conf             98089999926999099999999625244345885338999937876889999999998207899-----9886899999
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATC-----DLKTVDEVQV  241 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~  241 (1277)
                      +..+++-|+|+.|.|||++|.+++.......    ..++|++.-..++..     ++++++....     ...+.++..+
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aqk~g----~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~  125 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQKAG----GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALE  125 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTT----CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC----CEEEEEECCCCCCHH-----HHHHHCCCCHHEEEECCCCHHHHHH
T ss_conf             6754789805876522799999999997079----989999887658999-----9998289812379974899999999


Q ss_pred             HHHHHHC-CCEEEEEECCC
Q ss_conf             9998305-96399996375
Q 000803          242 QLKKAVD-GKRFLLVLDDV  259 (1277)
Q Consensus       242 ~l~~~l~-~kr~LlvlDdv  259 (1277)
                      .+....+ +..-|+|+|-+
T Consensus       126 ~~~~l~~~~~~~liIiDSi  144 (268)
T d1xp8a1         126 IMELLVRSGAIDVVVVDSV  144 (268)
T ss_dssp             HHHHHHTTTCCSEEEEECT
T ss_pred             HHHHHHHCCCCCEEEEECC
T ss_conf             9999986589719999454

>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=96.90  E-value=0.0034  Score=31.76  Aligned_cols=46  Identities=24%  Similarity=0.269  Sum_probs=34.5

Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             21350456999999971143258998089999926999099999999625
Q 000803          143 VVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       143 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      .|||....++++.+.+......   + .-|.|.|..|.|||++|+.+...
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~---~-~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCA---E-CPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTC---C-SCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEECCHHHHHHHHHHHHHHCC---C-CCEEEECCCCCCHHHHHHHHHHH
T ss_conf             9586299999999999999688---9-97899899981799999999996

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.89  E-value=0.00052  Score=36.63  Aligned_cols=39  Identities=15%  Similarity=0.051  Sum_probs=28.1

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEE
Q ss_conf             980899999269990999999996252443458853389999
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVC  208 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~  208 (1277)
                      .+..+|.++|+.|+||||+|+.++.....+   .++...+..
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~~~---~~~~~~~~~   42 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLNQQ---GGRSVSLLL   42 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHH---CSSCEEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC---CCCCHHHHH
T ss_conf             997699988999999999999999998650---798403211

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.83  E-value=0.0021  Score=32.99  Aligned_cols=53  Identities=21%  Similarity=0.233  Sum_probs=38.8

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf             98089999926999099999999625244345885338999937876889999999998207
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITS  228 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~  228 (1277)
                      +..+++-|+|+.|+|||++|.+++.......    ..++|++.-..++..     .++.++.
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~q~~g----~~~vyidtE~~~~~~-----~a~~~Gv  104 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAAQREG----KTCAFIDAEHALDPI-----YARKLGV  104 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHHHTT----CCEEEEESSCCCCHH-----HHHHTTC
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHHHCCC----CEEEEECCCCCCCHH-----HHHHHCC
T ss_conf             6735899805777478999999999987089----879998654454899-----9998399

>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=96.83  E-value=0.00098  Score=34.99  Aligned_cols=89  Identities=17%  Similarity=0.130  Sum_probs=50.5

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCH--HHHHHHHHHHHCCCCC---CCCCHHHHHH
Q ss_conf             9808999992699909999999962524434588533899993787688--9999999998207899---9886899999
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV--LSISKALLESITSATC---DLKTVDEVQV  241 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~il~~l~~~~~---~~~~~~~~~~  241 (1277)
                      ..+.|+.++|+.|+||||-+..++.....+   .  ..+.+-..+.+..  .+.++...+.++....   ...+......
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~---g--~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~   81 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQ---G--KSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIF   81 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTT---T--CCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC---C--CCEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHH
T ss_conf             999799998999999899999999999977---9--94799823213666120455543433886211356877999999


Q ss_pred             HHHHHHC-CCEEEEEECCCC
Q ss_conf             9998305-963999963755
Q 000803          242 QLKKAVD-GKRFLLVLDDVW  260 (1277)
Q Consensus       242 ~l~~~l~-~kr~LlvlDdv~  260 (1277)
                      ...+..+ +..=++++|-.-
T Consensus        82 ~~~~~a~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          82 DAIQAAKARNIDVLIADTAG  101 (211)
T ss_dssp             HHHHHHHHTTCSEEEECCCC
T ss_pred             HHHHHHHHCCCCEEEECCCC
T ss_conf             99999987699889965688

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.83  E-value=0.00025  Score=38.55  Aligned_cols=52  Identities=19%  Similarity=0.274  Sum_probs=33.2

Q ss_pred             CCCCCCHHHHHHHHHHHHC----C----CCCCCCCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             7213504569999999711----4----32589980899999269990999999996252
Q 000803          142 PVVFGREEDKTKILEMVLT----D----TAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~----~----~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ..++|.++.++.+...+..    .    ........+-+.++|++|+|||.||+.+++..
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHCC
T ss_conf             813491999999999999898772457877667898669998999988889999986213

>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=96.78  E-value=0.0016  Score=33.80  Aligned_cols=89  Identities=21%  Similarity=0.153  Sum_probs=46.9

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECC-CCCHHHHHHHHHHHHCCCCC---CCCCHHHHH-H
Q ss_conf             980899999269990999999996252443458853389999378-76889999999998207899---988689999-9
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-DFDVLSISKALLESITSATC---DLKTVDEVQ-V  241 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~---~~~~~~~~~-~  241 (1277)
                      ..+.|+.++|+.|+||||.+..++...+.+   .. .+..++... .....+.++...+.++....   ...+..... +
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~---g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~   85 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKK---GF-KVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKR   85 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHT---TC-CEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC---CC-CEEEEEEECCCCCHHHHHHHHCCCCCCCEEECCCCHHHHHHHHH
T ss_conf             999899998999999899999999999977---99-36999720235515678987401468422302441024478999


Q ss_pred             HHHHHHCCCEEEEEECCC
Q ss_conf             999830596399996375
Q 000803          242 QLKKAVDGKRFLLVLDDV  259 (1277)
Q Consensus       242 ~l~~~l~~kr~LlvlDdv  259 (1277)
                      .+........=++++|-.
T Consensus        86 a~~~~~~~~~d~IlIDTa  103 (211)
T d1j8yf2          86 GVEKFLSEKMEIIIVDTA  103 (211)
T ss_dssp             HHHHHHHTTCSEEEEECC
T ss_pred             HHHHHHCCCCCEEEEECC
T ss_conf             998740267736998537

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=96.76  E-value=0.00045  Score=37.02  Aligned_cols=25  Identities=20%  Similarity=0.236  Sum_probs=22.3

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8089999926999099999999625
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      -.+.|+|.|+.|+||||||+.++..
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             6328999899999899999999998

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.75  E-value=0.00067  Score=35.97  Aligned_cols=23  Identities=26%  Similarity=0.476  Sum_probs=20.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ++|.|.|++|+||||+|+.+...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             08999899999989999999998

>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=96.75  E-value=0.0014  Score=34.16  Aligned_cols=39  Identities=26%  Similarity=0.462  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             699999997114325899808999992699909999999962524
Q 000803          150 DKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       150 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      ++..+.+.+..      +..+++.+.|-||+||||+|..++....
T Consensus         7 ~~~~~~~~~~~------~~~~iii~sGKGGVGKTT~a~nLA~~lA   45 (279)
T d1ihua2           7 SLSALVDDIAR------NEHGLIMLMGKGGVGKTTMAAAIAVRLA   45 (279)
T ss_dssp             CHHHHHHHHHT------TSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHC------CCCEEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             58899988503------7978999979998878999999999999

>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=96.68  E-value=0.0093  Score=29.16  Aligned_cols=25  Identities=40%  Similarity=0.421  Sum_probs=21.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             0899999269990999999996252
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ...++|+|..|.|||||++.+..-.
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999999998999999997357

>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=96.67  E-value=0.0024  Score=32.67  Aligned_cols=60  Identities=13%  Similarity=0.046  Sum_probs=39.9

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECC-CCCHHHHHHHHHHHHCCCC
Q ss_conf             980899999269990999999996252443458853389999378-7688999999999820789
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-DFDVLSISKALLESITSAT  230 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~  230 (1277)
                      ++.+++.++|+.|+||||.+..++.....+   . ..+..++... .....+.++...+.++...
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~---g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   64 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNL---G-KKVMFCAGDTFRAAGGTQLSEWGKRLSIPV   64 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTT---T-CCEEEECCCCSSTTHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC---C-CCEEEEEECCCCCCCHHHHHHCCCCCCCEE
T ss_conf             997799998999998899999999999977---9-907999813666540266764054568238

>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=96.66  E-value=0.0068  Score=29.97  Aligned_cols=90  Identities=17%  Similarity=0.128  Sum_probs=49.4

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECC-CCCHHHHHHHHHHHHCCCCC---CCCCHHHHHHH
Q ss_conf             980899999269990999999996252443458853389999378-76889999999998207899---98868999999
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-DFDVLSISKALLESITSATC---DLKTVDEVQVQ  242 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~---~~~~~~~~~~~  242 (1277)
                      ..+.|+.++|+.|+||||-+..++.....+   . ..+..+++.. .....+.++...+.++....   ...+.......
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~---~-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~   84 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDE---G-KSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFD   84 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHT---T-CCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC---C-CCEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHH
T ss_conf             999899998999998899999999999977---9-906999601334204678887764327641036777768998788


Q ss_pred             HH-HHHCCCEEEEEECCCC
Q ss_conf             99-8305963999963755
Q 000803          243 LK-KAVDGKRFLLVLDDVW  260 (1277)
Q Consensus       243 l~-~~l~~kr~LlvlDdv~  260 (1277)
                      .. ....+..=++++|-.-
T Consensus        85 ~~~~~~~~~~d~ilIDTaG  103 (213)
T d1vmaa2          85 AVAHALARNKDVVIIDTAG  103 (213)
T ss_dssp             HHHHHHHTTCSEEEEEECC
T ss_pred             HHHHHHHCCCCEEEEECCC
T ss_conf             7899987699989982455

>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=96.61  E-value=0.0073  Score=29.79  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=21.3

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8089999926999099999999625
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ...+++|+|+.|.|||||++.+..-
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHCC
T ss_conf             9999999999998599999998621

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.56  E-value=0.00048  Score=36.83  Aligned_cols=26  Identities=27%  Similarity=0.313  Sum_probs=22.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCC
Q ss_conf             89999926999099999999625244
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAV  195 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~  195 (1277)
                      +.|.|+|++|+|||||+++++.....
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~   27 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKS   27 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             69999889997199999999999997

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.54  E-value=0.0021  Score=32.97  Aligned_cols=42  Identities=17%  Similarity=0.214  Sum_probs=31.7

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCC
Q ss_conf             9808999992699909999999962524434588533899993787
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD  212 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~  212 (1277)
                      +...++.|+|.+|+|||++|.+++.+...    ....++|++....
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~~~~----~~~~~~~is~e~~   65 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVENACA----NKERAILFAYEES   65 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHHHHT----TTCCEEEEESSSC
T ss_pred             CCCEEEEEEECCCCCHHHHHHHHHHHHHH----HCCCCCEEECCCC
T ss_conf             69849999918999999999999999987----2324411212679

>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=96.50  E-value=0.0023  Score=32.82  Aligned_cols=38  Identities=24%  Similarity=0.261  Sum_probs=27.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECC
Q ss_conf             899999269990999999996252443458853389999378
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD  211 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~  211 (1277)
                      +.|+|+|-||+||||+|.+++.....+   .+ .+.-++...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~---G~-rVllID~D~   39 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAM---GK-TIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT---TC-CEEEEEECT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHC---CC-CEEEEECCC
T ss_conf             799998998577999999999999968---99-589996379

>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=96.50  E-value=0.0028  Score=32.27  Aligned_cols=90  Identities=16%  Similarity=0.151  Sum_probs=47.7

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECC-CCCHHHHHHHHHHHHCCCCC---CCCCHHHHHHH
Q ss_conf             980899999269990999999996252443458853389999378-76889999999998207899---98868999999
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSD-DFDVLSISKALLESITSATC---DLKTVDEVQVQ  242 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~---~~~~~~~~~~~  242 (1277)
                      .+.+|+.++|+.|+||||.+..++.....+   .. .+..+++.. .....+.++...+.++....   ...+.......
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~~~---g~-kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~   83 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYKGK---GR-RPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRR   83 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHHHT---TC-CEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHHC---CC-CEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHH
T ss_conf             998689998999998899999999999977---99-27999544346408888999998628863111244203678888


Q ss_pred             HHH--HHCCCEEEEEECCCCC
Q ss_conf             998--3059639999637553
Q 000803          243 LKK--AVDGKRFLLVLDDVWN  261 (1277)
Q Consensus       243 l~~--~l~~kr~LlvlDdv~~  261 (1277)
                      ...  ...+.. ++++|-...
T Consensus        84 ~~~~~~~~~~d-~vlIDTaGr  103 (207)
T d1ls1a2          84 VEEKARLEARD-LILVDTAGR  103 (207)
T ss_dssp             HHHHHHHHTCC-EEEEECCCC
T ss_pred             HHHHHHHCCCC-CEEECCCCC
T ss_conf             98887633676-403345442

>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=96.49  E-value=0.0077  Score=29.65  Aligned_cols=36  Identities=17%  Similarity=0.211  Sum_probs=25.4

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEE
Q ss_conf             80899999269990999999996252443458853389999
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVC  208 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~  208 (1277)
                      ...+++|.|+.|.|||||.+.++.-..     .-.+.+++.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~~-----p~sG~I~~~   65 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLDK-----PTEGEVYID   65 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC-----CSEEEEEET
T ss_pred             CCCEEEEECCCCCCCCHHHHHCCCCCC-----CCCCEEEEC
T ss_conf             997999988999982165575068877-----776626999

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.49  E-value=0.0016  Score=33.78  Aligned_cols=26  Identities=23%  Similarity=0.309  Sum_probs=21.9

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98089999926999099999999625
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ..++++.+.|-||+||||+|..++..
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~   31 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIR   31 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             89859999799867499999999999

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.49  E-value=0.00056  Score=36.44  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=20.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.|.+.|+.|+||||+|+.++...
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             749998999999999999999996

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.42  E-value=0.00065  Score=36.06  Aligned_cols=28  Identities=21%  Similarity=0.400  Sum_probs=23.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCCCCC
Q ss_conf             0899999269990999999996252443
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~  196 (1277)
                      .+|+.|+|..|.|||||+.++......+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             7889999189998999999999999977

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=96.40  E-value=0.012  Score=28.61  Aligned_cols=119  Identities=14%  Similarity=0.145  Sum_probs=55.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHH---CCCCC-------CCCCH---
Q ss_conf             899999269990999999996252443458853389999378768899999999982---07899-------98868---
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESI---TSATC-------DLKTV---  236 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l---~~~~~-------~~~~~---  236 (1277)
                      ++..|.|++|.||||++..+........ ..-...+.++.........+...+....   .....       .....   
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~~l~~~~-~~~~~~I~l~ApTgkAA~~L~e~~~~~~~~~~~~~~~~~~~~~~~~t~~~l  242 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLAALIQMA-DGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEDASTLHRL  242 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTC-SSCCCCEEEEBSSHHHHHHHHHHHTHHHHHSSCCSCCCCSCSCCCBTTTSC
T ss_pred             CEEEEECCCCCCCEEHHHHHHHHHHHHH-HCCCCEEEEECCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_conf             8599976898875216999999999987-526982898437599999999888777764581044554201345578998


Q ss_pred             ---HHHHHHHHHHH-C-CCEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEEECCCCCC
Q ss_conf             ---99999999830-5-96399996375530678687621134449999589998055433
Q 000803          237 ---DEVQVQLKKAV-D-GKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSHV  292 (1277)
Q Consensus       237 ---~~~~~~l~~~l-~-~kr~LlvlDdv~~~~~~~~~~l~~~l~~~~~~~~iivTtr~~~~  292 (1277)
                         ......++..- . ..--++|+|.....+......+...++   .++++|+.-=....
T Consensus       243 l~~~~~~~~~~~~~~~~l~~d~lIIDEaSmv~~~l~~~ll~~~~---~~~~lILvGD~~QL  300 (359)
T d1w36d1         243 LGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPMMSRLIDALP---DHARVIFLGDRDQL  300 (359)
T ss_dssp             C-----------CTTSCCSCSEEEECSGGGCBHHHHHHHHHTCC---TTCEEEEEECTTSG
T ss_pred             HHHHHCCHHHHHHHHCCCCCCEEEEHHHHCCCHHHHHHHHHHHC---CCCEEEEECCHHHC
T ss_conf             76310006777754366654134653321448999999998725---99989997772216

>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=96.38  E-value=0.0088  Score=29.31  Aligned_cols=26  Identities=15%  Similarity=0.178  Sum_probs=22.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             08999992699909999999962524
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      +-+|+|.|..|.||||+|+.+.....
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~   27 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLG   27 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             98999989997879999999999964

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.38  E-value=0.0011  Score=34.59  Aligned_cols=22  Identities=41%  Similarity=0.587  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             8999992699909999999962
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      ++|.|+|++|.||||+|+++..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             7999989999999999999999

>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=96.34  E-value=0.0071  Score=29.87  Aligned_cols=70  Identities=20%  Similarity=0.322  Sum_probs=38.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCC
Q ss_conf             89999926999099999999625244345885338999937876889999999998207899988689999999983059
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKTVDEVQVQLKKAVDG  249 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  249 (1277)
                      .++.++|++|+|||.||+.++.....+.  .|   +-+..++-..              . .. .+.+...+.+.+..+ 
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~--~~---~~~~~~~~~~--------------~-~~-G~~e~~~~~~f~~a~-  181 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKD--KY---ATVRFGEPLS--------------G-YN-TDFNVFVDDIARAML-  181 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTS--CC---EEEEBSCSST--------------T-CB-CCHHHHHHHHHHHHH-
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCCC--CE---EEEEHHHHHH--------------C-CC-CHHHHHHHHHHHHHH-
T ss_conf             6388877998508899999999863799--80---8978268544--------------2-44-457899999999986-


Q ss_pred             CEEEEEECCCCC
Q ss_conf             639999637553
Q 000803          250 KRFLLVLDDVWN  261 (1277)
Q Consensus       250 kr~LlvlDdv~~  261 (1277)
                      +..+|++|.++.
T Consensus       182 ~~~ilf~DEid~  193 (321)
T d1w44a_         182 QHRVIVIDSLKN  193 (321)
T ss_dssp             HCSEEEEECCTT
T ss_pred             HCCEEEEEHHHH
T ss_conf             265897410122

>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=96.32  E-value=0.009  Score=29.25  Aligned_cols=24  Identities=33%  Similarity=0.440  Sum_probs=20.4

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             808999992699909999999962
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      ....++|+|..|.|||||++.+..
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             998999988999809999999971

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.29  E-value=0.0016  Score=33.64  Aligned_cols=27  Identities=26%  Similarity=0.490  Sum_probs=23.4

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             980899999269990999999996252
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ...+++.|.|+.|.||||+|+.+....
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             987189998999989899999999986

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.28  E-value=0.0014  Score=34.05  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=22.9

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98089999926999099999999625
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ..+.+|.|.|++|.||||+|+.++.+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             89948999899999889999999999

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.27  E-value=0.0016  Score=33.74  Aligned_cols=27  Identities=30%  Similarity=0.411  Sum_probs=23.7

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             980899999269990999999996252
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +..++|.|.|++|.||||+|+.++.+.
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             997289998999999899999999985

>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=96.24  E-value=0.018  Score=27.53  Aligned_cols=81  Identities=15%  Similarity=0.096  Sum_probs=44.9

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCC-EEEEEEECCCCCHHHHHHHHHHHHCC-------CCCCCCCHHH
Q ss_conf             980899999269990999999996252443458853-38999937876889999999998207-------8999886899
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFD-VKAWVCVSDDFDVLSISKALLESITS-------ATCDLKTVDE  238 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~il~~l~~-------~~~~~~~~~~  238 (1277)
                      ..+-+|+|.|..|.||||||..+......+.  ... .++.++..+-+-..+-...+.+....       .....-+.+-
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~--~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~l  102 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKY--GGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKL  102 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHH--GGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHHH--CCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCEECCCCCCHHHHH
T ss_conf             9988998379987889999999999999872--77860676356777788899999852135553110047874034889


Q ss_pred             HHHHHHHHHCC
Q ss_conf             99999983059
Q 000803          239 VQVQLKKAVDG  249 (1277)
Q Consensus       239 ~~~~l~~~l~~  249 (1277)
                      +.+.+....++
T Consensus       103 l~~~l~~l~~~  113 (286)
T d1odfa_         103 LQEVLNTIFNN  113 (286)
T ss_dssp             HHHHHHHHTC-
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999740

>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=96.18  E-value=0.0018  Score=33.39  Aligned_cols=26  Identities=23%  Similarity=0.332  Sum_probs=22.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             08999992699909999999962524
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      +.+|.++|.+|.||||+|++++....
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~   27 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLN   27 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             98999989999999999999999997

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.14  E-value=0.0013  Score=34.32  Aligned_cols=27  Identities=26%  Similarity=0.453  Sum_probs=22.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCC
Q ss_conf             899999269990999999996252443
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~  196 (1277)
                      ++|+|.|+.|+||||+++.+......+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             889998999989899999999999876

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=96.14  E-value=0.0015  Score=33.92  Aligned_cols=23  Identities=39%  Similarity=0.628  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ..|.|.|++|+||||+|+.++..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             97989899999989999999999

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.14  E-value=0.0023  Score=32.76  Aligned_cols=25  Identities=28%  Similarity=0.369  Sum_probs=21.8

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8089999926999099999999625
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ..++|.|.|+.|.||||+|+.+...
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             9859999889999889999999999

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.12  E-value=0.0011  Score=34.63  Aligned_cols=28  Identities=21%  Similarity=0.279  Sum_probs=23.2

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCCC
Q ss_conf             8089999926999099999999625244
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAV  195 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  195 (1277)
                      ...+|.++|+.|.||||+|+.+......
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             9969998899999999999999999974

>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=96.11  E-value=0.003  Score=32.05  Aligned_cols=41  Identities=27%  Similarity=0.241  Sum_probs=28.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCC
Q ss_conf             899999269990999999996252443458853389999378768
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD  214 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~  214 (1277)
                      +.|+|+|-||+||||+|.+++.....++   + .+.-++.....+
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~G---~-rVLlID~DpQ~~   43 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEMG---K-KVMIVGCDPKAD   43 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTT---C-CEEEEEECSSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCC---C-CEEEEECCCCCC
T ss_conf             2899989998779999999999999789---9-789995189997

>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=96.08  E-value=0.015  Score=27.92  Aligned_cols=51  Identities=22%  Similarity=0.255  Sum_probs=34.8

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCC--CCCCCEEEEEEECCCCCHHH
Q ss_conf             9808999992699909999999962524434--58853389999378768899
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWVCVSDDFDVLS  217 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~--~~~f~~~~wv~~~~~~~~~~  217 (1277)
                      +..+++.|+|++|.|||++|.+++.+.....  .+....++|+......+...
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER   86 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHCHHHHCCCCCEEEEEECCCHHHHHH
T ss_conf             58879999858989889999999998634487638896289983101258999

>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=96.05  E-value=0.0022  Score=32.90  Aligned_cols=25  Identities=36%  Similarity=0.480  Sum_probs=22.1

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9808999992699909999999962
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      +.+.+|.++|++|.||||+|++...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             9998999989999989999999997

>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=96.02  E-value=0.0021  Score=33.02  Aligned_cols=26  Identities=31%  Similarity=0.382  Sum_probs=22.0

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98089999926999099999999625
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +..-.|.|.|++|+||||+|+.++..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCHHHHHHHHHHH
T ss_conf             99888999828999889999999998

>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=96.01  E-value=0.013  Score=28.22  Aligned_cols=26  Identities=27%  Similarity=0.314  Sum_probs=22.1

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             80899999269990999999996252
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ...+++|.|+-|.|||||.+.+..-.
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf             89799999999999999999996698

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.00  E-value=0.002  Score=33.08  Aligned_cols=25  Identities=20%  Similarity=0.198  Sum_probs=21.8

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             0899999269990999999996252
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      .++|.|.|+.|.||||+|+.++...
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
T ss_conf             8599998999999899999999972

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=95.90  E-value=0.011  Score=28.66  Aligned_cols=24  Identities=33%  Similarity=0.383  Sum_probs=20.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      -+|+|.|++|+||||+|+.++.+.
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             599978999879899999999996

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=95.82  E-value=0.0038  Score=31.52  Aligned_cols=27  Identities=22%  Similarity=0.327  Sum_probs=22.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCC
Q ss_conf             899999269990999999996252443
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~  196 (1277)
                      +++.|.|+.|+||||+++.+......+
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             199998989989899999999999876

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=95.80  E-value=0.0023  Score=32.75  Aligned_cols=22  Identities=45%  Similarity=0.662  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.+.|++|+||||+++.++...
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             9998999998899999999983

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.79  E-value=0.0028  Score=32.28  Aligned_cols=24  Identities=38%  Similarity=0.559  Sum_probs=20.6

Q ss_pred             EEEECCCCCCHHHHHHHHHCCCCC
Q ss_conf             999926999099999999625244
Q 000803          172 IPIVGMGGIGKTTLAREVYNDKAV  195 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~~~  195 (1277)
                      |+|+|+.|+|||||++.+......
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEECCCCCHHHHHHHHHHHCCCC
T ss_conf             999989993899999999814888

>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=95.78  E-value=0.012  Score=28.47  Aligned_cols=50  Identities=12%  Similarity=0.108  Sum_probs=33.7

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCC--CCCCCEEEEEEECCCCCHH
Q ss_conf             9808999992699909999999962524434--5885338999937876889
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWVCVSDDFDVL  216 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~--~~~f~~~~wv~~~~~~~~~  216 (1277)
                      +..+++-|+|.+|.|||++|.++........  ...-..++|++....+...
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   83 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPV   83 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCHHHHH
T ss_conf             6996999983899988999999999863124312689639999402307899

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.77  E-value=0.002  Score=33.10  Aligned_cols=27  Identities=33%  Similarity=0.327  Sum_probs=23.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCC
Q ss_conf             899999269990999999996252443
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~  196 (1277)
                      ++++|+|..|.|||||+.++....+.+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHHHC
T ss_conf             099998099998999999999999867

>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=95.76  E-value=0.0074  Score=29.76  Aligned_cols=27  Identities=26%  Similarity=0.074  Sum_probs=23.5

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             980899999269990999999996252
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +..+.+.++|++|+|||++|..+++..
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             976769998999988899999999985

>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=95.71  E-value=0.021  Score=27.05  Aligned_cols=88  Identities=17%  Similarity=0.189  Sum_probs=47.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCC-HHHHHHHHHHHHCC-------CCCCCCC-----H
Q ss_conf             899999269990999999996252443458853389999378768-89999999998207-------8999886-----8
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFD-VLSISKALLESITS-------ATCDLKT-----V  236 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~il~~l~~-------~~~~~~~-----~  236 (1277)
                      +-++|.|..|+|||+|+.+.......    .-..++++-+..... +.++..++.+.-..       ...+...     .
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~~~----~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a  143 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQQG----QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLA  143 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCCT----TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHH
T ss_pred             CEEEECCCCCCCHHHHHHHHHHHHCC----CCCEEEEEEECCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHH
T ss_conf             66760067788857999997765404----67535555522126778899985115775033100123467659999999


Q ss_pred             HHHHHHHHHHH--CCCEEEEEECCCCC
Q ss_conf             99999999830--59639999637553
Q 000803          237 DEVQVQLKKAV--DGKRFLLVLDDVWN  261 (1277)
Q Consensus       237 ~~~~~~l~~~l--~~kr~LlvlDdv~~  261 (1277)
                      ......+-+++  ++++.|+++||+-.
T Consensus       144 ~~~a~tiAEyfrd~G~~Vlll~Dsltr  170 (276)
T d1fx0a3         144 PYTGAALAEYFMYRERHTLIIYDDLSK  170 (276)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEECCHH
T ss_conf             999998888999759964577505389

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.69  E-value=0.0031  Score=32.05  Aligned_cols=22  Identities=32%  Similarity=0.552  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.+.|+.|+||||+++.++...
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             8998899998899999999984

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=95.68  E-value=0.0024  Score=32.64  Aligned_cols=24  Identities=38%  Similarity=0.459  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.|.++|+.|+||||+|+.++...
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHH
T ss_conf             988998899998899999999994

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=95.67  E-value=0.0027  Score=32.41  Aligned_cols=24  Identities=38%  Similarity=0.495  Sum_probs=21.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +||+|.|++|.||+|+|+.+.++.
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             889977999889899999999996

>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=95.63  E-value=0.033  Score=25.89  Aligned_cols=27  Identities=33%  Similarity=0.303  Sum_probs=22.3

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             980899999269990999999996252
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      .....++|+|+.|.|||||++.+..-.
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf             499899999999984999999986143

>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=95.57  E-value=0.0045  Score=31.05  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=21.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             089999926999099999999625
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +.+|.|.|++|.||||.|+.++..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~   24 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEK   24 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             939999799999989999999998

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.55  E-value=0.035  Score=25.72  Aligned_cols=50  Identities=14%  Similarity=0.100  Sum_probs=35.0

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCC--CCCCCCEEEEEEECCCCCHH
Q ss_conf             980899999269990999999996252443--45885338999937876889
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVE--DSGKFDVKAWVCVSDDFDVL  216 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~--~~~~f~~~~wv~~~~~~~~~  216 (1277)
                      +..+++.|+|.+|.|||++|.+++......  ....+..+.|+.....+...
T Consensus        35 p~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          35 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECHHHHHHHH
T ss_conf             6897999988998878899999999997444316666248874017777899

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.48  E-value=0.0059  Score=30.34  Aligned_cols=27  Identities=30%  Similarity=0.309  Sum_probs=23.1

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             980899999269990999999996252
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ....+|-+.|++|.||||+|+.+....
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             998699998999999899999999887

>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=95.47  E-value=0.0048  Score=30.87  Aligned_cols=26  Identities=27%  Similarity=0.162  Sum_probs=22.4

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98089999926999099999999625
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ..+-+|+|.|..|+||||+++.+...
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             98619998899998889999999987

>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=95.47  E-value=0.005  Score=30.78  Aligned_cols=26  Identities=19%  Similarity=0.222  Sum_probs=22.6

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             80899999269990999999996252
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +++.|+|-|+.|+||||+++.+..+.
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             98199998998885999999999987

>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=95.40  E-value=0.0044  Score=31.12  Aligned_cols=44  Identities=23%  Similarity=0.373  Sum_probs=31.3

Q ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             72135045699999997114325899808999992699909999999962
Q 000803          142 PVVFGREEDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       142 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      ..++|.+..+..+.-.....      +.+-+.+.|..|+|||+||+.+..
T Consensus         7 ~~I~Gq~~~kral~laa~~~------~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDP------GIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCG------GGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             HHCCCCHHHHHHHHHHHHCC------CCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             14069499999999997646------997089988998529999999987

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=95.32  E-value=0.042  Score=25.27  Aligned_cols=55  Identities=16%  Similarity=0.086  Sum_probs=35.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf             089999926999099999999625244345885338999937876889999999998207
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESITS  228 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~  228 (1277)
                      ..++.|.|.+|+|||+++.+++.+.....  .+ .+.+++.-  .+..++...++.....
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~a~~~--g~-~v~~~s~E--~~~~~~~~r~~~~~~~   89 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQWGTAM--GK-KVGLAMLE--ESVEETAEDLIGLHNR   89 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHTS--CC-CEEEEESS--SCHHHHHHHHHHHHTT
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHHHHHHC--CC-CEEEEEEC--CCHHHHHHHHHHHHHC
T ss_conf             80899994799979999999997265533--66-34576401--1113577699998645

>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=95.27  E-value=0.044  Score=25.17  Aligned_cols=102  Identities=18%  Similarity=0.169  Sum_probs=52.1

Q ss_pred             HHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCC----CCCCEEEEEEECCCCCH-HHHHHHHHHHHC
Q ss_conf             9999971143258998089999926999099999999625244345----88533899993787688-999999999820
Q 000803          153 KILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDS----GKFDVKAWVCVSDDFDV-LSISKALLESIT  227 (1277)
Q Consensus       153 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~----~~f~~~~wv~~~~~~~~-~~~~~~il~~l~  227 (1277)
                      ++++.|..-     +..+-++|.|..|+|||+++.++.........    ..-..++++-+...... .++...+.+.-.
T Consensus        57 raID~l~pi-----g~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~  131 (285)
T d2jdia3          57 KAVDSLVPI-----GRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADA  131 (285)
T ss_dssp             HHHHHHSCC-----BTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCC-----CCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEECCCHHHHHHHHHHHCCCCC
T ss_conf             577434676-----678778765688888589999999757764156544563289996307638789999998614561


Q ss_pred             C-------CCCCCCCHH---------HHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             7-------899988689---------999999983059639999637553
Q 000803          228 S-------ATCDLKTVD---------EVQVQLKKAVDGKRFLLVLDDVWN  261 (1277)
Q Consensus       228 ~-------~~~~~~~~~---------~~~~~l~~~l~~kr~LlvlDdv~~  261 (1277)
                      .       ...+.....         ...+.+++  +++.+|+++||+-.
T Consensus       132 ~~~tvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd--~G~~VLll~Dsltr  179 (285)
T d2jdia3         132 MKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRD--NGKHALIIYDDLSK  179 (285)
T ss_dssp             GGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHH--TTCEEEEEEETHHH
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHH--CCCCEEEEECCHHH
T ss_conf             2004999978999999999999999999999997--69967999717289

>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=95.24  E-value=0.014  Score=28.13  Aligned_cols=26  Identities=35%  Similarity=0.362  Sum_probs=22.0

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             80899999269990999999996252
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ...+++|.|+.|.|||||.+.+..-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99899999899980999999997586

>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=95.22  E-value=0.012  Score=28.42  Aligned_cols=27  Identities=26%  Similarity=0.406  Sum_probs=22.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCC
Q ss_conf             899999269990999999996252443
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~  196 (1277)
                      ..|+|.|+.|+||||+++.+.+....+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~   30 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAA   30 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             599998998889999999999999877

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=95.13  E-value=0.0093  Score=29.17  Aligned_cols=16  Identities=25%  Similarity=0.349  Sum_probs=6.5

Q ss_pred             CCCCCCCEEECCCCCC
Q ss_conf             9988665543168766
Q 000803          573 EDLRLLRYLNLADTDI  588 (1277)
Q Consensus       573 ~~l~~Lr~L~L~~~~i  588 (1277)
                      ....+|++|+|++|.+
T Consensus        41 ~~n~~L~~L~Ls~n~l   56 (167)
T d1pgva_          41 CNSKHIEKFSLANTAI   56 (167)
T ss_dssp             TTCSCCCEEECTTSCC
T ss_pred             HHCCCCCEEECCCCCC
T ss_conf             6377645401201562

>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=95.11  E-value=0.0084  Score=29.44  Aligned_cols=25  Identities=24%  Similarity=0.409  Sum_probs=20.5

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98089999926999099999999625
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      .+.+++ |.|++|.||||+|+.++..
T Consensus         2 ~~~rii-l~G~pGSGKsT~a~~La~~   26 (190)
T d1ak2a1           2 KGVRAV-LLGPPGAGKGTQAPKLAKN   26 (190)
T ss_dssp             CCCEEE-EECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEE-EECCCCCCHHHHHHHHHHH
T ss_conf             963899-9899999889999999998

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.08  E-value=0.048  Score=24.91  Aligned_cols=28  Identities=21%  Similarity=0.281  Sum_probs=23.4

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             9808999992699909999999962524
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      +...++.|.|.+|+|||++|.+++.+..
T Consensus        32 ~~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          32 ESQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             2885999991799998999999999998

>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=95.05  E-value=0.051  Score=24.77  Aligned_cols=27  Identities=33%  Similarity=0.315  Sum_probs=22.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCC
Q ss_conf             899999269990999999996252443
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~  196 (1277)
                      +.|+|-|+.|+||||+++.+.......
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~   29 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQL   29 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             789998998887999999999999967

>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=94.99  E-value=0.018  Score=27.49  Aligned_cols=39  Identities=26%  Similarity=0.224  Sum_probs=28.2

Q ss_pred             EEEEEE-CCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCC
Q ss_conf             899999-2699909999999962524434588533899993787
Q 000803          170 AVIPIV-GMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD  212 (1277)
Q Consensus       170 ~vi~I~-G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~  212 (1277)
                      ++|+|+ |-||+||||+|.+++.....++    ..+..++....
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g----~~VlliD~D~~   41 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLG----HDVTIVDADIT   41 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTT----CCEEEEECCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHHCC----CCEEEEECCCC
T ss_conf             79999799999809999999999999689----98999959899

>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=94.97  E-value=0.0099  Score=29.00  Aligned_cols=23  Identities=35%  Similarity=0.369  Sum_probs=19.9

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHH
Q ss_conf             80899999269990999999996
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVY  190 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~  190 (1277)
                      .+-+|+|+|..|.||||+|..+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
T ss_conf             99899998988778999999999

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.91  E-value=0.0059  Score=30.33  Aligned_cols=22  Identities=27%  Similarity=0.644  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999926999099999999625
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      .|.|+|+.|+|||||++.+...
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             1999999999999999999974

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=94.88  E-value=0.0063  Score=30.19  Aligned_cols=24  Identities=21%  Similarity=0.160  Sum_probs=20.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ..|.|.|+.|.||||+|+.++...
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             299998899999899999999987

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.87  E-value=0.0072  Score=29.82  Aligned_cols=23  Identities=26%  Similarity=0.466  Sum_probs=20.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +++.|+|+.|+|||||++.+...
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             49999899999999999999845

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=94.87  E-value=0.0076  Score=29.70  Aligned_cols=25  Identities=28%  Similarity=0.383  Sum_probs=21.9

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8089999926999099999999625
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ..++|.|.|++|.||||+|+.++..
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             7828999899999879999999998

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.86  E-value=0.057  Score=24.46  Aligned_cols=49  Identities=12%  Similarity=0.087  Sum_probs=30.4

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCCCCC--CCCCCEEEEEEECCCCCHH
Q ss_conf             808999992699909999999962524434--5885338999937876889
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVED--SGKFDVKAWVCVSDDFDVL  216 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~--~~~f~~~~wv~~~~~~~~~  216 (1277)
                      ...++.|.|++|+|||++|.+++.+.....  ...+....++.........
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPE   72 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHH
T ss_pred             CCEEEEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCEEHHHHHHHHHHHH
T ss_conf             997999995899999999999999998862446655201003556655899

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.86  E-value=0.0063  Score=30.18  Aligned_cols=24  Identities=33%  Similarity=0.571  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.|.|+|+.|+|||||++.+....
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             769998999999899999999748

>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=94.85  E-value=0.0086  Score=29.37  Aligned_cols=23  Identities=39%  Similarity=0.488  Sum_probs=20.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |++|.|+.|.|||||...+.++.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             89999189983999999999988

>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=94.79  E-value=0.0093  Score=29.17  Aligned_cols=24  Identities=17%  Similarity=0.285  Sum_probs=20.9

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             089999926999099999999625
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ..++.|+|+.|+|||||.+.+...
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             809999999999999999999863

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=94.76  E-value=0.02  Score=27.18  Aligned_cols=25  Identities=32%  Similarity=0.477  Sum_probs=21.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             8999992699909999999962524
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      .-|-++|+.|+|||.||+.++....
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l~   74 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLAN   74 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             6479989999889999999998738

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.68  E-value=0.017  Score=27.63  Aligned_cols=25  Identities=28%  Similarity=0.406  Sum_probs=20.3

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8089999926999099999999625
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ....+-..|+.|+|||.||+.++..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~   91 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKH   91 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHH
T ss_conf             8753244189986378999999864

>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=94.68  E-value=0.0074  Score=29.76  Aligned_cols=25  Identities=24%  Similarity=0.163  Sum_probs=21.8

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             0899999269990999999996252
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      .+.|+|-|+.|+||||+|+.+....
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
T ss_conf             9889998788877999999999997

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=94.55  E-value=0.011  Score=28.83  Aligned_cols=22  Identities=27%  Similarity=0.484  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.|.|++|.||||+|+.++...
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
T ss_conf             9998899999899999999987

>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=94.54  E-value=0.01  Score=28.96  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=19.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      --|.|.|++|.||||+|+.++..
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             16999889999879999999999

>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=94.52  E-value=0.015  Score=27.97  Aligned_cols=26  Identities=31%  Similarity=0.466  Sum_probs=21.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCC
Q ss_conf             99999269990999999996252443
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~~~~  196 (1277)
                      .|+|.|..|+||||+++.+......+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             89998998789999999999999878

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.44  E-value=0.028  Score=26.30  Aligned_cols=38  Identities=29%  Similarity=0.211  Sum_probs=27.6

Q ss_pred             EEEEEEE-CCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEEC
Q ss_conf             0899999-26999099999999625244345885338999937
Q 000803          169 FAVIPIV-GMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVS  210 (1277)
Q Consensus       169 ~~vi~I~-G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~  210 (1277)
                      .++|+|+ +-||+||||+|.+++.....++   . .++.++..
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la~~g---~-~VlliD~D   40 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALGDRG---R-KVLAVDGD   40 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHHHTT---C-CEEEEECC
T ss_pred             CEEEEEECCCCCCCHHHHHHHHHHHHHHCC---C-CEEEEECC
T ss_conf             829999899998819999999999999689---9-89999498

>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=94.39  E-value=0.012  Score=28.50  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      -|.|.|++|.||||+|+.++...
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             89998899999799999999998

>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=94.32  E-value=0.015  Score=27.98  Aligned_cols=27  Identities=30%  Similarity=0.348  Sum_probs=22.5

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             808999992699909999999962524
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      ....|+|-|+.|+||||+++.+.....
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             768999989988869999999999997

>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=94.29  E-value=0.012  Score=28.56  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      .|.|.|++|.||||+|+.++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             89998899998799999999987

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.18  E-value=0.015  Score=27.86  Aligned_cols=23  Identities=13%  Similarity=0.478  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +.+.|+|+.|+||+||++.+...
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
T ss_conf             71999998999999999999970

>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=94.06  E-value=0.018  Score=27.49  Aligned_cols=28  Identities=25%  Similarity=0.351  Sum_probs=22.8

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             9808999992699909999999962524
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      ....+++|+|+.|.|||||++.+..-..
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             CCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf             5999999998999829999999957974

>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=94.06  E-value=0.019  Score=27.38  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=21.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             0899999269990999999996252
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ..+++|.|+.|.|||||++.++--.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf             9899999999980999999996487

>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=94.03  E-value=0.0069  Score=29.96  Aligned_cols=27  Identities=19%  Similarity=0.321  Sum_probs=22.2

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             808999992699909999999962524
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      ...+|+|.|..|.||||+|+.+.+...
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
T ss_conf             888999989997809999999999971

>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=94.03  E-value=0.017  Score=27.57  Aligned_cols=35  Identities=29%  Similarity=0.265  Sum_probs=25.4

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEE
Q ss_conf             8089999926999099999999625244345885338999
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWV  207 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv  207 (1277)
                      ...+++|+|+.|.|||||++.+.--..     .-...+++
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
T ss_conf             997999998999829999999974766-----78997799

>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=94.01  E-value=0.021  Score=27.02  Aligned_cols=26  Identities=23%  Similarity=0.236  Sum_probs=21.8

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98089999926999099999999625
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      .....++|+|+.|.|||||++.+..-
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             59999999999999799999999996

>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=93.98  E-value=0.038  Score=25.53  Aligned_cols=29  Identities=28%  Similarity=0.331  Sum_probs=24.1

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCCCC
Q ss_conf             80899999269990999999996252443
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  196 (1277)
                      ...++.+.|.=|+||||+++.+++.....
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf             98299996687765889999987642234

>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=93.97  E-value=0.018  Score=27.39  Aligned_cols=26  Identities=31%  Similarity=0.364  Sum_probs=22.0

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             80899999269990999999996252
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ...+++|.|+.|.|||||++.++--.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHCCCC
T ss_conf             99799998999898889999875886

>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=93.85  E-value=0.021  Score=27.07  Aligned_cols=26  Identities=27%  Similarity=0.339  Sum_probs=22.0

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             80899999269990999999996252
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ...+++|.|+.|.|||||.+.+.--.
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf             99899999999982999999997589

>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=93.83  E-value=0.021  Score=27.03  Aligned_cols=26  Identities=31%  Similarity=0.378  Sum_probs=21.9

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             80899999269990999999996252
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ...+++|.|+.|.|||||.+.++--.
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf             99899999899982999999996587

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.80  E-value=0.018  Score=27.39  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      |.|.|++|.||||+|+.++..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999899999989999999999

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=93.61  E-value=0.018  Score=27.39  Aligned_cols=23  Identities=26%  Similarity=0.234  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      -|.|.|++|.||||.|+.++.+.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             89998799999899999999986

>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=93.47  E-value=0.015  Score=27.88  Aligned_cols=27  Identities=33%  Similarity=0.392  Sum_probs=22.5

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             808999992699909999999962524
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      ...+++|+|+.|+|||||.+.++.-.+
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
T ss_conf             998999999999719999999966205

>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=93.45  E-value=0.027  Score=26.36  Aligned_cols=33  Identities=12%  Similarity=0.062  Sum_probs=24.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEE
Q ss_conf             89999926999099999999625244345885338999
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWV  207 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv  207 (1277)
                      .+++|.|+.|+|||||.+.++.-...     -...+++
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
T ss_conf             79999979998099999999739998-----9628999

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=93.29  E-value=0.037  Score=25.59  Aligned_cols=27  Identities=15%  Similarity=0.201  Sum_probs=21.8

Q ss_pred             EEEEEECCC-CCCHHHHHHHHHCCCCCC
Q ss_conf             899999269-990999999996252443
Q 000803          170 AVIPIVGMG-GIGKTTLAREVYNDKAVE  196 (1277)
Q Consensus       170 ~vi~I~G~~-GiGKTtLa~~~~~~~~~~  196 (1277)
                      +-+.|.|-| |+||||++..++.....+
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~   29 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAA   29 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             5199998999942999999999999977

>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=93.25  E-value=0.029  Score=26.19  Aligned_cols=20  Identities=30%  Similarity=0.483  Sum_probs=18.0

Q ss_pred             EEEEEECCCCCCHHHHHHHH
Q ss_conf             89999926999099999999
Q 000803          170 AVIPIVGMGGIGKTTLAREV  189 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~  189 (1277)
                      -+|+|+|+.|.||||.|+.+
T Consensus         4 ~iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
T ss_conf             79997898868899999999

>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=93.24  E-value=0.041  Score=25.31  Aligned_cols=26  Identities=19%  Similarity=0.468  Sum_probs=22.2

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98089999926999099999999625
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ++...|+|+|..|+|||||...+.+.
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
T ss_conf             89989999899998799999985298

>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=93.19  E-value=0.047  Score=24.97  Aligned_cols=28  Identities=29%  Similarity=0.339  Sum_probs=23.3

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCCC
Q ss_conf             8089999926999099999999625244
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKAV  195 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  195 (1277)
                      .+-.|.|-|.-|+||||+++.+.+....
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             6589999888667899999999998656

>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=93.09  E-value=0.03  Score=26.10  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.++|.+|+|||+|+..+.++.
T Consensus         5 v~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999929899999997399

>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=93.08  E-value=0.03  Score=26.14  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.|+|.+|+|||+|+..+.++.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
T ss_conf             9999999939999999996299

>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=93.06  E-value=0.033  Score=25.90  Aligned_cols=22  Identities=27%  Similarity=0.665  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.++|.+|+|||+|...+..+.
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999989979899999997099

>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=93.00  E-value=0.025  Score=26.59  Aligned_cols=26  Identities=23%  Similarity=0.198  Sum_probs=22.1

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             80899999269990999999996252
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ...+++|.|+.|+|||||.+.+.--.
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99899999899982999999996476

>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=92.88  E-value=0.036  Score=25.67  Aligned_cols=21  Identities=33%  Similarity=0.387  Sum_probs=18.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHH
Q ss_conf             899999269990999999996
Q 000803          170 AVIPIVGMGGIGKTTLAREVY  190 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~  190 (1277)
                      -+|+|+|..|.||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
T ss_conf             899988888788999999999

>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=92.87  E-value=0.033  Score=25.86  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.|+|.+|+|||+|+..+.++.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999949899999997299

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=92.85  E-value=0.042  Score=25.24  Aligned_cols=43  Identities=16%  Similarity=0.171  Sum_probs=27.9

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCC
Q ss_conf             9808999992699909999999962524434588533899993787
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDD  212 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~  212 (1277)
                      +...++.|+|..|+|||++|.+++.......   -..+.|++....
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~---~~~~~~~s~e~~   66 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIEF---DEPGVFVTFEET   66 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHHH---CCCEEEEESSSC
T ss_pred             CCCEEEEEEECCCCCHHHHHHHHHHHHHHHC---CCCCCCCCCCCC
T ss_conf             6983999994799999999999999999856---887420126679

>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=92.80  E-value=0.038  Score=25.54  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.|+|.+|+|||||+..+.+..
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~~   29 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDNK   29 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCSC
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
T ss_conf             9999999919899999996199

>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=92.76  E-value=0.07  Score=23.95  Aligned_cols=24  Identities=29%  Similarity=0.450  Sum_probs=19.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             089999926999099999999625
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ..-|.++|.+|+|||||...+...
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             778999999998989999999678

>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=92.76  E-value=0.039  Score=25.45  Aligned_cols=61  Identities=13%  Similarity=0.048  Sum_probs=23.1

Q ss_pred             CCCCCEEEEEECCCC-CCCC-----CCCCCCCCCCCCEEECCCCCCCC-----CCCCCCCCCCCCEEEECCC
Q ss_conf             289980159951897-7787-----89677998866554316876632-----3422125666739970577
Q 000803          549 LPKFKKLRLLSLQGY-YIGE-----LPIPFEDLRLLRYLNLADTDIRS-----LPESSCSLLNLEILILRNC  609 (1277)
Q Consensus       549 ~~~l~~Lr~L~L~~~-~l~~-----lp~~~~~l~~Lr~L~L~~~~i~~-----lp~~~~~L~~L~~L~l~~~  609 (1277)
                      ....+.|+.|+++++ .++.     +-..+....+|+.|++++|.+..     +-..+.....++.+++++|
T Consensus        13 ~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~   84 (166)
T d1io0a_          13 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN   84 (166)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS
T ss_pred             HHCCCCCCEEECCCCCCCCHHHHHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHHHCCCCHHHHHCCC
T ss_conf             955999868876899998989999999888419825743015896117789999987752122101210254

>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=92.71  E-value=0.038  Score=25.50  Aligned_cols=26  Identities=31%  Similarity=0.277  Sum_probs=22.1

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             08999992699909999999962524
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      ..+++|.|+.|.|||||++.+.--..
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf             97999999999849999999977976

>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=92.70  E-value=0.031  Score=26.02  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.|+|.+|+|||||...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
T ss_conf             9999999989899999996598

>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=92.67  E-value=0.037  Score=25.60  Aligned_cols=22  Identities=23%  Similarity=0.542  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.++|.+|+|||+|+..+.+..
T Consensus         5 v~liG~~~vGKSsLi~rl~~~~   26 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKGI   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999989959899999998298

>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=92.67  E-value=0.037  Score=25.59  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             999992699909999999962524
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      -++|+|.+|+|||||...+..+..
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~~   30 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGEV   30 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSSC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCC
T ss_conf             999999999899999999967987

>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=92.62  E-value=0.04  Score=25.37  Aligned_cols=27  Identities=22%  Similarity=0.326  Sum_probs=22.5

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             808999992699909999999962524
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDKA  194 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  194 (1277)
                      ...+++|.|+.|.|||||.+.+.--..
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf             997999999999859999999967888

>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=92.59  E-value=0.038  Score=25.49  Aligned_cols=22  Identities=32%  Similarity=0.592  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.|+|.+|+|||+|+..+....
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999939899999998299

>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=92.58  E-value=0.039  Score=25.49  Aligned_cols=22  Identities=27%  Similarity=0.661  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.++|.+|+|||+|+..+.++.
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999989939999999997199

>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=92.55  E-value=0.039  Score=25.44  Aligned_cols=22  Identities=18%  Similarity=0.466  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.++|..|+|||+|+..+.+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999949899999998598

>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=92.54  E-value=0.038  Score=25.49  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      -+.|+|.+|+|||+|...+.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHCC
T ss_conf             99999999919899999997299

>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=92.51  E-value=0.04  Score=25.40  Aligned_cols=21  Identities=33%  Similarity=0.517  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +.++|.+|+|||||...+.++
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999999991989999999739

>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=92.50  E-value=0.039  Score=25.45  Aligned_cols=24  Identities=29%  Similarity=0.538  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      --|.|+|.+|+|||+|+..+.+..
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCC
T ss_conf             799999979969899999997399

>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=92.50  E-value=0.04  Score=25.39  Aligned_cols=22  Identities=27%  Similarity=0.614  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.++|.+|+|||+|...+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999989978999999997398

>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=92.48  E-value=0.044  Score=25.15  Aligned_cols=22  Identities=32%  Similarity=0.523  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.++|..|+|||+|+..+.+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
T ss_conf             9998989939999999981885

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.42  E-value=0.049  Score=24.88  Aligned_cols=25  Identities=44%  Similarity=0.636  Sum_probs=21.9

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8089999926999099999999625
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ..+|..|.|.-|.|||||.+++...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHC
T ss_conf             9788998648889999999999856

>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=92.39  E-value=0.042  Score=25.25  Aligned_cols=22  Identities=27%  Similarity=0.477  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.|+|.+|+|||+|+..+.++.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999989909899999998499

>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=92.38  E-value=0.047  Score=24.96  Aligned_cols=23  Identities=35%  Similarity=0.482  Sum_probs=19.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      .+..|+|.+|+|||+||.+++..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHHHH
T ss_conf             58999928999899999999999

>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=92.36  E-value=0.044  Score=25.15  Aligned_cols=22  Identities=23%  Similarity=0.534  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.|+|.+|+|||+|...+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999989949999999997398

>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=92.30  E-value=0.052  Score=24.72  Aligned_cols=22  Identities=27%  Similarity=0.315  Sum_probs=19.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             8999992699909999999962
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      .+|+|+|..|.||||+|+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             8999979999889999999998

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.29  E-value=0.077  Score=23.69  Aligned_cols=35  Identities=17%  Similarity=0.378  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             69999999711432589980899999269990999999996252
Q 000803          150 DKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       150 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      .++.+.+++.+         +...++|..|+|||||...+..+.
T Consensus        85 g~~~L~~~l~~---------kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          85 GIEELKEYLKG---------KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             THHHHHHHHSS---------SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHHHCC---------CEEEEECCCCCCHHHHHHHHCCHH
T ss_conf             57669999569---------808997889877888877305355

>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=92.27  E-value=0.044  Score=25.17  Aligned_cols=23  Identities=39%  Similarity=0.429  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      -|.|+|..|+|||+|+..+.++.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHCC
T ss_conf             99999989938899999997199

>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=92.26  E-value=0.043  Score=25.18  Aligned_cols=21  Identities=24%  Similarity=0.461  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +.++|.+|+|||+|..++..+
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999998889999988408

>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=92.22  E-value=0.047  Score=24.99  Aligned_cols=23  Identities=43%  Similarity=0.666  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      -+.|+|.+|+|||||...+.++.
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99999999969899999997098

>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=92.17  E-value=0.047  Score=24.99  Aligned_cols=25  Identities=28%  Similarity=0.325  Sum_probs=20.3

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             0899999269990999999996252
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      .--+.|+|.+|+|||+|..++..+.
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCC
T ss_conf             6999999999979999999997498

>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=92.14  E-value=0.046  Score=25.03  Aligned_cols=22  Identities=41%  Similarity=0.536  Sum_probs=19.3

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.|+|..|+|||+|...+.++.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999989999999996499

>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=92.10  E-value=0.047  Score=24.97  Aligned_cols=24  Identities=25%  Similarity=0.486  Sum_probs=19.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      .-|.|+|..|+|||+|...+.++.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCC
T ss_conf             389999989929899999997198

>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=92.08  E-value=0.048  Score=24.89  Aligned_cols=22  Identities=27%  Similarity=0.626  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.++|..|+|||+|...+..+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
T ss_conf             9999989989999999997098

>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=92.06  E-value=0.048  Score=24.94  Aligned_cols=22  Identities=27%  Similarity=0.575  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.|+|.+|+|||||+..+....
T Consensus         9 ivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999909899999996198

>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=92.06  E-value=0.048  Score=24.94  Aligned_cols=22  Identities=36%  Similarity=0.623  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.++|..|+|||+|+..+....
T Consensus         5 i~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999967899999998688

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=92.05  E-value=0.046  Score=25.03  Aligned_cols=26  Identities=27%  Similarity=0.263  Sum_probs=21.6

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             80899999269990999999996252
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ....|.|-|.-|+||||+++.+.+..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC--
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             74299998986778999999999981

>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=92.00  E-value=0.051  Score=24.78  Aligned_cols=22  Identities=23%  Similarity=0.554  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.|+|.+|+|||||...+....
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHCCCC
T ss_conf             9999999989999999980899

>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=91.96  E-value=0.059  Score=24.37  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999926999099999999625
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      .|+|.|..|+|||||...+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999999899999999677

>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=91.95  E-value=0.05  Score=24.82  Aligned_cols=24  Identities=29%  Similarity=0.635  Sum_probs=19.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             0899999269990999999996252
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      .+ |.|+|..|+|||+|...+..+.
T Consensus         6 ~K-i~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           6 YR-LVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EE-EEEEECTTSSHHHHHHHHHHSC
T ss_pred             EE-EEEECCCCCCHHHHHHHHHHCC
T ss_conf             28-9999999979999999997399

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=91.93  E-value=0.074  Score=23.81  Aligned_cols=25  Identities=28%  Similarity=0.420  Sum_probs=21.7

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8089999926999099999999625
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ....|+|+|..|+|||||...+...
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             4769999999999999999999688

>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=91.93  E-value=0.051  Score=24.79  Aligned_cols=21  Identities=24%  Similarity=0.517  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      |.++|..|+|||+|+..+..+
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999990999999999709

>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=91.87  E-value=0.052  Score=24.73  Aligned_cols=22  Identities=32%  Similarity=0.759  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.++|..|+|||+|...+.++.
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999979989999999998098

>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=91.83  E-value=0.052  Score=24.71  Aligned_cols=20  Identities=30%  Similarity=0.556  Sum_probs=17.3

Q ss_pred             EEEEECCCCCCHHHHHHHHH
Q ss_conf             99999269990999999996
Q 000803          171 VIPIVGMGGIGKTTLAREVY  190 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~  190 (1277)
                      -+.+.|.+|+|||+|+..+.
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
T ss_conf             99999899999899999884

>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=91.83  E-value=0.054  Score=24.62  Aligned_cols=22  Identities=14%  Similarity=0.468  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.++|..|+|||+|...+....
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999919899999997299

>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=91.82  E-value=0.055  Score=24.56  Aligned_cols=23  Identities=35%  Similarity=0.368  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +.|+|+|.+|+|||||...+.+.
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
T ss_conf             89999999998899999999679

>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=91.75  E-value=0.051  Score=24.75  Aligned_cols=23  Identities=30%  Similarity=0.562  Sum_probs=19.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      --|.++|.+|+|||||...+...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC
T ss_conf             79999999998999999999648

>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=91.67  E-value=0.068  Score=24.00  Aligned_cols=26  Identities=23%  Similarity=0.174  Sum_probs=21.9

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98089999926999099999999625
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      .+.|-|+|+|.+|.|||||+......
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~   29 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYY   29 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HHCEEEEEEECCCCCHHHHHHHHHHH
T ss_conf             02029999958989989999999996

>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=91.67  E-value=0.057  Score=24.45  Aligned_cols=23  Identities=22%  Similarity=0.521  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      -+.|+|..|+|||||+..+.++.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~~   28 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRNE   28 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHCC
T ss_conf             99999999909899999998299

>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=91.63  E-value=0.059  Score=24.37  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +-|.|+|.+|+|||||...+....
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC
T ss_conf             989999999989899999998099

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.59  E-value=0.058  Score=24.44  Aligned_cols=22  Identities=36%  Similarity=0.496  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.++|..|+|||+|+..+..+.
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999969999999997199

>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=91.57  E-value=0.06  Score=24.36  Aligned_cols=21  Identities=33%  Similarity=0.539  Sum_probs=18.7

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +.|+|.+|+|||+|+..+.+.
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999992999999999719

>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=91.51  E-value=0.06  Score=24.36  Aligned_cols=22  Identities=36%  Similarity=0.389  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.++|..|+|||+|+..+.+..
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999959899999997299

>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=91.45  E-value=0.064  Score=24.17  Aligned_cols=22  Identities=41%  Similarity=0.673  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.++|..|+|||||+..+.+..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999999919899999997198

>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=91.38  E-value=0.067  Score=24.06  Aligned_cols=21  Identities=33%  Similarity=0.536  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      |.++|.+|+|||+|+..+...
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998992999999999728

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=91.26  E-value=0.093  Score=23.20  Aligned_cols=24  Identities=33%  Similarity=0.549  Sum_probs=21.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             089999926999099999999625
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ...|+|+|..|+|||||...+.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             619999979999899999999589

>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=91.25  E-value=0.067  Score=24.04  Aligned_cols=24  Identities=33%  Similarity=0.637  Sum_probs=19.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      --+.|+|.+|+|||+|+..+..+.
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCC
T ss_conf             699999989958899999997299

>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=91.20  E-value=0.048  Score=24.91  Aligned_cols=23  Identities=30%  Similarity=0.470  Sum_probs=20.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             08999992699909999999962
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      ..+++|.|+.|.|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC
T ss_conf             98999998999809999999948

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.20  E-value=0.058  Score=24.44  Aligned_cols=21  Identities=24%  Similarity=0.441  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +.+.|.+|+|||+|..++..+
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999999999889999999679

>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=91.16  E-value=0.071  Score=23.90  Aligned_cols=23  Identities=17%  Similarity=0.338  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      -+.++|..|+|||+|...+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHCC
T ss_conf             99999989978999999997197

>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=91.14  E-value=0.07  Score=23.93  Aligned_cols=22  Identities=36%  Similarity=0.644  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      +.++|.+|+|||+|...+.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999989908899999997199

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=91.13  E-value=0.22  Score=20.97  Aligned_cols=41  Identities=20%  Similarity=0.428  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             569999999711432589980899999269990999999996252
Q 000803          149 EDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       149 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ..+..+.+.+....    ...--|.++|..|+|||||...+....
T Consensus        16 ~~l~e~~~~l~~~~----~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQED----VNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHTT----CCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHCC----CCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99999999986457----787489998999986999999985898

>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=91.09  E-value=0.076  Score=23.74  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=19.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      .-|.|+|.+|+|||||...+...
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC
T ss_conf             79999999998989999999668

>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=91.08  E-value=0.073  Score=23.84  Aligned_cols=25  Identities=28%  Similarity=0.703  Sum_probs=19.8

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             80899999269990999999996252
Q 000803          168 NFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       168 ~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ..+ +.++|..|+|||+|+..+.++.
T Consensus         4 t~K-i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           4 TYK-LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEE-EEEECCTTSSHHHHHHHHHHSS
T ss_pred             CEE-EEEECCCCCCHHHHHHHHHHCC
T ss_conf             579-9999989959899999997098

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.02  E-value=0.071  Score=23.91  Aligned_cols=22  Identities=23%  Similarity=0.460  Sum_probs=18.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             8999992699909999999962
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      .-|.+.|.+|+|||+|+.++..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
T ss_conf             7799998999988999998950

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.97  E-value=0.074  Score=23.79  Aligned_cols=21  Identities=29%  Similarity=0.672  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      |.++|.+|+|||+|+..+.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999997999999999849

>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=90.85  E-value=0.096  Score=23.13  Aligned_cols=22  Identities=36%  Similarity=0.640  Sum_probs=19.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHH
Q ss_conf             0899999269990999999996
Q 000803          169 FAVIPIVGMGGIGKTTLAREVY  190 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~  190 (1277)
                      .|-|+|.|..|.|||||+..+.
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHH
T ss_conf             5099999488980999999999

>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=90.52  E-value=0.087  Score=23.39  Aligned_cols=22  Identities=27%  Similarity=0.462  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9999269990999999996252
Q 000803          172 IPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      |.+.|.+|+|||+|..++....
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHCCC
T ss_conf             9999999989899999997197

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.51  E-value=0.047  Score=25.00  Aligned_cols=21  Identities=38%  Similarity=0.667  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +.++|..|+|||+|...+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999990889999999849

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=90.40  E-value=0.069  Score=23.96  Aligned_cols=26  Identities=42%  Similarity=0.437  Sum_probs=21.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCC
Q ss_conf             89999926999099999999625244
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDKAV  195 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~~~  195 (1277)
                      -.|.|-|.-|+||||+++.+.+....
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             69999888778899999999998734

>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=90.13  E-value=0.071  Score=23.91  Aligned_cols=26  Identities=23%  Similarity=0.396  Sum_probs=20.8

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             980899999269990999999996252
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ...+ +.++|.+|+|||+|...+.+..
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             CEEE-EEEECCCCCCHHHHHHHHHCCC
T ss_conf             7479-9999999987899999984488

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) 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: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.98  E-value=0.15  Score=21.93  Aligned_cols=25  Identities=20%  Similarity=0.325  Sum_probs=21.9

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9808999992699909999999962
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      .+.|-|+|.|..|.|||||+..+..
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCHHHHHHHHHH
T ss_conf             1674899996888869999999999

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=89.91  E-value=0.068  Score=24.00  Aligned_cols=25  Identities=32%  Similarity=0.495  Sum_probs=19.8

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98089999926999099999999625
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ...+ +.++|..|+|||||...+...
T Consensus        16 k~~K-I~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          16 KELR-ILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SCEE-EEEEEETTSSHHHHHHHTCCS
T ss_pred             CEEE-EEEECCCCCCHHHHHHHHHCC
T ss_conf             6689-999999999889999887338

>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=89.91  E-value=0.1  Score=22.90  Aligned_cols=22  Identities=36%  Similarity=0.533  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999926999099999999625
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      -+.++|.+|+|||||...+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999999999999999589

>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=89.90  E-value=0.11  Score=22.77  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999926999099999999625
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      -|+|+|..|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999998899999999689

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=89.74  E-value=0.14  Score=22.23  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=19.9

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             089999926999099999999625
Q 000803          169 FAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       169 ~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      .+-+.|.|..|+||||+|..+..+
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHC
T ss_conf             999999808999989999999985

>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=89.74  E-value=0.12  Score=22.55  Aligned_cols=24  Identities=33%  Similarity=0.549  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             899999269990999999996252
Q 000803          170 AVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      --|+|+|..|+|||||...+....
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~~~   32 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILNKE   32 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC
T ss_conf             889999999999999999997787

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=89.64  E-value=0.3  Score=20.20  Aligned_cols=53  Identities=19%  Similarity=0.171  Sum_probs=32.1

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf             9808999992699909999999962524434588533899993787688999999999820
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDVLSISKALLESIT  227 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~  227 (1277)
                      ...++..|+++.|.|||+++..++..        ....+.+.+....-..+....+.+.+.
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~~--------~~~~vli~~P~~~l~~q~~~~~~~~~~   58 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYAA--------QGYKVLVLNPSVAATLGFGAYMSKAHG   58 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHHT--------TTCCEEEEESCHHHHHHHHHHHHHHHS
T ss_pred             CCCCEEEEEECCCCCHHHHHHHHHHH--------CCCCEEEECCHHHHHHHHHHHHHHHHH
T ss_conf             67888999968877999999999998--------699399976769999999999999852

>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=89.58  E-value=0.069  Score=23.99  Aligned_cols=21  Identities=24%  Similarity=0.426  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      |+|+|..|+|||||...+...
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999899999899999999689

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=89.30  E-value=0.077  Score=23.69  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999926999099999999625
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      -|+|+|.+++|||||...+...
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             6999899998799999999689

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=89.29  E-value=0.16  Score=21.81  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=19.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             8999992699909999999962
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      .-+.|.|..|+||||+|..+..
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             9999981899998999999998

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=89.02  E-value=0.23  Score=20.91  Aligned_cols=23  Identities=26%  Similarity=0.325  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      -+.|.|..|.||||+...+....
T Consensus       168 nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CEEEEEECCCCCHHHHHHHHHHC
T ss_conf             88999403566257899986530

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=88.84  E-value=0.14  Score=22.11  Aligned_cols=22  Identities=23%  Similarity=0.338  Sum_probs=18.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999926999099999999625
Q 000803          171 VIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      -|+++|.+|+|||||..++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999899999899999999688

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.51  E-value=0.082  Score=23.54  Aligned_cols=21  Identities=29%  Similarity=0.532  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999926999099999999625
Q 000803          172 IPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      |.|+|.+|+|||||...+..+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999994999999999709

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=87.96  E-value=0.21  Score=21.12  Aligned_cols=23  Identities=35%  Similarity=0.458  Sum_probs=19.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      .-+.|.|..|+||||+|......
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEECCCCCHHHHHHHHHHC
T ss_conf             99999808999999999999984

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.95  E-value=0.39  Score=19.50  Aligned_cols=114  Identities=14%  Similarity=0.087  Sum_probs=55.9

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCC-----------CCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             9808999992699909999999962524434-----------58853389999378768899999999982078999886
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDKAVED-----------SGKFDVKAWVCVSDDFDVLSISKALLESITSATCDLKT  235 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~-----------~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~  235 (1277)
                      ++.+++.|+|+-+.||||+.+.+.--.-...           -..|+ .++..+....++..-.....          .+
T Consensus        39 ~~~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d-~I~~~~~~~d~~~~~~S~F~----------~E  107 (234)
T d1wb9a2          39 PQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPID-RIFTRVGAADDLASGRSTFM----------VE  107 (234)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCC-EEEEEEC-----------CH----------HH
T ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHHHHHCCCEEECCCEECCCCH-HHEEEECCCCCCCCCHHHHH----------HH
T ss_conf             99539999546731368999987999999872976741766613442-02348746753436531899----------99


Q ss_pred             HHHHHHHHHHHHCCCEEEEEECCCCCCC-HHHH----HHHHCCCCCCCCCCEEEEECCCCCCCC
Q ss_conf             8999999998305963999963755306-7868----762113444999958999805543324
Q 000803          236 VDEVQVQLKKAVDGKRFLLVLDDVWNED-YSLW----VDLKAPFLAAAPNSKMIITTRNSHVAS  294 (1277)
Q Consensus       236 ~~~~~~~l~~~l~~kr~LlvlDdv~~~~-~~~~----~~l~~~l~~~~~~~~iivTtr~~~~~~  294 (1277)
                      ..++...++.  .+++.|+++|.+-.-. ..+-    ..+...+. ...++.+++||.......
T Consensus       108 ~~~~~~il~~--~~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~-~~~~~~~i~tTH~~~l~~  168 (234)
T d1wb9a2         108 MTETANILHN--ATEYSLVLMDEIGRGTSTYDGLSLAWACAENLA-NKIKALTLFATHYFELTQ  168 (234)
T ss_dssp             HHHHHHHHHH--CCTTEEEEEESCCCCSSSSHHHHHHHHHHHHHH-HTTCCEEEEECSCGGGGG
T ss_pred             HHHHHHHHHH--CCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHH-CCCCCEEEEECCHHHHHH
T ss_conf             9999999974--546608853222358774566678987645432-045442898524687764

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=87.30  E-value=0.43  Score=19.26  Aligned_cols=36  Identities=19%  Similarity=0.218  Sum_probs=25.7

Q ss_pred             HHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9999997114325899808999992699909999999962
Q 000803          152 TKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       152 ~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      ..+..+|....    +....+.++|+|+.|||+++..+.+
T Consensus        91 ~~l~~~L~~~~----~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          91 SVFLGWATKKF----GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHTTCS----TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHCCCC----CCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             99999975999----7617999985898877899999999

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=86.29  E-value=0.24  Score=20.75  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ++|+|.|..++|||||+..+...
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHHHH
T ss_conf             87999969985499999999823

>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=86.22  E-value=0.18  Score=21.52  Aligned_cols=26  Identities=15%  Similarity=0.219  Sum_probs=20.9

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98089999926999099999999625
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      ....-|+|+|.+++|||||...+...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             66978999889999899999998589

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.21  E-value=0.43  Score=19.22  Aligned_cols=22  Identities=18%  Similarity=0.395  Sum_probs=18.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             8999992699909999999962
Q 000803          170 AVIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      --|+|+|..|+|||||...+..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
T ss_conf             1799989999978999999958

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=85.94  E-value=0.35  Score=19.78  Aligned_cols=38  Identities=8%  Similarity=0.033  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             6999999971143258998089999926999099999999625
Q 000803          150 DKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       150 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      -+..+..+|...     +....+.++|+++.|||.+|..+.+-
T Consensus        39 Fl~~l~~~l~~~-----PKkn~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          39 FLGALKSFLKGT-----PKKNCLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             HHHHHHHHHHTC-----TTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCC-----CCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             999999997389-----87318999889985689999999998

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal 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: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.44  E-value=0.53  Score=18.68  Aligned_cols=27  Identities=30%  Similarity=0.452  Sum_probs=23.7

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             980899999269990999999996252
Q 000803          167 ANFAVIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       167 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      ..+.||+|+|+-+.|||+|+..++...
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHCCCC
T ss_conf             987999988999997999999980998

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=84.24  E-value=0.49  Score=18.88  Aligned_cols=17  Identities=29%  Similarity=0.419  Sum_probs=14.0

Q ss_pred             EEEECCCCCCHHHHHHH
Q ss_conf             99992699909999999
Q 000803          172 IPIVGMGGIGKTTLARE  188 (1277)
Q Consensus       172 i~I~G~~GiGKTtLa~~  188 (1277)
                      +.|.|.+|.||||.+.+
T Consensus        27 ~lV~g~aGSGKTt~l~~   43 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLTH   43 (318)
T ss_dssp             EEEEECTTSCHHHHHHH
T ss_pred             EEEEECCCCCHHHHHHH
T ss_conf             89995298668999999

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal 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: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=83.92  E-value=0.41  Score=19.38  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99999269990999999996252
Q 000803          171 VIPIVGMGGIGKTTLAREVYNDK  193 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~~~  193 (1277)
                      -++|+|.+.+|||||-..+-+..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
T ss_conf             48888999998899999997799

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=83.79  E-value=0.12  Score=22.59  Aligned_cols=23  Identities=22%  Similarity=0.478  Sum_probs=18.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             89999926999099999999625
Q 000803          170 AVIPIVGMGGIGKTTLAREVYND  192 (1277)
Q Consensus       170 ~vi~I~G~~GiGKTtLa~~~~~~  192 (1277)
                      +...+.|..|+|||||...+..+
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHHCCH
T ss_conf             64999877873487898751517

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), 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 Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=82.97  E-value=0.41  Score=19.38  Aligned_cols=21  Identities=29%  Similarity=0.303  Sum_probs=18.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHC
Q ss_conf             999992699909999999962
Q 000803          171 VIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      -|+|.|..+.|||||+.++..
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~   25 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTY   25 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCHHHHHHHHHH
T ss_conf             999994789849999999999

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=81.92  E-value=0.75  Score=17.80  Aligned_cols=123  Identities=11%  Similarity=0.142  Sum_probs=58.4

Q ss_pred             CCCCCH-HHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCH--HHHH
Q ss_conf             213504-5699999997114325899808999992699909999999962524434588533899993787688--9999
Q 000803          143 VVFGRE-EDKTKILEMVLTDTAADHANFAVIPIVGMGGIGKTTLAREVYNDKAVEDSGKFDVKAWVCVSDDFDV--LSIS  219 (1277)
Q Consensus       143 ~~vGr~-~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~~~f~~~~wv~~~~~~~~--~~~~  219 (1277)
                      .-.|.. ...+.+.+.+.       ...+++.|.|+.|.||||....+.+.....   . ..+  +++-++...  ... 
T Consensus       138 ~~LG~~~~~~~~l~~l~~-------~~~GliLvtGpTGSGKSTTl~~~l~~~~~~---~-~~i--~tiEdPiE~~~~~~-  203 (401)
T d1p9ra_         138 HSLGMTAHNHDNFRRLIK-------RPHGIILVTGPTGSGKSTTLYAGLQELNSS---E-RNI--LTVEDPIEFDIDGI-  203 (401)
T ss_dssp             GGSCCCHHHHHHHHHHHT-------SSSEEEEEECSTTSCHHHHHHHHHHHHCCT---T-SCE--EEEESSCCSCCSSS-
T ss_pred             HHHCCCHHHHHHHHHHHH-------HHHCEEEEECCCCCCCCHHHHHHHHHHCCC---C-CEE--EEECCCCCCCCCCC-
T ss_conf             430135777899999986-------410548987678777447799986662578---7-469--99626743456788-


Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCEEEEECCCCC
Q ss_conf             999998207899988689999999983059639999637553067868762113444999958999805543
Q 000803          220 KALLESITSATCDLKTVDEVQVQLKKAVDGKRFLLVLDDVWNEDYSLWVDLKAPFLAAAPNSKMIITTRNSH  291 (1277)
Q Consensus       220 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~~~l~~~l~~~~~~~~iivTtr~~~  291 (1277)
                          .+...   ...........++..++..+=.|++..+.+.+..     ...+.-...|..|+.|-.-.+
T Consensus       204 ----~q~~v---~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~~ta-----~~a~~aa~tGhlV~tTlHa~~  263 (401)
T d1p9ra_         204 ----GQTQV---NPRVDMTFARGLRAILRQDPDVVMVGEIRDLETA-----QIAVQASLTGHLVMSTLHTNT  263 (401)
T ss_dssp             ----EEEEC---BGGGTBCHHHHHHHHGGGCCSEEEESCCCSHHHH-----HHHHHHHHTTCEEEEEECCSS
T ss_pred             ----CEEEE---CCCCCCCHHHHHHHHHHHCCCEEEECCCCCHHHH-----HHHHHHHHCCCEEEEEECCCC
T ss_conf             ----70265---5876779999999998413888984576875999-----999999724985899833676

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=80.17  E-value=0.62  Score=18.30  Aligned_cols=21  Identities=33%  Similarity=0.371  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHC
Q ss_conf             999992699909999999962
Q 000803          171 VIPIVGMGGIGKTTLAREVYN  191 (1277)
Q Consensus       171 vi~I~G~~GiGKTtLa~~~~~  191 (1277)
                      -|+|+|..++|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCHHHHHHHHHH
T ss_conf             999990778709999999997